Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 380 of 410
Found at i:115638235 original size:21 final size:21
Alignment explanation
Indices: 115638206--115638248 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
115638196 TTCGGCTTCT
115638206 GCCGCAGCTAAGAAACCAGCC
1 GCCGCAGCTAAGAAACCAGCC
* *
115638227 GCCGTAGCTAAGAAACCTGCC
1 GCCGCAGCTAAGAAACCAGCC
115638248 G
1 G
115638249 TCGCGAAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.35, G:0.26, T:0.09
Consensus pattern (21 bp):
GCCGCAGCTAAGAAACCAGCC
Found at i:115639799 original size:21 final size:22
Alignment explanation
Indices: 115639773--115639814 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
115639763 GCATTCTTAG
115639773 GTGTA-TGTCTCAAGACATGAA
1 GTGTATTGTCTCAAGACATGAA
*
115639794 GTGTATTGTCTCGAGACATGA
1 GTGTATTGTCTCAAGACATGA
115639815 TTTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (22 bp):
GTGTATTGTCTCAAGACATGAA
Found at i:115647882 original size:29 final size:31
Alignment explanation
Indices: 115647827--115647894 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 31
115647817 TTTAATATTT
** *
115647827 TTTTCTTAATTTAGTATTTAAATTTGAC-CA
1 TTTTCTTAATTTAGTACATAAACTTGACACA
*
115647857 TTTT-TTAATTTAGTACATGAACTTGACACA
1 TTTTCTTAATTTAGTACATAAACTTGACACA
115647887 TTTTCTTA
1 TTTTCTTA
115647895 TCAAAAGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 19 0.59
30 10 0.31
31 3 0.09
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTTCTTAATTTAGTACATAAACTTGACACA
Found at i:115648067 original size:31 final size:31
Alignment explanation
Indices: 115648032--115648102 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
115648022 ATTTTTATTC
* * *
115648032 AATTTGATAC-TTAGACTTGACATATTTTCTT
1 AATTTGATACATGA-ACTTGACACAATTTCTT
*
115648063 AATTTGGTACATGAACTTGACACAATTTCTT
1 AATTTGATACATGAACTTGACACAATTTCTT
115648094 AATTTGATA
1 AATTTGATA
115648103 TTTTTAAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (31 bp):
AATTTGATACATGAACTTGACACAATTTCTT
Found at i:115648250 original size:32 final size:30
Alignment explanation
Indices: 115648175--115648265 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 30
115648165 CATTGCTAGT
* **
115648175 TTAAGTACTAAATTAGGAAAAAGTATTAAG
1 TTAAGTAATAAATTAGGAAAAAAAATTAAG
* *
115648205 TTTAGATATTAAATTAGGAAAAAAAATTCAAG
1 TTAAG-TAATAAATTAGGAAAAAAAATT-AAG
* *
115648237 TTCAAGTAATAAATTGGGCCAAAAAAATT
1 TT-AAGTAATAAATTAGG-AAAAAAAATT
115648266 TAGGTATCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
30 4 0.08
31 19 0.39
32 15 0.31
33 11 0.22
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (30 bp):
TTAAGTAATAAATTAGGAAAAAAAATTAAG
Found at i:115654586 original size:12 final size:12
Alignment explanation
Indices: 115654569--115654593 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
115654559 TAGAATGTCA
115654569 TTTGTATATTCT
1 TTTGTATATTCT
115654581 TTTGTATATTCT
1 TTTGTATATTCT
115654593 T
1 T
115654594 ATATGGTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTGTATATTCT
Found at i:115654834 original size:16 final size:15
Alignment explanation
Indices: 115654813--115654851 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
115654803 TTAAACTTTA
115654813 TATTTTATGTATTATT
1 TATTTTATGTA-TATT
*
115654829 TATTTTTATTTATATT
1 TA-TTTTATGTATATT
115654845 TATTTTA
1 TATTTTA
115654852 CGATCTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 8 0.38
17 8 0.38
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TATTTTATGTATATT
Found at i:115657330 original size:19 final size:19
Alignment explanation
Indices: 115657307--115657355 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
115657297 CGCATTTCTT
115657307 TCATTTGCATT-CATTCCA
1 TCATTTGCATTGCATTCCA
*
115657325 TGCATTTGCATTGCATTGCA
1 T-CATTTGCATTGCATTCCA
115657345 TCATTTGCATT
1 TCATTTGCATT
115657356 AGATTTTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 1 0.04
19 20 0.71
20 7 0.25
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (19 bp):
TCATTTGCATTGCATTCCA
Found at i:115659290 original size:3 final size:3
Alignment explanation
Indices: 115659282--115659349 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
115659272 GCATATTCAT
115659282 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
115659330 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
115659350 TATTTTAAAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:115659573 original size:2 final size:2
Alignment explanation
Indices: 115659532--115659556 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
115659522 TTAAATTGTT
115659532 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 T
115659557 GCATCTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:115659813 original size:21 final size:22
Alignment explanation
Indices: 115659780--115659827 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
115659770 ACCTATTATC
115659780 TATTTAGAATTGTCTCATTGTT
1 TATTTAGAATTGTCTCATTGTT
*
115659802 TATTTA-AATTGTCTTATTGTT
1 TATTTAGAATTGTCTCATTGTT
*
115659823 CATTT
1 TATTT
115659828 TATTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.23, C:0.08, G:0.10, T:0.58
Consensus pattern (22 bp):
TATTTAGAATTGTCTCATTGTT
Found at i:115660496 original size:254 final size:254
Alignment explanation
Indices: 115660046--115660512 Score: 702
Period size: 254 Copynumber: 1.8 Consensus size: 254
115660036 GTTTTATTCA
* * * *
115660046 AAACAAGGTAATATTTCGTGTTTGAAAATTTCGAGAGATTGTGCCCTACGTGTTGGGTTTTGATT
1 AAACAAGGCAATATTTCGTGTTCGAAAATTTCGAGAAATTGTGCCCTACGTGTTGGGTTTCGATT
* * * * *
115660111 TGTCGTTTGACTGAACAACCAAATATCTTTTTTAAAATTTCAATACATGAGTTTCAGAAATTATG
66 TATCGTTTGACCGAACAACCAAATATCCTTTTTAAAATTTCAATACATAAATTTCAGAAATTATG
* * *
115660176 AGATGATTTTGGTATCGAAGGTTTGAAATATCGTGTCCTACGTGTTGGATGTGATATTTTATTTC
131 AGATGATTTTGATATCGAAGGTTTGAAATATCGTGTCCTACGTGCTGGATGTGATATTTCATTTC
115660241 TTCGAAACAAGAGAATCTTAATCGCTTCATACTATTACATTTTTATTCAAGATTTTTGT
196 TTCGAAACAAGAGAATCTTAATCGCTTCATACTATTACATTTTTATTCAAGATTTTTGT
*
115660300 AAACAAGGCAATATTTCGTGTTCGAAAATTTCGAGAAATTGTGCCCTATGTGTTGGGTTTCGATT
1 AAACAAGGCAATATTTCGTGTTCGAAAATTTCGAGAAATTGTGCCCTACGTGTTGGGTTTCGATT
* * * * * * *
115660365 TATCGTTTGACCGAACGACCAAGTATCCTTTTTAAATTTTGAATGCATAAA-TTCTGGGAATTAT
66 TATCGTTTGACCGAACAACCAAATATCCTTTTTAAAATTTCAATACATAAATTTC-AGAAATTAT
* * *
115660429 GAGATGATTTTGATATCGAAGGTTTGAAATGTTGTGTCCTACGTGCTGGATGTGATGTTTCATTT
130 GAGATGATTTTGATATCGAAGGTTTGAAATATCGTGTCCTACGTGCTGGATGTGATATTTCATTT
*
115660494 CTTCGAAATAAGAGAATCT
195 CTTCGAAACAAGAGAATCT
115660513 CAATATTCAC
Statistics
Matches: 188, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
253 3 0.02
254 185 0.98
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.39
Consensus pattern (254 bp):
AAACAAGGCAATATTTCGTGTTCGAAAATTTCGAGAAATTGTGCCCTACGTGTTGGGTTTCGATT
TATCGTTTGACCGAACAACCAAATATCCTTTTTAAAATTTCAATACATAAATTTCAGAAATTATG
AGATGATTTTGATATCGAAGGTTTGAAATATCGTGTCCTACGTGCTGGATGTGATATTTCATTTC
TTCGAAACAAGAGAATCTTAATCGCTTCATACTATTACATTTTTATTCAAGATTTTTGT
Found at i:115664721 original size:44 final size:42
Alignment explanation
Indices: 115664666--115664888 Score: 106
Period size: 42 Copynumber: 5.2 Consensus size: 42
115664656 TTGAAGTTGC
* *
115664666 AGTGGAACAGATCGAAGACGGCGAATCCTATCTCCCTAACCAGT
1 AGTGGAGCAGATCGAAGAC-AC-AATCCTATCTCCCTAACCAGT
** * * *
115664710 AGTGGAGCAGATTTAAGTCACCATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCGAAGACACAATCCTATCTCCCTAACCAGT
* * * ** * * *** *
115664752 AGTGGAGTAG-GCTAAGATTGCAGATCTTGTCTCCCTGAAGTTGC
1 AGTGGAGCAGATCGAAGA-CACA-ATCCTATCTCCCT-AACCAGT
* * * ** *
115664796 AGTGAAACAGATCGAAGACGACGAATCTTGCCTTCCTAACCAGT
1 AGTGGAGCAGATCGAAGAC-AC-AATCCTATCTCCCTAACCAGT
** * * **
115664840 AGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGT
1 AGTGGAGCAGATCGAAGACACAATCCTATCTCCCTAACCAGT
115664882 AGTGGAG
1 AGTGGAG
115664889 TAGGCTGAAG
Statistics
Matches: 129, Mismatches: 44, Indels: 14
0.69 0.24 0.07
Matches are distributed among these distances:
41 4 0.03
42 50 0.39
43 14 0.11
44 43 0.33
45 17 0.13
46 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (42 bp):
AGTGGAGCAGATCGAAGACACAATCCTATCTCCCTAACCAGT
Found at i:115664835 original size:130 final size:131
Alignment explanation
Indices: 115664467--115664942 Score: 765
Period size: 131 Copynumber: 3.6 Consensus size: 131
115664457 CTGAGGATTG
115664467 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
1 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
* * * *
115664532 TGCAGTGGAATAGATCGAAGACGACGAATCTTGTCTCCCTAATCAGTAATGGGGCAGATTTAAGT
66 TGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
115664597 C
131 C
* * * *
115664598 ACCATCCTATCTTCCTAAGCAGTAGTGGAATAGGCTGAAGATTGCAGATCTTGTCTCCTTGAAGT
1 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
* * *
115664663 TGCAGTGGAACAGATCGAAGACGGCGAATCCTATCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
66 TGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
115664728 C
131 C
*
115664729 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCT-AAGATTGCAGATCTTGTCTCCCTGAAGT
1 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
* * * *
115664793 TGCAGTGAAACAGATCGAAGACGACGAATCTTGCCTTCCTAACCAGTAGTGGAGCAGATTTAAGC
66 TGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
115664858 C
131 C
* * *
115664859 ACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTTTTCCTGAAGT
1 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
*
115664924 TGTAGTGGAACAGATCGAA
66 TGCAGTGGAACAGATCGAA
115664943 TACGGTGAGC
Statistics
Matches: 317, Mismatches: 27, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
130 121 0.38
131 196 0.62
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (131 bp):
ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
TGCAGTGGAACAGATCGAAGACGACGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
C
Found at i:115664933 original size:261 final size:262
Alignment explanation
Indices: 115664467--115664947 Score: 795
Period size: 261 Copynumber: 1.8 Consensus size: 262
115664457 CTGAGGATTG
115664467 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
1 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
* * * * * *
115664532 TGCAGTGGAATAGATCGAAGACGACGAATCTTGTCTCCCTAATCAGTAATGGGGCAGATTTAAGT
66 TGCAGTGAAACAGATCGAAGACGACGAATCTTGCCTCCCTAACCAGTAATGGAGCAGATTTAAGC
* *
115664597 CACCATCCTATCTTCCTAAGCAGTAGTGGAATAGGCTGAAGATTGCAGATCTTGTCTCCTTGAAG
131 CACCATCCTATCTCCCTAAGCAGTAGTGGAATAGGCTGAAGATTACAGATCTTGTCTCCTTGAAG
115664662 TTGCAGTGGAACAGATCGAAGACGGCGAATCCTATCTCCCTAACCAGTAGTGGAGCAGATTTAAG
196 TTGCAGTGGAACAGATCGAAGACGGCGAATCCTATCTCCCTAACCAGTAGTGGAGCAGATTTAAG
115664727 TC
261 TC
*
115664729 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCT-AAGATTGCAGATCTTGTCTCCCTGAAGT
1 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
* *
115664793 TGCAGTGAAACAGATCGAAGACGACGAATCTTGCCTTCCTAACCAGTAGTGGAGCAGATTTAAGC
66 TGCAGTGAAACAGATCGAAGACGACGAATCTTGCCTCCCTAACCAGTAATGGAGCAGATTTAAGC
* * *
115664858 CACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTTTTCC-TGAA
131 CACCATCCTATCTCCCTAAGCAGTAGTGGAATAGGCTGAAGATTACAGATCTTG-TCTCCTTGAA
* *
115664922 GTTGTAGTGGAACAGATCGAATACGG
195 GTTGCAGTGGAACAGATCGAAGACGG
115664948 TGAGCCTTAA
Statistics
Matches: 202, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
261 162 0.80
262 40 0.20
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (262 bp):
ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
TGCAGTGAAACAGATCGAAGACGACGAATCTTGCCTCCCTAACCAGTAATGGAGCAGATTTAAGC
CACCATCCTATCTCCCTAAGCAGTAGTGGAATAGGCTGAAGATTACAGATCTTGTCTCCTTGAAG
TTGCAGTGGAACAGATCGAAGACGGCGAATCCTATCTCCCTAACCAGTAGTGGAGCAGATTTAAG
TC
Found at i:115665055 original size:88 final size:88
Alignment explanation
Indices: 115664890--115665120 Score: 275
Period size: 88 Copynumber: 2.6 Consensus size: 88
115664880 GTAGTGGAGT
* * * * ** * * * *
115664890 AGGCTGAAGATTACAGATCTTGTTTTCCTGAAGTTGTAGTGGAACAGATCGAATACGGTGAGCCT
1 AGGCTGAAAATTACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCAAAGACGATGAGCCT
* * *
115664955 TAACCCCCTAAGCAGTAGGGTTAC
65 TAACCACCTAAGCAGTAGGATAAC
*
115664979 AGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGATGAGCCTT
1 AGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGATGAGCCTT
115665044 AACCACCTAAGCAGTAGGATAAC
66 AACCACCTAAGCAGTAGGATAAC
** * *
115665067 AGGCT-AGAAATTGTAGAGCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGA
1 AGGCTGA-AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
115665121 TAACAAATCT
Statistics
Matches: 122, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
87 1 0.01
88 96 0.79
89 25 0.20
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (88 bp):
AGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGATGAGCCTT
AACCACCTAAGCAGTAGGATAAC
Found at i:115665192 original size:42 final size:43
Alignment explanation
Indices: 115665087--115665197 Score: 116
Period size: 44 Copynumber: 2.6 Consensus size: 43
115665077 TTGTAGAGCT
* * *
115665087 TATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATAACAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAAC-AATCC
* * * ** * *
115665131 TGTCTCTCTAAGCAATAGTGGAGCAGATTTAAGCCATC-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAACAATCC
115665173 TATCTCCCTAAGCAGTAGTGGAGCA
1 TATCTCCCTAAGCAGTAGTGGAGCA
115665198 AGTTGAAATC
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 25 0.46
44 29 0.54
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAACAATCC
Found at i:115665480 original size:44 final size:44
Alignment explanation
Indices: 115665430--115665565 Score: 141
Period size: 44 Copynumber: 3.0 Consensus size: 44
115665420 GAGAATAGCG
*
115665430 AATCATATCTCTCTGAAGTTACAGTAGAGCAGAGTAAAGCTATA
1 AATCATATCTCTCTGAAGTTGCAGTAGAGCAGAGTAAAGCTATA
* * * * * * *
115665474 AATCATATTTCCCTAAAGTTGCAGTGGAGCGGA-TCGAAGATAGTA
1 AATCATATCTCTCTGAAGTTGCAGTAGAGCAGAGT-AAAGCTA-TA
*
115665519 AAT-ATTATCTCTCTGAAATTGCAGTAGAGCAGAGTTAAAGCTATA
1 AATCA-TATCTCTCTGAAGTTGCAGTAGAGCAGAG-TAAAGCTATA
115665564 AA
1 AA
115665566 CCTTATCCCC
Statistics
Matches: 71, Mismatches: 16, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
43 1 0.01
44 33 0.46
45 31 0.44
46 5 0.07
47 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCATATCTCTCTGAAGTTGCAGTAGAGCAGAGTAAAGCTATA
Found at i:115665572 original size:45 final size:45
Alignment explanation
Indices: 115665430--115665572 Score: 130
Period size: 45 Copynumber: 3.2 Consensus size: 45
115665420 GAGAATAGCG
* * *
115665430 AATCATATCTCTCTGAAGTTACAGTAGAGCAGAG-TAAAGCTATA
1 AATCTTATCTCTCTGAAATTGCAGTAGAGCAGAGTTAAAGCTATA
* * * * * ** *
115665474 AATCATATTTCCCT-AAAGTTGCAGTGGAGCGGA-TCGAAGATAGTA
1 AATCTTATCTCTCTGAAA-TTGCAGTAGAGCAGAGTTAAAGCTA-TA
*
115665519 AATATTATCTCTCTGAAATTGCAGTAGAGCAGAGTTAAAGCTATA
1 AATCTTATCTCTCTGAAATTGCAGTAGAGCAGAGTTAAAGCTATA
*
115665564 AACCTTATC
1 AATCTTATC
115665573 CCCTTGATGT
Statistics
Matches: 74, Mismatches: 20, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
43 2 0.03
44 29 0.39
45 34 0.46
46 9 0.12
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCTCTGAAATTGCAGTAGAGCAGAGTTAAAGCTATA
Found at i:115665661 original size:134 final size:132
Alignment explanation
Indices: 115665479--115665769 Score: 350
Period size: 134 Copynumber: 2.2 Consensus size: 132
115665469 CTATAAATCA
* * * *
115665479 TATTTCCCTAAAGTTGCAGTGGAGCGGATCGAAGATAGTAAATATTATCTCTCTGAAATTGCAGT
1 TATTTCCCTGAAGTTGCAGTAGAGCGGATAGAAGATAGTAAATATTATCTCCCTGAAATTGCAG-
* * ** * *
115665544 A-GAGCAGAGTTAAAGCTATAAACCTTATCCCCTTGATGTTGCAGTGGGGCAGGTTGAAGTTACA
65 AGGAGCAGA-TTAAAGCCACAAACCTTATCCCC-TGAAATTACAGTGGGGCAAGTTGAAGTTACA
*
115665608 TGTCT
128 AGTCT
* * * * *
115665613 TATTTCCCTGAAGTTGCAGTAGAGCGGATAGAAGATGGTGAATCTTATCTCCCTGAAGTTGTAGA
1 TATTTCCCTGAAGTTGCAGTAGAGCGGATAGAAGATAGTAAATATTATCTCCCTGAAATTGCAGA
* * * *
115665678 GGAGTAGATTGAAGCCACAAACCTTATCCTCTGAAATTACAGTGGGGTAAGTTGAAGTTACAAGT
66 GGAGCAGATTAAAGCCACAAACCTTATCCCCTGAAATTACAGTGGGGCAAGTTGAAGTTACAAGT
*
115665743 TT
131 CT
*
115665745 TATCTCCCTGAAGTTGCAGTAGAGC
1 TATTTCCCTGAAGTTGCAGTAGAGC
115665770 AGACTGAAGA
Statistics
Matches: 134, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
132 53 0.40
133 20 0.15
134 61 0.46
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (132 bp):
TATTTCCCTGAAGTTGCAGTAGAGCGGATAGAAGATAGTAAATATTATCTCCCTGAAATTGCAGA
GGAGCAGATTAAAGCCACAAACCTTATCCCCTGAAATTACAGTGGGGCAAGTTGAAGTTACAAGT
CT
Found at i:115667919 original size:12 final size:12
Alignment explanation
Indices: 115667902--115667926 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
115667892 TAGAATGTCA
115667902 TTTGTATATTCT
1 TTTGTATATTCT
115667914 TTTGTATATTCT
1 TTTGTATATTCT
115667926 T
1 T
115667927 ATATGGTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTGTATATTCT
Found at i:115668167 original size:16 final size:15
Alignment explanation
Indices: 115668146--115668184 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
115668136 TTAAACTTTA
115668146 TATTTTATGTATTATT
1 TATTTTAT-TATTATT
*
115668162 TATTTTTATTTTTATT
1 TA-TTTTATTATTATT
115668178 TATTTTA
1 TATTTTA
115668185 CGATCTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 10 0.48
17 6 0.29
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TATTTTATTATTATT
Found at i:115671532 original size:15 final size:15
Alignment explanation
Indices: 115671487--115671534 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 15
115671477 TATTAATGAT
115671487 TTAATAATAAATATGTA
1 TTAATAATAAATA--TA
*
115671504 TTACAATTATAAATATA
1 TT--AATAATAAATATA
115671521 TTAATAATAAATAT
1 TTAATAATAAATAT
115671535 TTTATAGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 11 0.41
17 6 0.22
19 10 0.37
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
TTAATAATAAATATA
Found at i:115672364 original size:2 final size:2
Alignment explanation
Indices: 115672357--115672385 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
115672347 GGTAAAGATT
115672357 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 T
115672386 TTAATTACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:115674023 original size:2 final size:2
Alignment explanation
Indices: 115674016--115674050 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
115674006 GAGATTGTTC
115674016 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 T
115674051 TAATATGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:115674405 original size:27 final size:28
Alignment explanation
Indices: 115674373--115674441 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 28
115674363 AAATACAGTG
115674373 TTTTTATAACATAATTTATTTTGTCTAT
1 TTTTTATAACATAATTTATTTTGTCTAT
115674401 TTTTATAATCTGAACATAATTTATTTTGTCTA-
1 TTTT-T-A--T-AACATAATTTATTTTGTCTAT
115674433 TTTTTATAA
1 TTTTTATAA
115674442 TCTGAGTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
27 2 0.06
28 5 0.14
29 1 0.03
30 2 0.06
31 1 0.03
32 5 0.14
33 20 0.56
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.58
Consensus pattern (28 bp):
TTTTTATAACATAATTTATTTTGTCTAT
Found at i:115674418 original size:33 final size:33
Alignment explanation
Indices: 115674380--115674446 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
115674370 GTGTTTTTAT
115674380 AACATAATTTATTTTGTCTATTTTTATAATCTG
1 AACATAATTTATTTTGTCTATTTTTATAATCTG
115674413 AACATAATTTATTTTGTCTATTTTTATAATCTG
1 AACATAATTTATTTTGTCTATTTTTATAATCTG
115674446 A
1 A
115674447 GTTTTGATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (33 bp):
AACATAATTTATTTTGTCTATTTTTATAATCTG
Found at i:115676279 original size:16 final size:18
Alignment explanation
Indices: 115676248--115676280 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
115676238 TTTTTTTAAA
115676248 AAAATTGTTACTAATTTT
1 AAAATTGTTACTAATTTT
115676266 AAAATT-TT-CTAATTT
1 AAAATTGTTACTAATTT
115676281 ACTTTCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (18 bp):
AAAATTGTTACTAATTTT
Found at i:115679138 original size:22 final size:23
Alignment explanation
Indices: 115679113--115679177 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
115679103 TATTGAAAAT
*
115679113 ACATGTTCATAATATATA-TAAA
1 ACATATTCATAATATATATTAAA
115679135 ACATATAT-ATAATATAATATTAAA
1 ACATAT-TCATAATAT-ATATTAAA
*
115679159 ACATTTTACATAATATATA
1 ACATATT-CATAATATATA
115679178 CACATATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 12 0.33
23 5 0.14
24 12 0.33
25 7 0.19
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (23 bp):
ACATATTCATAATATATATTAAA
Found at i:115679171 original size:25 final size:23
Alignment explanation
Indices: 115679120--115679175 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 23
115679110 AATACATGTT
115679120 CATAATAT-ATATAAAACATATA
1 CATAATATAATATAAAACATATA
* *
115679142 TATAATATAATATTAAAACATTTTA
1 CATAATATAATA-TAAAACA-TATA
115679167 CATAATATA
1 CATAATATA
115679176 TACACATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.25
23 3 0.11
24 7 0.25
25 11 0.39
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (23 bp):
CATAATATAATATAAAACATATA
Found at i:115679604 original size:2 final size:2
Alignment explanation
Indices: 115679597--115679639 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
115679587 CCTATACGTA
* * * *
115679597 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AC AT AA AA 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
115679639 A
1 A
115679640 AACATTGGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:115679778 original size:3 final size:3
Alignment explanation
Indices: 115679770--115679847 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
115679760 ACAAAAGTAC
115679770 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
115679818 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
115679848 TGAAAATAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:115686110 original size:22 final size:23
Alignment explanation
Indices: 115686085--115686149 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
115686075 TATTGAAAAT
*
115686085 ACATGTTCATAATATATA-TAAA
1 ACATATTCATAATATATATTAAA
115686107 ACATATAT-ATAATATAATATTAAA
1 ACATAT-TCATAATAT-ATATTAAA
*
115686131 ACATTTTACATAATATATA
1 ACATATT-CATAATATATA
115686150 CACATATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 12 0.33
23 5 0.14
24 12 0.33
25 7 0.19
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (23 bp):
ACATATTCATAATATATATTAAA
Found at i:115686143 original size:25 final size:23
Alignment explanation
Indices: 115686092--115686147 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 23
115686082 AATACATGTT
115686092 CATAATAT-ATATAAAACATATA
1 CATAATATAATATAAAACATATA
* *
115686114 TATAATATAATATTAAAACATTTTA
1 CATAATATAATA-TAAAACA-TATA
115686139 CATAATATA
1 CATAATATA
115686148 TACACATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.25
23 3 0.11
24 7 0.25
25 11 0.39
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (23 bp):
CATAATATAATATAAAACATATA
Found at i:115686631 original size:3 final size:3
Alignment explanation
Indices: 115686623--115686650 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
115686613 TAAACATTGG
115686623 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
115686651 GTTGAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:115686759 original size:3 final size:3
Alignment explanation
Indices: 115686751--115686816 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
115686741 ACAAAAGTAC
115686751 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
115686799 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
115686817 TGAAAATAAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:115687502 original size:13 final size:14
Alignment explanation
Indices: 115687486--115687518 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
115687476 GCGAAAATAG
115687486 GAAGAAAAA-AAAA
1 GAAGAAAAATAAAA
115687499 GAAGAAAAATAAAA
1 GAAGAAAAATAAAA
115687513 -AAGAAA
1 GAAGAAA
115687519 CCTTTTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (14 bp):
GAAGAAAAATAAAA
Found at i:115689799 original size:37 final size:37
Alignment explanation
Indices: 115689747--115689817 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
115689737 TTGTTATTAA
* *
115689747 ATTTTAATAGGATTATTTTTAAAAATAATTTAATCAT
1 ATTTTAATAGAATTATTATTAAAAATAATTTAATCAT
* *
115689784 ATTTTAATATAATTATTATTAAATATAATTTAAT
1 ATTTTAATAGAATTATTATTAAAAATAATTTAAT
115689818 AAAAAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (37 bp):
ATTTTAATAGAATTATTATTAAAAATAATTTAATCAT
Found at i:115692388 original size:169 final size:169
Alignment explanation
Indices: 115692108--115692441 Score: 578
Period size: 169 Copynumber: 2.0 Consensus size: 169
115692098 ATGGCATGTA
*
115692108 AAGCACCCTTAACTTACCTCGTCAAGGACAATTGTTGAACTCTTTCGTGCATGGCTCACATGTAA
1 AAGCACCCTTAACTTACCTCATCAAGGACAATTGTTGAACTCTTTCGTGCATGGCTCACATGTAA
* * * *
115692173 ACCTCACTAAGCTTACTTTTAGATTTCATCCCATCACCACTCACCTAGAAGTTACTTTGTCCCCC
66 ACCTCACTAAGCCTACCTTTAGATTTCATCCCATCACCACTCACCTAGAAATTACTTTGTCCCCA
115692238 AAGAGACTGATGACCTTGATAGGACATGTACTATACATG
131 AAGAGACTGATGACCTTGATAGGACATGTACTATACATG
* *
115692277 AAGCACCCTTAACTTACCTCATCAAGGACAATTGTTGAACTCTTTCGTGCATGGCTCGCATGTAG
1 AAGCACCCTTAACTTACCTCATCAAGGACAATTGTTGAACTCTTTCGTGCATGGCTCACATGTAA
* *
115692342 ACCTCACTAAGCCTACCTTTAGATTTCATCTCATCACCATTCACCTAGAAATTACTTTGTCCCCA
66 ACCTCACTAAGCCTACCTTTAGATTTCATCCCATCACCACTCACCTAGAAATTACTTTGTCCCCA
*
115692407 AAGAGACTGATGACCTTGATGGGACATGTACTATA
131 AAGAGACTGATGACCTTGATAGGACATGTACTATA
115692442 AATATGTCCA
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
169 155 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (169 bp):
AAGCACCCTTAACTTACCTCATCAAGGACAATTGTTGAACTCTTTCGTGCATGGCTCACATGTAA
ACCTCACTAAGCCTACCTTTAGATTTCATCCCATCACCACTCACCTAGAAATTACTTTGTCCCCA
AAGAGACTGATGACCTTGATAGGACATGTACTATACATG
Found at i:115693871 original size:20 final size:20
Alignment explanation
Indices: 115693846--115693892 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
115693836 TTGAATGAAT
115693846 AACTTTTTAAATATTTTTTA
1 AACTTTTTAAATATTTTTTA
*
115693866 AAC-TTTTAAATATTTTTTT
1 AACTTTTTAAATATTTTTTA
115693885 AA-TTTTTA
1 AACTTTTTA
115693893 TTTTTGATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
AACTTTTTAAATATTTTTTA
Found at i:115704303 original size:3 final size:3
Alignment explanation
Indices: 115704289--115704380 Score: 50
Period size: 3 Copynumber: 30.3 Consensus size: 3
115704279 ATGTATATCA
* * *
115704289 AAT AAT ACAT AAT AAT ATT AA- AAT AA- AAT AAT AAGT AAC AAT AGT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* *
115704334 GAA- AAT AAT AAGT -AT AAT AAT AA- ATAT AAT GAT ATAT AAA AAT AAT
1 -AAT AAT AAT AA-T AAT AAT AAT AAT A-AT AAT AAT A-AT AAT AAT AAT
115704380 A
1 A
115704381 CTATATATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
2 8 0.12
3 48 0.71
4 12 0.18
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:115704331 original size:26 final size:27
Alignment explanation
Indices: 115704288--115704341 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
115704278 TATGTATATC
* *
115704288 AAATAATACATAATAATA-TTAAAATA
1 AAATAATACATAACAATAGTGAAAATA
115704314 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATAGTGAAAATA
115704341 A
1 A
115704342 TAAGTATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 15 0.62
27 8 0.33
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.26
Consensus pattern (27 bp):
AAATAATACATAACAATAGTGAAAATA
Found at i:115704352 original size:12 final size:11
Alignment explanation
Indices: 115704337--115704448 Score: 50
Period size: 12 Copynumber: 9.4 Consensus size: 11
115704327 CAATAGTGAA
115704337 AATAATAAGTAT
1 AATAATAA-TAT
115704349 AATAATAAATAT
1 AATAAT-AATAT
* *
115704361 AATGATATATAAA
1 AATAATA-AT-AT
*
115704374 AATAATACTAT
1 AATAATAATAT
*
115704385 ATATAAAAAGTAT
1 A-ATAATAA-TAT
115704398 -ATATATACACGTAT
1 AATA-ATA-A--TAT
115704412 AATAA-AATAT
1 AATAATAATAT
*
115704422 -ATACTAATATT
1 AATAATAATA-T
115704433 AATAATAAATAT
1 AATAAT-AATAT
115704445 AATA
1 AATA
115704449 GGGGTGTAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 26
0.68 0.09 0.23
Matches are distributed among these distances:
9 3 0.04
10 7 0.09
11 7 0.09
12 34 0.44
13 18 0.23
14 5 0.06
15 3 0.04
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (11 bp):
AATAATAATAT
Found at i:115704376 original size:18 final size:17
Alignment explanation
Indices: 115704335--115704404 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 17
115704325 AACAATAGTG
115704335 AAAATAATAAGTATA-ATA
1 AAAAT-ATAA-TATATATA
115704353 ATAAATATAATGATATATA
1 A-AAATATAAT-ATATATA
*
115704372 AAAATAATACTATATATA
1 AAAAT-ATAATATATATA
115704390 AAAAGTAT-ATATATA
1 AAAA-TATAATATATA
115704405 CACGTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
17 7 0.16
18 25 0.56
19 13 0.29
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATATAATATATATA
Found at i:115709818 original size:2 final size:2
Alignment explanation
Indices: 115709811--115709847 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
115709801 CTTAAACTTT
115709811 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
115709848 TGTATCTTAT
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:115710037 original size:27 final size:27
Alignment explanation
Indices: 115709974--115710051 Score: 63
Period size: 27 Copynumber: 2.9 Consensus size: 27
115709964 TATTCATTTG
* *
115709974 AAATTGTTTT-AGACATTATTT-TGTTTC
1 AAATTGTTTTCATATATTATTTATG--TC
* *
115710001 AAATTGTTTTTATATTTTATTTATGTC
1 AAATTGTTTTCATATATTATTTATGTC
*
115710028 AAATCT-TTTTCATATATTGTTTAT
1 AAAT-TGTTTTCATATATTATTTAT
115710052 TTTGAACCGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 31 0.74
28 9 0.21
29 2 0.05
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (27 bp):
AAATTGTTTTCATATATTATTTATGTC
Found at i:115717218 original size:1 final size:1
Alignment explanation
Indices: 115717214--115717243 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
115717204 AAGAAAAGCT
*
115717214 AAAAAAAGAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
115717244 GGGGGGGGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:115722914 original size:2 final size:2
Alignment explanation
Indices: 115722907--115722931 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
115722897 AAATAAATAA
115722907 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
115722932 AAGAACTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115725229 original size:13 final size:13
Alignment explanation
Indices: 115725211--115725235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115725201 GATATGAAAG
115725211 TTTTTTTAATTTC
1 TTTTTTTAATTTC
115725224 TTTTTTTAATTT
1 TTTTTTTAATTT
115725236 TATCTTAGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTAATTTC
Found at i:115725782 original size:18 final size:19
Alignment explanation
Indices: 115725759--115725805 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
115725749 TTGTATTAAA
*
115725759 GGGGGAGGAAGAAGTTT-T
1 GGGGGAGAAAGAAGTTTCT
115725777 GGGGGAGAAAGAAGTTTCT
1 GGGGGAGAAAGAAGTTTCT
115725796 -GGGGAGAAAG
1 GGGGGAGAAAG
115725806 TTATTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.49, T:0.17
Consensus pattern (19 bp):
GGGGGAGAAAGAAGTTTCT
Found at i:115726194 original size:23 final size:23
Alignment explanation
Indices: 115726157--115726286 Score: 86
Period size: 25 Copynumber: 5.5 Consensus size: 23
115726147 TTTTTTTTGT
*
115726157 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
115726180 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
115726202 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
115726225 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATACTA
* *
115726250 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
115726275 TATTATTTATAT
1 TATTATATATAT
115726287 ATACATATAT
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
22 17 0.21
23 27 0.33
24 6 0.07
25 30 0.37
26 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:115726296 original size:60 final size:55
Alignment explanation
Indices: 115726223--115726337 Score: 124
Period size: 60 Copynumber: 2.0 Consensus size: 55
115726213 TTCTAAATTC
*
115726223 TATATTACGTATATATATATT-ATACTATTTTATGTATATATCTTTAATACTATATTATT
1 TATATTAC--ATATATTTATTAATACTATTTTATGTATATAT-TTTAAT--TATATTATT
* **
115726282 TATATATACATATATTTTTTACATGTTATTTTATGTATATATTTTAATTATATTAT
1 TATAT-TACATATATTTATTA-ATACTATTTTATGTATATATTTTAATTATATTAT
115726338 GTATGTATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
57 8 0.16
58 9 0.18
59 11 0.22
60 21 0.43
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (55 bp):
TATATTACATATATTTATTAATACTATTTTATGTATATATTTTAATTATATTATT
Found at i:115726337 original size:22 final size:22
Alignment explanation
Indices: 115726307--115726414 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
115726297 TTTTTACATG
*
115726307 TTATTTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
115726329 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
115726354 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
115726377 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
115726397 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
115726415 ATGTAGTATT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 17 0.25
23 12 0.18
24 13 0.19
25 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:115726363 original size:25 final size:24
Alignment explanation
Indices: 115726313--115726399 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
115726303 CATGTTATTT
*
115726313 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
115726339 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
** * *
115726364 TACATA-TTTTTAA-TATTATCACG
1 TATGTATTTTTTAACTA-TATTATG
*
115726387 TATTTATTTTTTA
1 TATGTATTTTTTA
115726400 TATATGTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 17 0.33
25 15 0.29
26 7 0.14
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:115726371 original size:47 final size:49
Alignment explanation
Indices: 115726294--115726399 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 49
115726284 TATATACATA
* * * * *
115726294 TATTTTTTACATGTTATTTTATGTATATA-TTTTAAT-TATATTATGTATG
1 TATTTTTTACA-GCTATATTATGTACATATTTTTAATAT-TATCACGTATG
*
115726343 TATTTTTTACA-CTATATTATGTACATATTTTTAATATTATCACGTATT
1 TATTTTTTACAGCTATATTATGTACATATTTTTAATATTATCACGTATG
115726391 TATTTTTTA
1 TATTTTTTA
115726400 TATATGTACA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 13 0.27
48 24 0.49
49 12 0.24
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (49 bp):
TATTTTTTACAGCTATATTATGTACATATTTTTAATATTATCACGTATG
Found at i:115726381 original size:20 final size:20
Alignment explanation
Indices: 115726356--115726414 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
115726346 TTTTTACACT
115726356 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
115726376 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
115726399 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
115726415 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:115726552 original size:16 final size:15
Alignment explanation
Indices: 115726528--115726562 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
115726518 TATTAATTAT
115726528 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
115726544 TATTTTAATATTTTA
1 TATTCTAATATTTTA
115726559 TATT
1 TATT
115726563 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:115728635 original size:35 final size:35
Alignment explanation
Indices: 115728591--115728756 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
115728581 TCCTCATTGA
** *
115728591 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
115728626 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
115728665 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
115728700 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
115728735 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
115728757 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:115728676 original size:74 final size:73
Alignment explanation
Indices: 115728586--115728756 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
115728576 GGTTTTCCTC
** * * **
115728586 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
115728649 TCAGTATGG
65 TCAGTATGG
*
115728658 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
115728723 CTCAGTATGG
64 CTCAGTATGG
115728733 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
115728757 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:115736123 original size:35 final size:35
Alignment explanation
Indices: 115736079--115736244 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
115736069 TCCTCATTGA
** *
115736079 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
115736114 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
115736153 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
115736188 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
115736223 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
115736245 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:115736164 original size:74 final size:73
Alignment explanation
Indices: 115736074--115736244 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
115736064 GGTTTTCCTC
** * * **
115736074 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
115736137 TCAGTATGG
65 TCAGTATGG
*
115736146 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
115736211 CTCAGTATGG
64 CTCAGTATGG
115736221 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
115736245 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:115748812 original size:75 final size:74
Alignment explanation
Indices: 115748702--115749112 Score: 569
Period size: 75 Copynumber: 5.5 Consensus size: 74
115748692 CTACGGTTCA
* * * * *
115748702 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACATGTTAAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-AGACACGTTGAGGTATTTTCAAT
*
115748767 TTCTGCCTTTC
64 TTCTGTCTTTC
* * *
115748778 -AAAAATCAACTCATATTGCAATAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
115748842 CTGTCTTTC
66 CTGTCTTTC
* * * *
115748851 AAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAAT
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAT
115748916 TTCTGTCTTTC
64 TTCTGTCTTTC
* *
115748927 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
115748992 CTGTCTTTC
66 CTGTCTTTC
* *
115749001 AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTT-GAT
1 AAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAAT
*
115749065 CTCTGT-TTTC
64 TTCTGTCTTTC
*
115749075 -AAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
115749113 GGATCACATG
Statistics
Matches: 306, Mismatches: 24, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
72 34 0.11
73 33 0.11
74 72 0.24
75 98 0.32
76 69 0.23
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
CTGTCTTTC
Found at i:115749144 original size:149 final size:147
Alignment explanation
Indices: 115748698--115749137 Score: 580
Period size: 149 Copynumber: 2.9 Consensus size: 147
115748688 ATTTCTACGG
* * * *
115748698 TTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACATGTTAAGGTATTTT
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-AGACATGTTGAGGTATTTT
* * * * *
115748763 CAATTTCTGCCTTTCAAAAATCAACTCATATTGCAATAAGTGAGTTGAGCCTCAAGACACGTTGA
64 CAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTCGA
115748828 GGTATTTTCAATTTCTGTCT
128 GGTATTTTCAATTTCTGTCT
* * *
115748848 TTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTC
1 TTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTC
115748913 AATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG-CTG
65 AATTTCTGT-TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTC-G
*
115748977 AGGTAATTTCAATTTCTGTCT
127 AGGTATTTTCAATTTCTGTCT
* * *
115748998 TTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTT-
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGT-ATTTTC
* * * *
115749062 GATCTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTC-GGATCACATGTCG
65 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA-CAC--GTCG
115749126 AGGTATTTTCAA
127 AGGTATTTTCAA
115749138 AATCTGTTTT
Statistics
Matches: 257, Mismatches: 24, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
146 2 0.01
147 40 0.16
148 4 0.02
149 93 0.36
150 91 0.35
151 27 0.11
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (147 bp):
TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCA
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTCGAGGT
ATTTTCAATTTCTGTCT
Found at i:115749221 original size:87 final size:87
Alignment explanation
Indices: 115749068--115749302 Score: 244
Period size: 87 Copynumber: 2.7 Consensus size: 87
115749058 TTTTGATCTC
* * * *
115749068 TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCGGATCACATGTCGAGGTATT
1 TGTTTT-AAAAATCAATTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGTCGAGCTATT
115749133 TTCAAAATCTGTTTTACAAAT-T-T
65 TTCAAAATCTGTTTT--AAATGTCT
* * * *
115749156 TGTTTTAAAAATCAATTCATTTTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATT
1 TGTTTTAAAAATCAATTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGTC-GAGCTATT
** *
115749220 TTCAATTTCTGTTTTTAATGTCT
65 TTCAAAATCTGTTTTAAATGTCT
* * * * *
115749243 AGTTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGATCACATGCCGAG
1 TGTTTTAAA-AATCAATTCATATTGCGAGAAGTGAGTTGAGCCTC-GGATCACATGTCGAG
115749303 TAAAGAATAA
Statistics
Matches: 122, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
85 3 0.02
86 2 0.02
87 72 0.59
88 44 0.36
89 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (87 bp):
TGTTTTAAAAATCAATTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGTCGAGCTATTT
TCAAAATCTGTTTTAAATGTCT
Found at i:115749948 original size:18 final size:18
Alignment explanation
Indices: 115749925--115749977 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
115749915 CCACCACCAA
115749925 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
115749943 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
115749955 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
115749973 CTCCA
1 CTCCA
115749978 GTACCTACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 7 0.26
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 12 0.44
ACGTcount: A:0.25, C:0.49, G:0.08, T:0.19
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:115749951 original size:30 final size:30
Alignment explanation
Indices: 115749915--115750000 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
115749905 CTAGCCTTTG
115749915 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
115749945 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
** * *
115749975 CCAGTACCTACTCCACTAGCAACACT
1 CCACCACCAACTCCACTAGCCACACT
115750001 CCACCACCAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.28, C:0.48, G:0.07, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:115750610 original size:25 final size:25
Alignment explanation
Indices: 115750582--115750707 Score: 96
Period size: 25 Copynumber: 5.0 Consensus size: 25
115750572 TATATATATT
*
115750582 ATACTATTTTATGTATATATCTTTA
1 ATACTATTTTATGTATATATTTTTA
*
115750607 ATACTACATTATTTATATATATATTTTTA
1 ATACT--A-T-TTTATGTATATATTTTTA
**
115750636 CATGTTATTTTATGTATATA-TTTTA
1 -ATACTATTTTATGTATATATTTTTA
* * *
115750661 AT--TATATTATGTATGTATTTTTT
1 ATACTATTTTATGTATATATTTTTA
* * *
115750684 ACACTATATTATGTACATATTTTT
1 ATACTATTTTATGTATATATTTTT
115750708 GATATTATCA
Statistics
Matches: 82, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
22 13 0.16
23 5 0.06
24 2 0.02
25 28 0.34
26 11 0.13
27 2 0.02
28 2 0.02
29 16 0.20
30 3 0.04
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (25 bp):
ATACTATTTTATGTATATATTTTTA
Found at i:115750714 original size:20 final size:20
Alignment explanation
Indices: 115750689--115750747 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
115750679 TTTTTACACT
115750689 ATATTATGTACATATTTTTG
1 ATATTATGTACATATTTTTG
** *
115750709 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTG
115750732 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
115750748 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTG
Found at i:115753972 original size:38 final size:40
Alignment explanation
Indices: 115753918--115754084 Score: 194
Period size: 46 Copynumber: 3.9 Consensus size: 40
115753908 TCTGATATGA
115753918 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
115753958 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
*
115754001 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 -AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
115754042 ATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 A-ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
115754085 ATGACAGAAA
Statistics
Matches: 111, Mismatches: 2, Indels: 22
0.82 0.01 0.16
Matches are distributed among these distances:
38 35 0.32
39 1 0.01
40 1 0.01
41 5 0.05
43 2 0.02
44 2 0.02
45 1 0.01
46 64 0.58
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:115754026 original size:46 final size:46
Alignment explanation
Indices: 115753961--115754133 Score: 240
Period size: 46 Copynumber: 3.8 Consensus size: 46
115753951 CAACCTGAGT
* *
115753961 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
*
115754007 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
** *
115754053 ACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGA
* * * *
115754099 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATG
115754134 TCAAAAATAA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 113 0.99
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
Found at i:115754369 original size:16 final size:17
Alignment explanation
Indices: 115754348--115754380 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
115754338 ATGATGAAAC
115754348 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
115754364 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
115754381 TACTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:115755538 original size:20 final size:20
Alignment explanation
Indices: 115755513--115755550 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
115755503 GGCACACGCT
115755513 CGTGTGGCCTGGAACATGCC
1 CGTGTGGCCTGGAACATGCC
*
115755533 CGTGTGGCTTGGAACATG
1 CGTGTGGCCTGGAACATG
115755551 GCTGTGGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.24, G:0.37, T:0.24
Consensus pattern (20 bp):
CGTGTGGCCTGGAACATGCC
Found at i:115757333 original size:16 final size:15
Alignment explanation
Indices: 115757307--115757337 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
115757297 CCTAAATTTT
115757307 CCTTTTTTTTCTTTC
1 CCTTTTTTTTCTTTC
115757322 CCTTTTTCTTTCTTTC
1 CCTTTTT-TTTCTTTC
115757338 TTTCTTTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
CCTTTTTTTTCTTTC
Found at i:115761982 original size:11 final size:11
Alignment explanation
Indices: 115761966--115762052 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
115761956 CAGATACCTT
*
115761966 TAAAATAGTAA
1 TAAAATAATAA
115761977 TAAAATTAATAA
1 TAAAA-TAATAA
*
115761989 TAAAATAAGAA
1 TAAAATAATAA
* * *
115762000 TTATATAATAT
1 TAAAATAATAA
*
115762011 TCAAACAATAACAA
1 T--AA-AATAATAA
*
115762025 CAAAATAATAA
1 TAAAATAATAA
*
115762036 TAATATAATAA
1 TAAAATAATAA
*
115762047 CAAAAT
1 TAAAAT
115762053 GATAGCGAAA
Statistics
Matches: 56, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
11 38 0.68
12 12 0.21
13 1 0.02
14 5 0.09
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:115763056 original size:23 final size:26
Alignment explanation
Indices: 115763030--115763085 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
115763020 ATATTGAGTA
*
115763030 ATTAAAA-TTG-TAA-TTATTTTTTT
1 ATTAAAATTTGTTAATTTAATTTTTT
115763053 ATTAAAATTTGTTAATTTTAATTTTTT
1 ATTAAAATTTGTTAA-TTTAATTTTTT
115763080 ATTAAA
1 ATTAAA
115763086 TTATTTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 7 0.25
24 3 0.11
25 3 0.11
27 15 0.54
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (26 bp):
ATTAAAATTTGTTAATTTAATTTTTT
Found at i:115771048 original size:15 final size:15
Alignment explanation
Indices: 115771028--115771059 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
115771018 ATTATATGAG
115771028 TTTTTTATGTACTAT
1 TTTTTTATGTACTAT
115771043 TTTTTTATGTACTAT
1 TTTTTTATGTACTAT
115771058 TT
1 TT
115771060 ATTGTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTTTTATGTACTAT
Found at i:115772094 original size:19 final size:21
Alignment explanation
Indices: 115772058--115772107 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
115772048 AATTTAACAT
*
115772058 AAATATTTATTATGAATTATA
1 AAATATTTAATATGAATTATA
115772079 AAAT-TTTAATAT-AATTATA
1 AAATATTTAATATGAATTATA
*
115772098 TAATATTTAA
1 AAATATTTAA
115772108 AATATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATATTTAATATGAATTATA
Found at i:115772132 original size:21 final size:23
Alignment explanation
Indices: 115772086--115772143 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
115772076 ATAAAATTTT
* *
115772086 AATATAATTAT-ATAATATTTAA
1 AATATAATTTTCATAATATTAAA
115772108 AATAT-ATTTTCATAA-ATTAAA
1 AATATAATTTTCATAATATTAAA
115772129 AATATCAATTTTCAT
1 AATAT-AATTTTCAT
115772144 TTATAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 14 0.45
22 9 0.29
23 8 0.26
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
AATATAATTTTCATAATATTAAA
Found at i:115772167 original size:6 final size:6
Alignment explanation
Indices: 115772156--115772189 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
115772146 ATAATTTAAA
115772156 CATTAT CATTAT CATTAT CATTAT CATTAT -ATTA
1 CATTAT CATTAT CATTAT CATTAT CATTAT CATTA
115772190 ATTATTAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (6 bp):
CATTAT
Found at i:115773540 original size:16 final size:16
Alignment explanation
Indices: 115773519--115773549 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
115773509 AAAAATCGTA
115773519 AAATATTTAAAAAAAT
1 AAATATTTAAAAAAAT
115773535 AAATATTTAAAAAAA
1 AAATATTTAAAAAAA
115773550 CACATAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATATTTAAAAAAAT
Found at i:115774441 original size:65 final size:64
Alignment explanation
Indices: 115774322--115774444 Score: 187
Period size: 64 Copynumber: 1.9 Consensus size: 64
115774312 ATATATAATA
115774322 TATAATTTATTAACAAACTAAACAATCAAACTATAAATATATATAAAAAATATTTAAATGTATG
1 TATAATTTATTAACAAACTAAACAATCAAACTATAAATATATATAAAAAATATTTAAATGTATG
* *
115774386 TATAATTTATTAAGAAATTAAA-AAT-AAGACTATAAATATATATGTAAAAAATATTTAAA
1 TATAATTTATTAACAAACTAAACAATCAA-ACTATAAATATATA--TAAAAAATATTTAAA
115774445 AAATAATGAT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
62 2 0.04
63 17 0.31
64 20 0.37
65 15 0.28
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (64 bp):
TATAATTTATTAACAAACTAAACAATCAAACTATAAATATATATAAAAAATATTTAAATGTATG
Found at i:115779284 original size:22 final size:21
Alignment explanation
Indices: 115779259--115779312 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
115779249 TATTATTTAT
*
115779259 TTAATTAATTTAATTAATCAA
1 TTAAATAATTTAATTAATCAA
* **
115779280 GTTAAATAAATTAATTTCTCAA
1 -TTAAATAATTTAATTAATCAA
115779302 TTAAATAATTT
1 TTAAATAATTT
115779313 TTTCTCAACC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (21 bp):
TTAAATAATTTAATTAATCAA
Found at i:115779468 original size:5 final size:5
Alignment explanation
Indices: 115779458--115779485 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
115779448 ATAATTTGTG
115779458 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
115779486 GAACACATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:115779844 original size:23 final size:23
Alignment explanation
Indices: 115779818--115779866 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
115779808 TGACACGAAT
*
115779818 TCTCAATGAACAAGTTCTTCAAC
1 TCTCAACGAACAAGTTCTTCAAC
*
115779841 TCTCAACGAACAAGTTCTTCACC
1 TCTCAACGAACAAGTTCTTCAAC
115779864 TCT
1 TCT
115779867 TCCATAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (23 bp):
TCTCAACGAACAAGTTCTTCAAC
Found at i:115784813 original size:46 final size:46
Alignment explanation
Indices: 115784761--115785172 Score: 583
Period size: 46 Copynumber: 9.0 Consensus size: 46
115784751 GCTCTCTGAA
*
115784761 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
115784807 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
115784853 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
115784899 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
115784945 ATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** *
115784991 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* **
115785037 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** *
115785083 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** * * *
115785129 A-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
115785173 TCAAAGATAA
Statistics
Matches: 345, Mismatches: 20, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 344 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:115790253 original size:46 final size:46
Alignment explanation
Indices: 115790201--115790612 Score: 574
Period size: 46 Copynumber: 9.0 Consensus size: 46
115790191 GCTCTCTGAA
*
115790201 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
115790247 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
115790293 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
115790339 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
115790385 ATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** * *
115790431 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCCACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* **
115790477 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** *
115790523 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** * * *
115790569 A-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
115790613 TCAAAGATAA
Statistics
Matches: 343, Mismatches: 22, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 342 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:115791837 original size:92 final size:92
Alignment explanation
Indices: 115791680--115791938 Score: 423
Period size: 92 Copynumber: 2.8 Consensus size: 92
115791670 GCTCTCTGAA
** *
115791680 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGCCAACATGATATGAAATGTGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
115791745 GGTTGAAAGATACCAT-GCCAGCGTGAC
66 GGTTGAAAGATACCATCG-CAGCGTGAC
115791772 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
115791837 GGTTGAAAGATACCATCGCAGCGTGAC
66 GGTTGAAAGATACCATCGCAGCGTGAC
** *
115791864 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGGCA-GAAAATGAGTAAGACCA
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAAGACCA
*
115791928 TAGTTGAAAGA
65 TGGTTGAAAGA
115791939 CACTATGGCA
Statistics
Matches: 158, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
91 1 0.01
92 156 0.99
93 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (92 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
GGTTGAAAGATACCATCGCAGCGTGAC
Found at i:115791947 original size:46 final size:46
Alignment explanation
Indices: 115791680--115791953 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
115791670 GCTCTCTGAA
* * *
115791680 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGCCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
115791726 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGCCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
115791772 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
115791818 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATCGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
115791864 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGGC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
115791910 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
115791954 TCAAAGATAA
Statistics
Matches: 201, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.00
46 200 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:115800160 original size:3 final size:3
Alignment explanation
Indices: 115800152--115800231 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
115800142 TTAGTGACTA
115800152 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
115800200 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
115800232 ATCACATAAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:115802711 original size:14 final size:14
Alignment explanation
Indices: 115802692--115802725 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
115802682 ATCTAAACCA
*
115802692 TACAATTCTAATCT
1 TACAATTCTAAACT
115802706 TACAATTCTAAACT
1 TACAATTCTAAACT
115802720 TACAAT
1 TACAAT
115802726 CTCGGTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (14 bp):
TACAATTCTAAACT
Found at i:115804416 original size:45 final size:45
Alignment explanation
Indices: 115804322--115804407 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
115804312 TAAACTCATC
* * *
115804322 CAAAAGCAGCAGCAAAATGTGCACACATATATGACATTTACCCAA
1 CAAAAGCAACAGCAAAATGTGCACACATACACGACATTTACCCAA
*
115804367 CAAAAGCAACAGCAAAATGTGCACACATACGCGACATTTAC
1 CAAAAGCAACAGCAAAATGTGCACACATACACGACATTTAC
115804408 TCTGCAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.44, C:0.26, G:0.14, T:0.16
Consensus pattern (45 bp):
CAAAAGCAACAGCAAAATGTGCACACATACACGACATTTACCCAA
Found at i:115809785 original size:7 final size:7
Alignment explanation
Indices: 115809775--115809851 Score: 56
Period size: 7 Copynumber: 11.4 Consensus size: 7
115809765 TTTAGTATTT
115809775 TTTAATA
1 TTTAATA
*
115809782 TTT-ATGG
1 TTTAAT-A
*
115809789 TTTATTA
1 TTTAATA
*
115809796 TTTAGTA
1 TTTAATA
115809803 TTTAA-A
1 TTTAATA
115809809 -TTAATA
1 TTTAATA
*
115809815 TTTAAGA
1 TTTAATA
115809822 TTTAGA-A
1 TTTA-ATA
*
115809829 TTTAGTA
1 TTTAATA
115809836 TTTAATA
1 TTTAATA
115809843 TTTAA-A
1 TTTAATA
115809849 TTT
1 TTT
115809852 TAGCTATTAG
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
5 4 0.07
6 8 0.14
7 42 0.75
8 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (7 bp):
TTTAATA
Found at i:115809818 original size:33 final size:33
Alignment explanation
Indices: 115809757--115809840 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 33
115809747 TTTCTTTACA
* * *
115809757 ATTTAGAGTTTAGTATTT--TTTAATATTTATG
1 ATTTAGAATTTAGTATTTAAATTAATATTTAAG
* **
115809788 GTTTATTATTTAGTATTTAAATTAATATTTAAG
1 ATTTAGAATTTAGTATTTAAATTAATATTTAAG
115809821 ATTTAGAATTTAGTATTTAA
1 ATTTAGAATTTAGTATTTAA
115809841 TATTTAAATT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 14 0.33
33 28 0.67
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.55
Consensus pattern (33 bp):
ATTTAGAATTTAGTATTTAAATTAATATTTAAG
Found at i:115809861 original size:28 final size:27
Alignment explanation
Indices: 115809795--115809851 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
115809785 ATGGTTTATT
* *
115809795 ATTTAGTATTTA-AATTAATATTTAAG
1 ATTTAGAATTTAGATTTAATATTTAAG
115809821 ATTTAGAATTTAGTATTTAATATTTAA-
1 ATTTAGAATTTAG-ATTTAATATTTAAG
115809848 ATTT
1 ATTT
115809852 TAGCTATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 11 0.41
27 4 0.15
28 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (27 bp):
ATTTAGAATTTAGATTTAATATTTAAG
Found at i:115809897 original size:20 final size:21
Alignment explanation
Indices: 115809872--115809912 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
115809862 ATTTTTTTAG
115809872 ATGTAAA-GTTAGGATTTAAA
1 ATGTAAATGTTAGGATTTAAA
* *
115809892 ATGTAAATTTTAGTATTTAAA
1 ATGTAAATGTTAGGATTTAAA
115809913 GTTTAACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (21 bp):
ATGTAAATGTTAGGATTTAAA
Found at i:115809924 original size:21 final size:21
Alignment explanation
Indices: 115809885--115809952 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
115809875 TAAAGTTAGG
* * * *
115809885 ATTTAAAATGTAAATTTTAGT
1 ATTTAAAGTTTAAAGTTTAAT
*
115809906 ATTTAAAGTTTAACA-TTTAAA
1 ATTTAAAGTTTAA-AGTTTAAT
* *
115809927 ATTTAAGGTTTAAAGTTTATT
1 ATTTAAAGTTTAAAGTTTAAT
115809948 ATTTA
1 ATTTA
115809953 TAAAATATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.03
21 36 0.95
22 1 0.03
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (21 bp):
ATTTAAAGTTTAAAGTTTAAT
Found at i:115809952 original size:14 final size:14
Alignment explanation
Indices: 115809895--115809952 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
115809885 ATTTAAAATG
* *
115809895 TAAATTTTAGTATT
1 TAAAGTTTAATATT
*
115809909 TAAAGTTTAACATT
1 TAAAGTTTAATATT
* **
115809923 TAAAATTTAAGGTT
1 TAAAGTTTAATATT
*
115809937 TAAAGTTTATTATT
1 TAAAGTTTAATATT
115809951 TA
1 TA
115809953 TAAAATATAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.50
Consensus pattern (14 bp):
TAAAGTTTAATATT
Found at i:115812148 original size:12 final size:12
Alignment explanation
Indices: 115812111--115812149 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
115812101 ACAATGACAA
*
115812111 AGGTCGAGGCAG
1 AGGTCGTGGCAG
*
115812123 AGGTCGTAGCAG
1 AGGTCGTGGCAG
*
115812135 AGGTCGTGGTAG
1 AGGTCGTGGCAG
115812147 AGG
1 AGG
115812150 AAACTATGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.23, C:0.13, G:0.49, T:0.15
Consensus pattern (12 bp):
AGGTCGTGGCAG
Found at i:115814326 original size:21 final size:21
Alignment explanation
Indices: 115814302--115814346 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
115814292 CACATATCCC
115814302 TGTGGTT-TAGAGACACACCCG
1 TGTGGTTCTA-AGACACACCCG
*
115814323 TGTGTTTCTAAGACACACCCG
1 TGTGGTTCTAAGACACACCCG
115814344 TGT
1 TGT
115814347 TGTCACCCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (21 bp):
TGTGGTTCTAAGACACACCCG
Found at i:115816197 original size:14 final size:14
Alignment explanation
Indices: 115816178--115816207 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
115816168 TTATATCGAG
115816178 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
115816192 ACCAATCCAATTCA
1 ACCAATCCAAATCA
115816206 AC
1 AC
115816208 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:115822887 original size:14 final size:14
Alignment explanation
Indices: 115822868--115822897 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
115822858 TTATATCGAG
115822868 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
115822882 ACCAATCCAATTCA
1 ACCAATCCAAATCA
115822896 AC
1 AC
115822898 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:115824222 original size:14 final size:14
Alignment explanation
Indices: 115824203--115824232 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
115824193 TTATATCGAG
115824203 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
115824217 ACCAATCCAATTCA
1 ACCAATCCAAATCA
115824231 AC
1 AC
115824233 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:115826439 original size:8 final size:8
Alignment explanation
Indices: 115826428--115826455 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
115826418 CTTTTATATT
115826428 TTATTATA
1 TTATTATA
115826436 TTATTATA
1 TTATTATA
115826444 TTATTATA
1 TTATTATA
115826452 TTAT
1 TTAT
115826456 ATGTTTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTATTATA
Found at i:115839458 original size:21 final size:22
Alignment explanation
Indices: 115839430--115839484 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
115839420 TTTTATTTTG
115839430 ATTTTTTTATCGTTTTGCT-ACT
1 ATTTTTTTATCGTTTT-CTCACT
* *
115839452 ATTTTTTTGTTGTTTTCTCACT
1 ATTTTTTTATCGTTTTCTCACT
*
115839474 ATTTTGTTATC
1 ATTTTTTTATC
115839485 ATTTCATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.13, C:0.13, G:0.09, T:0.65
Consensus pattern (22 bp):
ATTTTTTTATCGTTTTCTCACT
Found at i:115844398 original size:61 final size:61
Alignment explanation
Indices: 115844328--115844450 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
115844318 CCATGAGGTG
* *
115844328 TAGTAATTACTCAACTCATCTTTTAATCATGTGTTTAAGGATTTAATTCCGTTCAAGGGAA
1 TAGTAATTACTCAACTCATCTTTTAATCATATGTTCAAGGATTTAATTCCGTTCAAGGGAA
115844389 TAGTAATTACTCAACTCATCTTTTAATCATATGTTCAAGGATTTAATTCCGTTCAAGGGAA
1 TAGTAATTACTCAACTCATCTTTTAATCATATGTTCAAGGATTTAATTCCGTTCAAGGGAA
115844450 T
1 T
115844451 TGAATATATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (61 bp):
TAGTAATTACTCAACTCATCTTTTAATCATATGTTCAAGGATTTAATTCCGTTCAAGGGAA
Found at i:115854901 original size:43 final size:43
Alignment explanation
Indices: 115854838--115854950 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
115854828 TTAGGATTAC
* * * *
115854838 CGATATGAGATTACGTGTAAGACCAT-GTCTAGGACATTGGCAT
1 CGATATGTGATAACATGTAAGACCATAG-CTAGGACATCGGCAT
* * ** * *
115854881 CGTTATTTGATTTCATGTAAGACCATAGCTAGGCCATCGTCAT
1 CGATATGTGATAACATGTAAGACCATAGCTAGGACATCGGCAT
115854924 CGATATGTGATAACATGTAAGACCATA
1 CGATATGTGATAACATGTAAGACCATA
115854951 TCCGAGATAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 56 0.98
44 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
CGATATGTGATAACATGTAAGACCATAGCTAGGACATCGGCAT
Found at i:115861568 original size:32 final size:32
Alignment explanation
Indices: 115861531--115861593 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
115861521 AAAACAAAAA
115861531 GAAATTAAAGTATCATCTTCTCTAATGTTTTG
1 GAAATTAAAGTATCATCTTCTCTAATGTTTTG
115861563 GAAATTAAAGTATCATCTTCTCTAATGTTTT
1 GAAATTAAAGTATCATCTTCTCTAATGTTTT
115861594 TAAACCACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (32 bp):
GAAATTAAAGTATCATCTTCTCTAATGTTTTG
Found at i:115862256 original size:24 final size:24
Alignment explanation
Indices: 115862228--115862276 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
115862218 AAATACGAGG
115862228 TAAGTTCATATGAAAATAAATGTT
1 TAAGTTCATATGAAAATAAATGTT
*
115862252 TAAGTTCATATGCAAATAAATGTT
1 TAAGTTCATATGAAAATAAATGTT
115862276 T
1 T
115862277 TTAAATTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (24 bp):
TAAGTTCATATGAAAATAAATGTT
Found at i:115869012 original size:16 final size:15
Alignment explanation
Indices: 115868986--115869031 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
115868976 TCATTCTTCA
115868986 TTTTTTA-TTTCTTAT
1 TTTTTTATTTTCTT-T
115869001 TTTTTTATTTTCTTT
1 TTTTTTATTTTCTTT
115869016 TTTTTT-TTTT-TTT
1 TTTTTTATTTTCTTT
115869029 TTT
1 TTT
115869032 CTATCATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.20
14 4 0.13
15 14 0.47
16 6 0.20
ACGTcount: A:0.07, C:0.04, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTATTTTCTTT
Found at i:115871341 original size:48 final size:48
Alignment explanation
Indices: 115871262--115871362 Score: 130
Period size: 48 Copynumber: 2.1 Consensus size: 48
115871252 CATTAGGGTT
* * * * *
115871262 ATATGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCG
1 ATATGTGATCCCATGTAAAACCATATCTGGGACATCGCATTAGCATCG
* * *
115871310 ATATTTGATCCCATGTAAAATCATATCTGGGATATCGCATTAGCATCG
1 ATATGTGATCCCATGTAAAACCATATCTGGGACATCGCATTAGCATCG
115871358 ATATG
1 ATATG
115871363 AGACATCGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (48 bp):
ATATGTGATCCCATGTAAAACCATATCTGGGACATCGCATTAGCATCG
Found at i:115875881 original size:72 final size:72
Alignment explanation
Indices: 115875787--115875924 Score: 240
Period size: 72 Copynumber: 1.9 Consensus size: 72
115875777 GATTTATATT
* *
115875787 ACACTAACCTTTTAGCCTTAATGCACGAATTCACCCTTTCAACTTGATTTTTACTAGACTAATGA
1 ACACTAACCTTTGAGCCTTAATGCACGAATGCACCCTTTCAACTTGATTTTTACTAGACTAATGA
115875852 ACAAAAG
66 ACAAAAG
* *
115875859 ACACTAACCTTTGAGGCTTAATGCACGAGTGCACCCTTTCAACTTGATTTTTACTAGACTAATGA
1 ACACTAACCTTTGAGCCTTAATGCACGAATGCACCCTTTCAACTTGATTTTTACTAGACTAATGA
115875924 A
66 A
115875925 GTATAATGGC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (72 bp):
ACACTAACCTTTGAGCCTTAATGCACGAATGCACCCTTTCAACTTGATTTTTACTAGACTAATGA
ACAAAAG
Found at i:115879891 original size:26 final size:25
Alignment explanation
Indices: 115879861--115879919 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
115879851 GGCACATAAC
*
115879861 GGTGGCGAAGAGGAGGAGGAGGTGGT
1 GGTGGCGAAGAGGAGGAGG-GGTGGG
* * *
115879887 GGTGGTGGAGGAGGAGGTGGGGTGGG
1 GGTGG-CGAAGAGGAGGAGGGGTGGG
115879913 GGTGGCG
1 GGTGGCG
115879920 GTGGGGGTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.04
26 15 0.56
27 11 0.41
ACGTcount: A:0.15, C:0.03, G:0.68, T:0.14
Consensus pattern (25 bp):
GGTGGCGAAGAGGAGGAGGGGTGGG
Found at i:115879897 original size:21 final size:20
Alignment explanation
Indices: 115879872--115879911 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
115879862 GTGGCGAAGA
115879872 GGAGGAGGAGGTGGTGGTGGT
1 GGAGGAGGAGGTGG-GGTGGT
115879893 GGAGGAGGAGGTGGGGTGG
1 GGAGGAGGAGGTGGGGTGG
115879912 GGGTGGCGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.15, C:0.00, G:0.70, T:0.15
Consensus pattern (20 bp):
GGAGGAGGAGGTGGGGTGGT
Found at i:115879898 original size:18 final size:17
Alignment explanation
Indices: 115879875--115879925 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
115879865 GCGAAGAGGA
*
115879875 GGAGGAGGTGGTGGTGGT
1 GGAGGAGGAGGTGG-GGT
115879893 GGAGGAGGAGGTGGGGT
1 GGAGGAGGAGGTGGGGT
* * *
115879910 GGGGGTGGCGGTGGGG
1 GGAGGAGGAGGTGGGG
115879926 GTGGGGGTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 16 0.55
18 13 0.45
ACGTcount: A:0.10, C:0.02, G:0.73, T:0.16
Consensus pattern (17 bp):
GGAGGAGGAGGTGGGGT
Found at i:115879914 original size:6 final size:6
Alignment explanation
Indices: 115879905--115879934 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
115879895 AGGAGGAGGT
*
115879905 GGGGTG GGGGTG GCGGTG GGGGTG GGGGTG
1 GGGGTG GGGGTG GGGGTG GGGGTG GGGGTG
115879935 ACCTCATAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.03, G:0.80, T:0.17
Consensus pattern (6 bp):
GGGGTG
Found at i:115880951 original size:20 final size:20
Alignment explanation
Indices: 115880918--115880955 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
115880908 AGAATAGTGG
115880918 GGTCAAGTCATGAACAATGA
1 GGTCAAGTCATGAACAATGA
* *
115880938 GGTCATGTCGTGAACAAT
1 GGTCAAGTCATGAACAAT
115880956 AATAATATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (20 bp):
GGTCAAGTCATGAACAATGA
Found at i:115881957 original size:127 final size:125
Alignment explanation
Indices: 115881448--115882000 Score: 531
Period size: 128 Copynumber: 4.4 Consensus size: 125
115881438 GATAAATCAC
* * * * * * * *
115881448 AACCCAGCACGATTGGGCACGATTTATCGAATTTCCAAATACGAAATATTGCCTCATTTTTA-TC
1 AACCCAGCACGATTGGGCACGATCTCTCGAACTCCCAAACACGAAATATTGCCTC-GTTCTAGTT
* * * * ** * * *
115881512 GAAG-AAACATGGATGAAATTTCCAAGGGATATTCCATGCTTTAGTCGAATGAAAGATTGC
65 TAAGAAAACATGGATGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAATGAAAAATCGA
* * * * ** *
115881572 AACCCAACACGATTGGGCACGATCCCTCAAACTTCCAAACACGAAATGCTGCCTTGTTCTAGTTT
1 AACCCAGCACGATTGGGCACGATCTCTCGAACTCCCAAACACGAAATATTGCCTCGTTCTAGTTT
* * * **
115881637 GAGAAAACACGGATGAAATTTCAAAAGGATATTTCGTATCCTAGTCGAATGAAAGAAAATCGA
66 AAGAAAACATGGATGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAATG--A-AAAATCGA
* ** *
115881700 AACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACGAAATAGGGCCTCG-TCTCAGCT
1 AACCCAGCACGATTGGGCACGATCTCTCGAACTCCCAAACACGAAATATTGCCTCGTTCT-AGTT
* ** * *
115881764 TAAGAAAACATGGATGAAATTTTAAAGAGGATGCTCCGCATTTTAGTCGAATGAAAAATCGC
65 TAAGAAAACATGGATGAAATTTCAAA-AGGATATTCCGTATTTTAGTCGAATGAAAAATCGA
* * * *
115881826 AACCCAGCACGATTGGGCACGAACTCTCGAACTCCCCAAATACGAAATATTGCCTCGTTTTAATT
1 AACCCAGCACGATTGGGCACGATCTCTCGAACT-CCCAAACACGAAATATTGCCTCGTTCT-AGT
* * * * *
115881891 TTAACAAAATATGGATGAAATTTCCAAAGGATATTCCGTATTTTAG-CTGAACGAAAAATTGA
64 TTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCGTATTTTAGTC-GAATGAAAAATCGA
* * *
115881953 AACCCAGCACGATTGTGCACGATTTCTCGAAC-CTCCAAACACAAAATA
1 AACCCAGCACGATTGGGCACGATCTCTCGAACTC-CCAAACACGAAATA
115882001 ATTCCTTAAG
Statistics
Matches: 349, Mismatches: 69, Indels: 20
0.80 0.16 0.05
Matches are distributed among these distances:
123 4 0.01
124 48 0.14
125 39 0.11
126 51 0.15
127 81 0.23
128 106 0.30
129 20 0.06
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (125 bp):
AACCCAGCACGATTGGGCACGATCTCTCGAACTCCCAAACACGAAATATTGCCTCGTTCTAGTTT
AAGAAAACATGGATGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAATGAAAAATCGA
Found at i:115882723 original size:23 final size:24
Alignment explanation
Indices: 115882697--115882743 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
115882687 TATTTAAATG
*
115882697 TAATATCAT-ACAAAATTTTAAAA
1 TAATATCATAAAAAAATTTTAAAA
*
115882720 TAATATTATAAAAAAATTTTAAAA
1 TAATATCATAAAAAAATTTTAAAA
115882744 AAAAACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (24 bp):
TAATATCATAAAAAAATTTTAAAA
Found at i:115882753 original size:25 final size:24
Alignment explanation
Indices: 115882708--115882755 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
115882698 AATATCATAC
* *
115882708 AAAATTTTAAAATAATATTATAAA
1 AAAATTTTAAAAAAAAATTATAAA
115882732 AAAATTTTAAAAAAAAACTTATAA
1 AAAATTTTAAAAAAAAA-TTATAA
115882756 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAATTTTAAAAAAAAATTATAAA
Found at i:115882836 original size:6 final size:6
Alignment explanation
Indices: 115882825--115882853 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
115882815 TATATAATAA
115882825 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
115882854 AGATGAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Done.