Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
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 60 of 438
Found at i:15702731 original size:19 final size:19
Alignment explanation
Indices: 15702671--15702731 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
15702661 GGATTTAAGG
15702671 TTTATTAATAAAAAGACAA
1 TTTATTAATAAAAAGACAA
* * * *
15702690 TTTACATATTTAAAA-TCAGA
1 TTTA-TTAATAAAAAGACA-A
15702710 TTTATTAATAAAAAGACAA
1 TTTATTAATAAAAAGACAA
15702729 TTT
1 TTT
15702732 GTATATTCAA
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.38
Consensus pattern (19 bp):
TTTATTAATAAAAAGACAA
Found at i:15712961 original size:18 final size:19
Alignment explanation
Indices: 15712938--15712980 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 19
15712928 TAAACACTTA
15712938 TTATTTTTTTAT-TTTATT
1 TTATTTTTTTATCTTTATT
15712956 TTA--TTTTTATCTTTATT
1 TTATTTTTTTATCTTTATT
15712973 TATATTTT
1 T-TATTTT
15712981 GAAATTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
16 7 0.33
17 7 0.33
18 5 0.24
20 2 0.10
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (19 bp):
TTATTTTTTTATCTTTATT
Found at i:15712962 original size:16 final size:18
Alignment explanation
Indices: 15712938--15712980 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
15712928 TAAACACTTA
*
15712938 TTATTTTTTTAT-TTTAT
1 TTATATTTTTATCTTTAT
15712955 TT-TATTTTTATCTTTAT
1 TTATATTTTTATCTTTAT
15712972 TTATATTTT
1 TTATATTTT
15712981 GAAATTACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (18 bp):
TTATATTTTTATCTTTAT
Found at i:15716325 original size:47 final size:47
Alignment explanation
Indices: 15716221--15716346 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 47
15716211 GATAAGTTTT
* *
15716221 CGATGCCATGTCCCAGACATGTCTTACACTGGCACTTATCTCTACGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCACTCATATCTACGC
* * *
15716268 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCACTCAT-ATCTACGC
*
15716316 CGATG-CATGTCCTAGACATGTCTTACACTGG
1 CGATGCCATGTCCCAGACATGTCTTACACTGG
15716347 TACACAATCA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
46 12 0.17
47 33 0.46
48 24 0.34
49 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCACTCATATCTACGC
Found at i:15726638 original size:24 final size:25
Alignment explanation
Indices: 15726571--15726638 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
15726561 TACATATATG
* *
15726571 CTCATATGAGCTACGAATCGGTATG
1 CTCATACGAGCTACGAATCGGTATA
* *
15726596 CTC-TCACAAGCTATGAATCGGTA-A
1 CTCAT-ACGAGCTACGAATCGGTATA
*
15726620 CTCATACGAGCTACAAATC
1 CTCATACGAGCTACGAATC
15726639 AATAAGCTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 15 0.44
25 19 0.56
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (25 bp):
CTCATACGAGCTACGAATCGGTATA
Found at i:15728693 original size:26 final size:26
Alignment explanation
Indices: 15728659--15728739 Score: 110
Period size: 26 Copynumber: 3.1 Consensus size: 26
15728649 TTTTGAATAT
*
15728659 GGTTCAATTGAAATGCTGGAGCTTTG
1 GGTTCAATTGAAGTGCTGGAGCTTTG
* *
15728685 GTTTCAATT-AGAGTGCTAGAGCTTTG
1 GGTTCAATTGA-AGTGCTGGAGCTTTG
*
15728711 GGTTCAATTGGAGTGCTGGAGCTTTG
1 GGTTCAATTGAAGTGCTGGAGCTTTG
15728737 GGT
1 GGT
15728740 CATACACAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.02
26 46 0.98
ACGTcount: A:0.20, C:0.11, G:0.33, T:0.36
Consensus pattern (26 bp):
GGTTCAATTGAAGTGCTGGAGCTTTG
Found at i:15746231 original size:39 final size:40
Alignment explanation
Indices: 15746166--15746268 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
15746156 AAATTGAATG
*
15746166 ATATCCGGGCTAAG-CCCGAAGACAATTATGCT-GAAAAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAAAT
* * * * **
15746204 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAAAT
15746244 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
15746269 TTCGTGCAAG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 12 0.22
39 16 0.30
40 26 0.48
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAAAT
Found at i:15746258 original size:40 final size:40
Alignment explanation
Indices: 15746166--15746306 Score: 155
Period size: 39 Copynumber: 3.6 Consensus size: 40
15746156 AAATTGAATG
* * * *
15746166 ATATCCGGGCTAAG-CCCGAAGACAATTATGCT-GAAAAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* * *
15746204 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* *
15746244 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGT-GTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGAT
*
15746283 AAATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
15746307 GTTGTGCAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
38 12 0.14
39 44 0.50
40 32 0.36
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
Found at i:15746328 original size:39 final size:37
Alignment explanation
Indices: 15746205--15746345 Score: 147
Period size: 39 Copynumber: 3.6 Consensus size: 37
15746195 GCTGAAAATT
* *
15746205 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTA
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGT-G-TA
15746245 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTA
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTG-TA
* * *
15746284 AATCCGGGCTAAGACCCGAAGGCGTTGTGCAAATCGTGA
1 TATCCGGGCTAAGACCCGAAGGCATTGTGCAAGT-GT-A
* * *
15746323 TATCCGGGTTAAGTCCCGTAGGC
1 TATCCGGGCTAAGACCCGAAGGC
15746346 CTTGGTGCGG
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
38 8 0.09
39 51 0.58
40 29 0.33
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (37 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTGTA
Found at i:15754997 original size:43 final size:43
Alignment explanation
Indices: 15754814--15755051 Score: 214
Period size: 44 Copynumber: 5.5 Consensus size: 43
15754804 ATTCATAAGC
* * * *
15754814 CTTAA-CCCCTGAGCAGTAGGGCAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGAT
* *
15754858 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAA-GAT
* * * * * * *
15754901 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* * *
15754943 CTTATCTCCCTAGGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* * * **
15754986 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGAAGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGAT
15755030 CTTAACCCCCTAAGCAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGG
15755052 TAATAGGCTA
Statistics
Matches: 157, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
42 29 0.18
43 50 0.32
44 77 0.49
45 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
Found at i:15755007 original size:85 final size:85
Alignment explanation
Indices: 15754817--15755014 Score: 236
Period size: 85 Copynumber: 2.3 Consensus size: 85
15754807 CATAAGCCTT
* * * * *
15754817 AACCCCTGAGCAGTAGGGCAACAGGCTGAAGATTTACAGATCTTAACCCCTAAGCAGTAGGGAAA
1 AACCCCTAAGCAGTAGGGAAACAGACCG-A-A-TTGCAGATCTTAACCCCTAAGCAGTAGGGAAA
*
15754882 CAGATCGAAGACGAAGGGTCTTA
63 CAGATCGAAGACGAAGGATCTTA
* * * * *
15754905 AACCCCTAATCGGTAGGGTAACAGACCGAATTGCAGATCTTATCTCCCTAGGCAGTAGGGAAACA
1 AACCCCTAAGCAGTAGGGAAACAGACCGAATTGCAGATCTTAAC-CCCTAAGCAGTAGGGAAACA
*
15754970 GATCGAAGATGAA-GATCTTA
65 GATCGAAGACGAAGGATCTTA
*
15754990 ACCCCCTAAGCAGTAGGGAAACAGA
1 AACCCCTAAGCAGTAGGGAAACAGA
15755015 TCAAAGAAGA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
85 39 0.41
86 32 0.34
87 1 0.01
88 22 0.23
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (85 bp):
AACCCCTAAGCAGTAGGGAAACAGACCGAATTGCAGATCTTAACCCCTAAGCAGTAGGGAAACAG
ATCGAAGACGAAGGATCTTA
Found at i:15755526 original size:44 final size:44
Alignment explanation
Indices: 15755389--15755532 Score: 136
Period size: 44 Copynumber: 3.3 Consensus size: 44
15755379 AGATCTTATC
* *
15755389 CCCCTAAGCAGTAGTGGTGTAGATCGAAGACGAAGAACCTTAAA
1 CCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAA
* * * * * * *
15755433 CCCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTGCAG-ATCTT-AT
1 CCCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CGAAGAACCTTAAA
*
15755474 CTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAA
1 C-CCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAA
15755519 CCCCTAAGCAGTAG
1 CCCCTAAGCAGTAG
15755533 GGTAATAGGT
Statistics
Matches: 74, Mismatches: 18, Indels: 16
0.69 0.17 0.15
Matches are distributed among these distances:
41 2 0.03
42 22 0.30
43 14 0.19
44 34 0.46
45 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (44 bp):
CCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAA
Found at i:15755535 original size:86 final size:86
Alignment explanation
Indices: 15755341--15755627 Score: 337
Period size: 86 Copynumber: 3.3 Consensus size: 86
15755331 TTCATAGGAT
* *** *
15755341 CTTAAACCCCTAAGCAGTAGGGAAACAGACCAAATTGCAGATCTTATCCCCCTAAGCAGTAGTGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCACCCTAAGCAGTAGTGG
* *
15755406 TGTAGATCGAAGACGAAGAAC
66 AGCAGATCGAAGACGAAGAAC
* *
15755427 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCACCCTAAGCAGTAGTGG
15755492 AGCAGATCGAAGACGAAGAAC
66 AGCAGATCGAAGACGAAGAAC
* * * * **
15755513 CTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAGTATACAGATC-TAAAACCCTAAGCAGTAG-G
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAAT-TGCAGATCTTATCACCCTAAGCAGTAGTG
* * * *
15755576 GAAACAGATCAAAGATGACA-AGC
65 G-AGCAGATCGAAGACGA-AGAAC
* *
15755599 CTTAATCCCTTAAGCAGTAGGGTAACAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGG
15755628 CTGAAAATTA
Statistics
Matches: 175, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
85 2 0.01
86 165 0.94
87 8 0.05
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (86 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCACCCTAAGCAGTAGTGG
AGCAGATCGAAGACGAAGAAC
Found at i:15757803 original size:22 final size:21
Alignment explanation
Indices: 15757773--15757815 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
15757763 TACTACGTAC
*
15757773 ACATATTATTATTTTTAATATAT
1 ACATATTA-TATGTTT-ATATAT
15757796 ACAT-TTATATGTTTATATAT
1 ACATATTATATGTTTATATAT
15757816 CGTTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 3 0.16
23 4 0.21
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
ACATATTATATGTTTATATAT
Found at i:15762029 original size:29 final size:30
Alignment explanation
Indices: 15761971--15762029 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
15761961 ATCTTAAAAT
*
15761971 TATATATGAACTTTGATTTAATGTGCAATTG
1 TATATATGAACTTTAATTTAATGT-CAATTG
*
15762002 TATATATGAACTTTAATTTGATGT-AATT
1 TATATATGAACTTTAATTTAATGTCAATT
15762030 ATACAGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.15
31 22 0.85
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (30 bp):
TATATATGAACTTTAATTTAATGTCAATTG
Found at i:15784018 original size:80 final size:80
Alignment explanation
Indices: 15783934--15784082 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
15783924 TATGGTAACC
* * * *
15783934 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
15783998 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
15784014 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
15784079 CCGG
66 CCGG
15784083 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:15784024 original size:40 final size:38
Alignment explanation
Indices: 15783975--15784082 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
15783965 ATCACGATTT
*
15783975 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
15784015 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
15784055 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
15784083 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:15789790 original size:28 final size:28
Alignment explanation
Indices: 15789749--15789804 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
15789739 AAACATTCCA
* * *
15789749 CTTAAGATATTCCTTGGCAGATTTCCCT
1 CTTAAGAGAGTCCTTGGCAGACTTCCCT
15789777 CTTAAGAGAGTCCTTGGCAGACTTCCCT
1 CTTAAGAGAGTCCTTGGCAGACTTCCCT
15789805 TATTTTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (28 bp):
CTTAAGAGAGTCCTTGGCAGACTTCCCT
Found at i:15791430 original size:25 final size:27
Alignment explanation
Indices: 15791393--15791445 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
15791383 TCAAACATGC
15791393 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
15791419 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
15791445 A
1 A
15791446 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:15792966 original size:26 final size:26
Alignment explanation
Indices: 15792930--15793064 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
15792920 CATGAAATTC
*
15792930 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
15792956 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
15792982 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
15793008 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
15793034 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
15793059 TTATCA
1 TTATCA
15793065 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:15795102 original size:16 final size:16
Alignment explanation
Indices: 15795081--15795119 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
15795071 ATTTGGTTCA
*
15795081 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
15795097 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
15795113 CTGTAAT
1 CTGTAAT
15795120 AAGTAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:15795190 original size:44 final size:46
Alignment explanation
Indices: 15795105--15795194 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
15795095 GGCTGTAATT
*
15795105 GAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
***
15795151 GAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
15795195 ATGTTGTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 23 0.57
45 3 0.08
46 14 0.35
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.36
Consensus pattern (46 bp):
GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
Found at i:15795388 original size:17 final size:17
Alignment explanation
Indices: 15795366--15795398 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15795356 AATTATTATT
15795366 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
15795383 AAATATAATTTAATAA
1 AAATATAATTTAATAA
15795399 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:15795461 original size:18 final size:17
Alignment explanation
Indices: 15795438--15795471 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
15795428 TTAAAAAATC
15795438 AAAATATATAATACTATA
1 AAAATATATAAT-CTATA
15795456 AAAATATATAATCTAT
1 AAAATATATAATCTAT
15795472 TTTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATATATAATCTATA
Found at i:15798232 original size:22 final size:24
Alignment explanation
Indices: 15798207--15798250 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
15798197 GACACGTTAT
15798207 TTTTTGTTC-TGT-TTCTTCTTGG
1 TTTTTGTTCTTGTGTTCTTCTTGG
15798229 TTTTTGTTCTTGTGTTCTTCTT
1 TTTTTGTTCTTGTGTTCTTCTT
15798251 TTTGCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 8 0.40
ACGTcount: A:0.00, C:0.14, G:0.16, T:0.70
Consensus pattern (24 bp):
TTTTTGTTCTTGTGTTCTTCTTGG
Found at i:15802496 original size:32 final size:32
Alignment explanation
Indices: 15802455--15802519 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
15802445 TTGCAATTCG
*
15802455 TTTTATATTTGCCTTTGGCCTTTACATCTATC
1 TTTTATATTTGCCCTTGGCCTTTACATCTATC
*
15802487 TTTTATATTTTCCCTTGGCCTTTACATCTATC
1 TTTTATATTTGCCCTTGGCCTTTACATCTATC
15802519 T
1 T
15802520 CATCATCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.15, C:0.23, G:0.08, T:0.54
Consensus pattern (32 bp):
TTTTATATTTGCCCTTGGCCTTTACATCTATC
Found at i:15803692 original size:15 final size:16
Alignment explanation
Indices: 15803672--15803719 Score: 75
Period size: 15 Copynumber: 3.2 Consensus size: 16
15803662 CTATCCTCAG
15803672 TTAGCAAACCCGAT-T
1 TTAGCAAACCCGATCT
15803687 TTAGCAAACCC-ATCT
1 TTAGCAAACCCGATCT
15803702 TTAGCAAACCCG-TCT
1 TTAGCAAACCCGATCT
15803717 TTA
1 TTA
15803720 ATAACTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.06
15 29 0.94
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.29
Consensus pattern (16 bp):
TTAGCAAACCCGATCT
Found at i:15803927 original size:41 final size:41
Alignment explanation
Indices: 15803872--15804236 Score: 332
Period size: 41 Copynumber: 8.9 Consensus size: 41
15803862 CGTTTACTTA
* **
15803872 AAAACGCCAC-AAAAAATGAGAAATAGCGATGTTTTTATCT
1 AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTATCT
** *
15803912 AAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGTCT
1 AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTATCT
* * ** *
15803953 AAAACGCCACTAAATACAGATCAATAGCGGTGTTTTTATCT
1 AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTATCT
* * * *
15803994 -AAACGCCACTAAAAACTGGGGAAATAGTGGC-ATTTTAGTCC
1 AAAACGCCACTAAAAACT-GAGAAATAGCGGCGTTTTTA-TCT
* * ** *
15804035 CAAACGCCACT-AAAACTAATCAATAGCGGTGTTTTTATCT
1 AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTATCT
* *
15804075 AAAACGCCACTAAAAACTGGAGAAATAGCGCGGCATTTTTGTC-
1 AAAACGCCACTAAAAACT-GAGAAATA--GCGGCGTTTTTATCT
* ** *
15804118 CAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCC
1 AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTATCT
*
15804159 AAAACGCCACTAAAAACTAGAGAAATAGCGGCGTTTTTGTGC-
1 AAAACGCCACTAAAAACT-GAGAAATAGCGGCGTTTTTAT-CT
* ** *
15804201 -AAACGCCACT-AAAATTGATCAATAGCGGCATTTTTA
1 AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTA
15804237 GGCCCAAACG
Statistics
Matches: 265, Mismatches: 48, Indels: 25
0.78 0.14 0.07
Matches are distributed among these distances:
39 16 0.06
40 66 0.25
41 115 0.43
42 39 0.15
43 18 0.07
44 11 0.04
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTATCT
Found at i:15804009 original size:81 final size:81
Alignment explanation
Indices: 15803893--15804228 Score: 444
Period size: 82 Copynumber: 4.1 Consensus size: 81
15803883 AAAAATGAGA
* ** * *
15803893 AATAGCGATGTTTTTATCTAAAACGCCACTAAAAACT-GATCAATAGCGGCGTTTTTGTCTAAAA
1 AATAGCGGTGTTTTTATCTAAAACGCCACTAAAAACTGGAGAAATAGCGGCATTTTTGTC-CAAA
15803957 CGCCACTAAATACAGATC
65 CGCCACTAAA-ACAGATC
* * *
15803975 AATAGCGGTGTTTTTATCT-AAACGCCACTAAAAACTGGGGAAATAGTGGCATTTTAGTCCCAAA
1 AATAGCGGTGTTTTTATCTAAAACGCCACTAAAAACTGGAGAAATAGCGGCATTTTTGT-CCAAA
15804039 CGCCACTAAAACTA-ATC
65 CGCCACTAAAAC-AGATC
15804056 AATAGCGGTGTTTTTATCTAAAACGCCACTAAAAACTGGAGAAATAGCGCGGCATTTTTGTCCAA
1 AATAGCGGTGTTTTTATCTAAAACGCCACTAAAAACTGGAGAAATA--GCGGCATTTTTGTCCAA
*
15804121 ACGCCACTAAAAACTGATC
64 ACGCCACT-AAAACAGATC
* * * * *
15804140 AATAGCGGCGTTTTTATCCAAAACGCCACTAAAAACTAGAGAAATAGCGGCGTTTTTGTGCAAAC
1 AATAGCGGTGTTTTTATCTAAAACGCCACTAAAAACTGGAGAAATAGCGGCATTTTTGTCCAAAC
**
15804205 GCCACTAAAATTGATC
66 GCCACTAAAACAGATC
15804221 AATAGCGG
1 AATAGCGG
15804229 CATTTTTAGG
Statistics
Matches: 228, Mismatches: 18, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
81 58 0.25
82 95 0.42
83 13 0.06
84 62 0.27
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (81 bp):
AATAGCGGTGTTTTTATCTAAAACGCCACTAAAAACTGGAGAAATAGCGGCATTTTTGTCCAAAC
GCCACTAAAACAGATC
Found at i:15804245 original size:41 final size:41
Alignment explanation
Indices: 15803873--15804278 Score: 277
Period size: 41 Copynumber: 9.9 Consensus size: 41
15803863 GTTTACTTAA
* ** ** **
15803873 AAACGCCAC-AAAAAATGAGAAATAGCGATGTTTTTATCTA
1 AAACGCCACTAAAAATTGATCAATAGCGGCGTTTTTATCCC
* * **
15803913 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGTCTA
1 AAACGCCACTAAAAATTGATCAATAGCGGCGTTTTTATCCC
* ** * *
15803954 AAACGCCACTAAATACAGATCAATAGCGGTGTTTTTAT-CT
1 AAACGCCACTAAAAATTGATCAATAGCGGCGTTTTTATCCC
* *** * *
15803994 AAACGCCACTAAAAACTGGGGAAATAGTGGC-ATTTTAGTCCC
1 AAACGCCACTAAAAA-TTGATCAATAGCGGCGTTTTTA-TCCC
* * * **
15804036 AAACGCCACT-AAAACTAATCAATAGCGGTGTTTTTATCTA
1 AAACGCCACTAAAAATTGATCAATAGCGGCGTTTTTATCCC
* ** * *
15804076 AAACGCCACTAAAAACTGGAGAAATAGCGCGGCATTTTTGT-CC
1 AAACGCCACTAAAAA-TTGATCAATA--GCGGCGTTTTTATCCC
* *
15804119 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCA
1 AAACGCCACTAAAAATTGATCAATAGCGGCGTTTTTATCCC
* ** * *
15804160 AAACGCCACTAAAAACTAGAGAAATAGCGGCGTTTTTGT-GC
1 AAACGCCACTAAAAA-TTGATCAATAGCGGCGTTTTTATCCC
* *
15804201 AAACGCCACT-AAAATTGATCAATAGCGGCATTTTTAGGCCC
1 AAACGCCACTAAAAATTGATCAATAGCGGCGTTTTTA-TCCC
* * * * *
15804242 AAACGCCGCAAAAAAATTTATCTATAGCGGCATTTTT
1 AAACGCCAC-TAAAAATTGATCAATAGCGGCGTTTTT
15804279 TGATCAAACG
Statistics
Matches: 283, Mismatches: 68, Indels: 27
0.75 0.18 0.07
Matches are distributed among these distances:
39 17 0.06
40 62 0.22
41 116 0.41
42 40 0.14
43 38 0.13
44 10 0.04
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (41 bp):
AAACGCCACTAAAAATTGATCAATAGCGGCGTTTTTATCCC
Found at i:15804269 original size:43 final size:42
Alignment explanation
Indices: 15804104--15804298 Score: 127
Period size: 42 Copynumber: 4.7 Consensus size: 42
15804094 GAGAAATAGC
* * * *
15804104 GCGGCATTTTT-GTCCAAACGCCAC-TAAAAACTGATCAATA
1 GCGGCATTTTTGGACCAAACGCCGCAAAAAAATTGATCAATA
* * * * * **
15804144 GCGGCGTTTTT--ATCCAAAACGCCACTAAAAACTAGAGAAATA
1 GCGGCATTTTTGGA-CC-AAACGCCGCAAAAAAATTGATCAATA
* **
15804186 GCGGCGTTTTTGTG--CAAACG-C-CACTAAAATTGATCAATA
1 GCGGCATTTTTG-GACCAAACGCCGCAAAAAAATTGATCAATA
* * *
15804225 GCGGCATTTTTAGGCCCAAACGCCGCAAAAAAATTTATCTATA
1 GCGGCATTTTT-GGACCAAACGCCGCAAAAAAATTGATCAATA
* *
15804268 GCGGCATTTTTTGATCAAACGCCGCAAAAAA
1 GCGGCATTTTTGGACCAAACGCCGCAAAAAA
15804299 TTAAGCTGCC
Statistics
Matches: 121, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
39 22 0.18
40 14 0.12
41 20 0.17
42 40 0.33
43 25 0.21
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (42 bp):
GCGGCATTTTTGGACCAAACGCCGCAAAAAAATTGATCAATA
Found at i:15804290 original size:165 final size:164
Alignment explanation
Indices: 15803903--15804258 Score: 403
Period size: 165 Copynumber: 2.2 Consensus size: 164
15803893 AATAGCGATG
* * * * ** * *
15803903 TTTTTATCTAAAACGCCACTAAAAACT-GATCAATA-GCGGCGTTTTTGTCTAAAACGCCACTAA
1 TTTTTAGCCAAAACGCCACAAAAAAATGGAGAAATACGCGGCATTTTTGTC-CAAACGCCACTAA
* * * * * *
15803966 ATACAGATCAATAGCGGTGTTTTTATCTAAACGCCACTAAAAACTGGGGAAATAGTGGCATTTTA
65 AAACAGATCAATAGCGGCGTTTTTATCAAAACGCCACTAAAAACTAGAGAAATAGCGGCATTTTA
**
15804031 GTCCCAAACGCCACTAAAACTAATCAATAGCGGTG
130 GTCCCAAACGCCACTAAAACTAATCAATAGCGGCA
* * * *
15804066 TTTTTATCTAAAACGCCACTAAAAACTGGAGAAATAGCGCGGCATTTTTGTCCAAACGCCACTAA
1 TTTTTAGCCAAAACGCCACAAAAAAATGGAGAAATA-CGCGGCATTTTTGTCCAAACGCCACTAA
* *
15804131 AAACTGATCAATAGCGGCGTTTTTATCCAAAACGCCACTAAAAACTAGAGAAATAGCGGCGTTTT
65 AAACAGATCAATAGCGGCGTTTTTAT-CAAAACGCCACTAAAAACTAGAGAAATAGCGGCATTTT
* * * *
15804196 TGT-GCAAACGCCACTAAAATTGATCAATAGCGGCA
129 AGTCCCAAACGCCACTAAAACTAATCAATAGCGGCA
* *
15804231 TTTTTAGGCCCAAACGCCGCAAAAAAAT
1 TTTTTA-GCCAAAACGCCACAAAAAAAT
15804259 TTATCTATAG
Statistics
Matches: 164, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
163 27 0.16
164 6 0.04
165 68 0.41
166 63 0.38
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (164 bp):
TTTTTAGCCAAAACGCCACAAAAAAATGGAGAAATACGCGGCATTTTTGTCCAAACGCCACTAAA
AACAGATCAATAGCGGCGTTTTTATCAAAACGCCACTAAAAACTAGAGAAATAGCGGCATTTTAG
TCCCAAACGCCACTAAAACTAATCAATAGCGGCA
Found at i:15804742 original size:34 final size:36
Alignment explanation
Indices: 15804667--15804751 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 36
15804657 TTAAGGCCTG
15804667 TGGTTTAGGGTTGAAATGGTAGTATATATTTTAAGTTTA
1 TGGTTTAGGGTTGAAATGGTAGTATATA---TAAGTTTA
* *
15804706 TGGTTTAGGGTT-CAATGGTAGTATGTA-AAGTTTA
1 TGGTTTAGGGTTGAAATGGTAGTATATATAAGTTTA
*
15804740 TGGTTTGGGGTT
1 TGGTTTAGGGTT
15804752 TGCTATTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 18 0.42
38 13 0.30
39 12 0.28
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.45
Consensus pattern (36 bp):
TGGTTTAGGGTTGAAATGGTAGTATATATAAGTTTA
Found at i:15804844 original size:15 final size:15
Alignment explanation
Indices: 15804821--15804962 Score: 96
Period size: 15 Copynumber: 9.7 Consensus size: 15
15804811 TTTAAAGTGT
15804821 TTAGGGTTTACGGTA
1 TTAGGGTTTACGGTA
* ** *
15804836 TTAGTGTTTAAAGTT
1 TTAGGGTTTACGGTA
* *
15804851 TTAAGCG-TTAGGGTA
1 TT-AGGGTTTACGGTA
15804866 TTAGGGTTTACGGTA
1 TTAGGGTTTACGGTA
* ** *
15804881 TTAGTGTTTAAAGTT
1 TTAGGGTTTACGGTA
* *
15804896 TTAAGCG-TTAGGGTA
1 TT-AGGGTTTACGGTA
*
15804911 TTAGGGTTTAGGGT-
1 TTAGGGTTTACGGTA
*
15804925 TTAGGGTTTAGGGT-
1 TTAGGGTTTACGGTA
*
15804939 TTAGGGTTTAGGGT-
1 TTAGGGTTTACGGTA
15804953 TTAGGGTTTA
1 TTAGGGTTTA
15804963 AAGTTTATTA
Statistics
Matches: 104, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
14 44 0.42
15 54 0.52
16 6 0.06
ACGTcount: A:0.21, C:0.03, G:0.33, T:0.43
Consensus pattern (15 bp):
TTAGGGTTTACGGTA
Found at i:15804885 original size:45 final size:45
Alignment explanation
Indices: 15804821--15804934 Score: 203
Period size: 45 Copynumber: 2.6 Consensus size: 45
15804811 TTTAAAGTGT
15804821 TTAGGGTTTACGGTATTAGTGTTTAAAGTTTTAAGCGTTAGGGTA
1 TTAGGGTTTACGGTATTAGTGTTTAAAGTTTTAAGCGTTAGGGTA
15804866 TTAGGGTTTACGGTATTAGTGTTTAAAGTTTTAAGCGTTAGGGTA
1 TTAGGGTTTACGGTATTAGTGTTTAAAGTTTTAAGCGTTAGGGTA
* *
15804911 TTAGGGTTTAGGGT-TTAGGGTTTA
1 TTAGGGTTTACGGTATTAGTGTTTA
15804935 GGGTTTAGGG
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
44 9 0.13
45 58 0.87
ACGTcount: A:0.23, C:0.04, G:0.31, T:0.43
Consensus pattern (45 bp):
TTAGGGTTTACGGTATTAGTGTTTAAAGTTTTAAGCGTTAGGGTA
Found at i:15804923 original size:7 final size:7
Alignment explanation
Indices: 15804858--15804962 Score: 113
Period size: 7 Copynumber: 14.4 Consensus size: 7
15804848 GTTTTAAGCG
15804858 TTAGGGT
1 TTAGGGT
15804865 ATTAGGGT
1 -TTAGGGT
*
15804873 TTACGGT
1 TTAGGGT
*
15804880 ATTAGTGT
1 -TTAGGGT
* *
15804888 TTAAAGTT
1 TT-AGGGT
*
15804896 TTAAGCG-
1 TT-AGGGT
15804903 TTAGGGT
1 TTAGGGT
15804910 ATTAGGGT
1 -TTAGGGT
15804918 TTAGGGT
1 TTAGGGT
15804925 TTAGGGT
1 TTAGGGT
15804932 TTAGGGT
1 TTAGGGT
15804939 TTAGGGT
1 TTAGGGT
15804946 TTAGGGT
1 TTAGGGT
15804953 TTAGGGT
1 TTAGGGT
15804960 TTA
1 TTA
15804963 AAGTTTATTA
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
6 3 0.04
7 55 0.66
8 25 0.30
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:15805176 original size:41 final size:41
Alignment explanation
Indices: 15805059--15805165 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 41
15805049 GTCTCCAAGG
* * * * *
15805059 GAATTAGTGGCATTTTTAAAAATATCGCCGCTAAAAATAGA
1 GAATTAGCGGCTTTTTTAAAAAAAGCACCGCTAAAAATAGA
*
15805100 GAATTAGCGGCTTTTTTAAAAAAAGCACTGCTAAAAATAGA
1 GAATTAGCGGCTTTTTTAAAAAAAGCACCGCTAAAAATAGA
*
15805141 GAATTAGCGACGCTTTTTTTAAAAA
1 GAATTAGCG--GCTTTTTTAAAAAA
15805166 CTCCGCTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 44 0.77
43 13 0.23
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (41 bp):
GAATTAGCGGCTTTTTTAAAAAAAGCACCGCTAAAAATAGA
Found at i:15806701 original size:21 final size:21
Alignment explanation
Indices: 15806677--15806721 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
15806667 TTCTGTTCTG
*
15806677 CTCTGCCTCCCTCGCTGCTGC
1 CTCTGCCTCCCACGCTGCTGC
15806698 CTCTGCCTCCCACGCTGCTGC
1 CTCTGCCTCCCACGCTGCTGC
15806719 CTC
1 CTC
15806722 CGTTCTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.53, G:0.18, T:0.27
Consensus pattern (21 bp):
CTCTGCCTCCCACGCTGCTGC
Found at i:15812989 original size:241 final size:242
Alignment explanation
Indices: 15812565--15813052 Score: 888
Period size: 241 Copynumber: 2.0 Consensus size: 242
15812555 TTAAGGTTAT
*
15812565 ATAAATATTCAATAATAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTTAAGA
1 ATAAATATTCAATAATAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTTAAGA
*
15812630 TTCATCATACGTGGCGTTGTTACACTTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGC
66 TTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGC
* * *
15812695 AACCCGTCAGGTTTCCATCCTATATACTTTGAATCTTTAAAATATTTAAAATAAAGTTGGAGAGA
131 AACCCATCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAAGTTGGAAAGA
* *
15812760 AGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 AGGCCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTAAATGGTA
*
15812807 ATAAATATTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA-TTTTTTAAGA
1 ATAAATATTCAATAATAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTTAAGA
15812871 TTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGC
66 TTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGC
*
15812936 AACCCATCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAAAGA
131 AACCCATCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAAGTTGGAAAGA
15813001 AGGCCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTAAATGGTA
196 AGGCCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTAAATGGTA
15813048 ATAAA
1 ATAAA
15813053 ATTAATTCAT
Statistics
Matches: 237, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
241 185 0.78
242 52 0.22
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (242 bp):
ATAAATATTCAATAATAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTTAAGA
TTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGC
AACCCATCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAAGTTGGAAAGA
AGGCCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTAAATGGTA
Found at i:15814448 original size:17 final size:17
Alignment explanation
Indices: 15814422--15814465 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
15814412 AGTTCAAGCA
15814422 AATATAAAAACTTGATC
1 AATATAAAAACTTGATC
*
15814439 AATATCAAAACTTGATC
1 AATATAAAAACTTGATC
15814456 AAATATAAAA
1 -AATATAAAA
15814466 TTTTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (17 bp):
AATATAAAAACTTGATC
Found at i:15816025 original size:44 final size:44
Alignment explanation
Indices: 15815909--15816001 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 44
15815899 GGGAACAGAT
* *
15815909 TTAGGGAAA-AAAGTATGGGG-AAAG-GGGGATTTGGGGAAAATG
1 TTAGGGAAATGAA-TATGGGGAAAAGAGGGGATTTGAGGAAAATG
15815951 TTAGGGAAATGAATATGGGGAAAAGAGGGGATTTGAGGAAAATG
1 TTAGGGAAATGAATATGGGGAAAAGAGGGGATTTGAGGAAAATG
15815995 TTAGGGA
1 TTAGGGA
15816002 TTTCGAGTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
42 16 0.35
43 6 0.13
44 24 0.52
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (44 bp):
TTAGGGAAATGAATATGGGGAAAAGAGGGGATTTGAGGAAAATG
Found at i:15816985 original size:2 final size:2
Alignment explanation
Indices: 15816978--15817017 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15816968 TTAGACCAAC
15816978 AT AT 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 AT AT
15817018 TACAAGGGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15817243 original size:14 final size:14
Alignment explanation
Indices: 15817209--15817290 Score: 64
Period size: 14 Copynumber: 6.0 Consensus size: 14
15817199 ACTAGGTAAC
*
15817209 TCTTAAACCTTAAA
1 TCTTAAACCATAAA
* *
15817223 CCCTAAACCATAAA
1 TCTTAAACCATAAA
15817237 TCTTAAACCAT--A
1 TCTTAAACCATAAA
*
15817249 -GTT-AACTCATAAA
1 TCTTAAAC-CATAAA
* *
15817262 CCTTAAACTCATATA
1 TCTTAAAC-CATAAA
15817277 TCTTAAACCATAAA
1 TCTTAAACCATAAA
15817291 CCATAAACTA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
10 3 0.06
11 5 0.09
12 1 0.02
13 1 0.02
14 27 0.51
15 16 0.30
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.29
Consensus pattern (14 bp):
TCTTAAACCATAAA
Found at i:15817292 original size:7 final size:7
Alignment explanation
Indices: 15817212--15817303 Score: 58
Period size: 7 Copynumber: 12.4 Consensus size: 7
15817202 AGGTAACTCT
*
15817212 TAAACCT
1 TAAACCA
*
15817219 TAAACCC
1 TAAACCA
15817226 TAAACCA
1 TAAACCA
* *
15817233 TAAATCT
1 TAAACCA
15817240 TAAACCA
1 TAAACCA
15817247 TAGTTAACTCA
1 TA---AAC-CA
*
15817258 TAAACCT
1 TAAACCA
15817265 TAAACTCA
1 TAAAC-CA
* * *
15817273 TATATCT
1 TAAACCA
15817280 TAAACCA
1 TAAACCA
15817287 TAAACCA
1 TAAACCA
*
15817294 TAAACTA
1 TAAACCA
15817301 TAA
1 TAA
15817304 TGATAATTAA
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
7 51 0.78
8 7 0.11
10 3 0.05
11 4 0.06
ACGTcount: A:0.48, C:0.24, G:0.01, T:0.27
Consensus pattern (7 bp):
TAAACCA
Found at i:15817584 original size:12 final size:12
Alignment explanation
Indices: 15817569--15817594 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15817559 GTTTTTTTAT
15817569 AAAATGCCGCTA
1 AAAATGCCGCTA
15817581 AAAATGCCGCTA
1 AAAATGCCGCTA
15817593 AA
1 AA
15817595 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (12 bp):
AAAATGCCGCTA
Found at i:15818255 original size:9 final size:9
Alignment explanation
Indices: 15818241--15818556 Score: 147
Period size: 9 Copynumber: 35.2 Consensus size: 9
15818231 TATTATTTAA
15818241 TACATAACT
1 TACATAACT
15818250 TACATAACT
1 TACATAACT
*
15818259 TATATAA--
1 TACATAACT
15818266 TACATAACT
1 TACATAACT
* *
15818275 TACATCATT
1 TACATAACT
*
15818284 TACGTAACT
1 TACATAACT
15818293 TACATAA--
1 TACATAACT
15818300 TACATAACT
1 TACATAACT
*
15818309 TACATAATT
1 TACATAACT
* *
15818318 TAAAGATCAAAT
1 T--ACAT-AACT
**
15818330 TTTATAACT
1 TACATAACT
*
15818339 TACATAATT
1 TACATAACT
*
15818348 TACAAAACT
1 TACATAACT
15818357 TACATAA--
1 TACATAACT
* *
15818364 TACATGAGT
1 TACATAACT
*
15818373 TACATAATT
1 TACATAACT
* *
15818382 TAAAGATCAAAAT
1 T--ACAT--AACT
* *
15818395 TTCAAAACT
1 TACATAACT
15818404 TACATAA--
1 TACATAACT
15818411 TACATAACT
1 TACATAACT
*
15818420 TACATAATT
1 TACATAACT
* *
15818429 TAAAGATCAAAT
1 T--ACAT-AACT
*
15818441 TTCATAACT
1 TACATAACT
15818450 TACATAA--
1 TACATAACT
15818457 TACATAACT
1 TACATAACT
*
15818466 TACATAATT
1 TACATAACT
* *
15818475 TAAAGATCAAAT
1 T--ACAT-AACT
*
15818487 TTCATAACT
1 TACATAACT
*
15818496 TACATAATT
1 TACATAACT
*
15818505 TAAATAACT
1 TACATAACT
15818514 TACATAA--
1 TACATAACT
*
15818521 TAAATAACT
1 TACATAACT
15818530 TACATAA--
1 TACATAACT
*
15818537 TACATGACT
1 TACATAACT
15818546 TACATAACT
1 TACATAACT
15818555 TA
1 TA
15818557 ATTATACTTA
Statistics
Matches: 227, Mismatches: 53, Indels: 54
0.68 0.16 0.16
Matches are distributed among these distances:
7 45 0.20
9 147 0.65
10 6 0.03
11 13 0.06
12 12 0.05
13 4 0.02
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (9 bp):
TACATAACT
Found at i:15818271 original size:16 final size:16
Alignment explanation
Indices: 15818250--15818552 Score: 151
Period size: 16 Copynumber: 19.0 Consensus size: 16
15818240 ATACATAACT
*
15818250 TACATAACTTATATAA
1 TACATAACTTACATAA
*
15818266 TACATAACTTACATCATT
1 TACATAACTTACAT-A-A
*
15818284 TACGTAACTTACATAA
1 TACATAACTTACATAA
15818300 TACATAACTTACATAA
1 TACATAACTTACATAA
** **
15818316 TTTA-AAGAT-CA-AA
1 TACATAACTTACATAA
**
15818329 TTTTATAACTTACATAA
1 -TACATAACTTACATAA
*
15818346 TTTACAAAACTTACATAA
1 --TACATAACTTACATAA
* *
15818364 TACATGAGTTACATAA
1 TACATAACTTACATAA
** ** *
15818380 TTTA-AAGAT-CAAAA
1 TACATAACTTACATAA
* *
15818394 TTTCAAAACTTACATAA
1 -TACATAACTTACATAA
15818411 TACATAACTTACATAA
1 TACATAACTTACATAA
** **
15818427 TTTA-AAGAT-CA-AA
1 TACATAACTTACATAA
*
15818440 TTTCATAACTTACATAA
1 -TACATAACTTACATAA
15818457 TACATAACTTACATAA
1 TACATAACTTACATAA
** **
15818473 TTTA-AAGAT-CA-AA
1 TACATAACTTACATAA
*
15818486 TTTCATAACTTACATAA
1 -TACATAACTTACATAA
*
15818503 TTTAAATAACTTACATAA
1 --TACATAACTTACATAA
*
15818521 TAAATAACTTACATAA
1 TACATAACTTACATAA
*
15818537 TACATGACTTACATAA
1 TACATAACTTACATAA
15818553 CTTAATTATA
Statistics
Matches: 221, Mismatches: 47, Indels: 38
0.72 0.15 0.12
Matches are distributed among these distances:
13 6 0.03
14 20 0.09
15 24 0.11
16 117 0.53
17 12 0.05
18 42 0.19
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.35
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:15818292 original size:34 final size:34
Alignment explanation
Indices: 15818241--15818552 Score: 215
Period size: 34 Copynumber: 9.7 Consensus size: 34
15818231 TATTATTTAA
* *
15818241 TACATAACTTACATAACTTATATAATACATAACT
1 TACATAATTTACATAACTTACATAATACATAACT
* *
15818275 TACATCATTTACGTAACTTACATAATACATAACT
1 TACATAATTTACATAACTTACATAATACATAACT
**
15818309 TACATAATTTA-A-AGA--T-CA-AATTTTATAACT
1 TACATAATTTACATA-ACTTACATAA-TACATAACT
* * *
15818339 TACATAATTTACAAAACTTACATAATACATGAGT
1 TACATAATTTACATAACTTACATAATACATAACT
* * *
15818373 TACATAATTTA-A-AGA--T-CAAAATTTCAAAACT
1 TACATAATTTACATA-ACTTACATAA-TACATAACT
** **
15818404 TACATAA--TACATAACTTACATAATTTA-AAGA
1 TACATAATTTACATAACTTACATAATACATAACT
15818435 T-CA-AATTT-CATAACTTACATAATACATAACT
1 TACATAATTTACATAACTTACATAATACATAACT
*
15818466 TACATAATTTA-A-AGA--T-CA-AATTTCATAACT
1 TACATAATTTACATA-ACTTACATAA-TACATAACT
* *
15818496 TACATAATTTAAATAACTTACATAATAAATAACT
1 TACATAATTTACATAACTTACATAATACATAACT
*
15818530 TACATAA--TACATGACTTACATAA
1 TACATAATTTACATAACTTACATAA
15818553 CTTAATTATA
Statistics
Matches: 219, Mismatches: 30, Indels: 60
0.71 0.10 0.19
Matches are distributed among these distances:
29 8 0.04
30 65 0.30
31 27 0.12
32 25 0.11
33 16 0.07
34 74 0.34
35 4 0.02
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.35
Consensus pattern (34 bp):
TACATAATTTACATAACTTACATAATACATAACT
Found at i:15818357 original size:64 final size:65
Alignment explanation
Indices: 15818268--15818427 Score: 236
Period size: 64 Copynumber: 2.5 Consensus size: 65
15818258 TTATATAATA
* *
15818268 CATAACTTACATCATTTACGTAACTTACATAATACATAACTTACATAATTTAAAGATC-AAATTT
1 CATAACTTACATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAAATTT
* * * *
15818332 TATAACTTACATAATTTACAAAACTTACATAATACATGAGTTACATAATTTAAAGATCAAAATTT
1 CATAACTTACATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAAATTT
*
15818397 CAAAACTTACATAA--TACATAACTTACATAAT
1 CATAACTTACATAATTTACATAACTTACATAAT
15818428 TTAAAGATCA
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
63 16 0.19
64 52 0.60
65 18 0.21
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (65 bp):
CATAACTTACATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAAATTT
Found at i:15818458 original size:46 final size:46
Alignment explanation
Indices: 15818344--15818521 Score: 275
Period size: 46 Copynumber: 3.8 Consensus size: 46
15818334 TAACTTACAT
* *
15818344 AATTTACAAAACTTACATAATACATGAGTTACATAATTTAAAGATCAA
1 AATTT-CAAAACTTACATAATACATAACTTACATAATTTAAAGATC-A
15818392 AATTTCAAAACTTACATAATACATAACTTACATAATTTAAAGATCA
1 AATTTCAAAACTTACATAATACATAACTTACATAATTTAAAGATCA
*
15818438 AATTTCATAACTTACATAATACATAACTTACATAATTTAAAGATCA
1 AATTTCAAAACTTACATAATACATAACTTACATAATTTAAAGATCA
* *
15818484 AATTTCATAACTTACATAATTTAAATAACTTACATAAT
1 AATTTCAAAACTTACATAA--TACATAACTTACATAAT
15818522 AAATAACTTA
Statistics
Matches: 124, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
46 65 0.52
47 38 0.31
48 21 0.17
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (46 bp):
AATTTCAAAACTTACATAATACATAACTTACATAATTTAAAGATCA
Found at i:15820688 original size:136 final size:136
Alignment explanation
Indices: 15820444--15820728 Score: 552
Period size: 136 Copynumber: 2.1 Consensus size: 136
15820434 CATTGGGCCT
**
15820444 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
15820509 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
15820574 ATATGC
131 ATATGC
15820580 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
15820645 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
15820710 ATATGC
131 ATATGC
15820716 AAGCCCATTTGGG
1 AAGCCCATTTGGG
15820729 GAGACTACTC
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:15822536 original size:26 final size:26
Alignment explanation
Indices: 15822500--15822608 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
15822490 ACATGAATTC
15822500 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAAACCA
*
15822526 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCA
* * *
15822552 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAAACCA
*
15822578 TTATCATGGAACATTTACCT-AACCA
1 TTATCATGAAACATTTACCTAAACCA
15822603 TTATCA
1 TTATCA
15822609 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.13
26 67 0.87
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAAACCA
Found at i:15827500 original size:12 final size:12
Alignment explanation
Indices: 15827483--15827513 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15827473 AGTACTACCT
15827483 CGGCCTCGACCA
1 CGGCCTCGACCA
15827495 CGGCCTCGACCA
1 CGGCCTCGACCA
15827507 CGGCCTC
1 CGGCCTC
15827514 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:15828860 original size:64 final size:64
Alignment explanation
Indices: 15828787--15828994 Score: 163
Period size: 64 Copynumber: 3.2 Consensus size: 64
15828777 CTGGGCCAGA
*
15828787 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * ***** * ** *
15828851 GCCCATTTCAAAATAC-ATGCAACATCAATAACATATGCAAGCCC--ATTTGGGTAACAGGTACT
1 GCCCATTTCAGATTACAAT--AA-A-CTGGGCCTTA-GC---CCCTTATTCAGATAACA-GTA-T
* *
15828913 GGGCCAGA-
56 GGCCCATAG
*
15828921 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
15828985 GCCCATTTCA
1 GCCCATTTCA
15828995 AAATACATGC
Statistics
Matches: 101, Mismatches: 29, Indels: 28
0.64 0.18 0.18
Matches are distributed among these distances:
63 12 0.12
64 25 0.25
65 11 0.11
66 3 0.03
67 8 0.08
68 3 0.03
69 11 0.11
70 16 0.16
71 12 0.12
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:15829013 original size:134 final size:135
Alignment explanation
Indices: 15828753--15829035 Score: 532
Period size: 134 Copynumber: 2.1 Consensus size: 135
15828743 CATTGGGCCT
**
15828753 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAG-GGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
15828818 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
15828883 ATATGC
130 ATATGC
15828889 AAGCCCATTTGGGTAACA-GGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
15828953 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
15829018 TATGC
131 TATGC
15829023 AAGCCCATTTGGG
1 AAGCCCATTTGGG
15829036 GAGACTACTC
Statistics
Matches: 145, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
134 129 0.89
136 16 0.11
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (135 bp):
AAGCCCATTTGGGTAACAGGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
TATGC
Found at i:15830849 original size:26 final size:26
Alignment explanation
Indices: 15830813--15830922 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
15830803 ACATGAATTC
*
15830813 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
15830839 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
15830865 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
15830891 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
15830917 TTATCA
1 TTATCA
15830923 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15831710 original size:16 final size:15
Alignment explanation
Indices: 15831689--15831720 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
15831679 GTTGGATCTG
15831689 AAATCTTGTTTATGTT
1 AAATCTTGTTTA-GTT
15831705 AAATCTTGTTTAGTT
1 AAATCTTGTTTAGTT
15831720 A
1 A
15831721 TGGAAGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
AAATCTTGTTTAGTT
Found at i:15836744 original size:15 final size:15
Alignment explanation
Indices: 15836724--15836755 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
15836714 AGTTTCTAAG
15836724 GTACATCCCTATATA
1 GTACATCCCTATATA
15836739 GTACATCCCTATATA
1 GTACATCCCTATATA
15836754 GT
1 GT
15836756 TTGTCTACCC
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:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (15 bp):
GTACATCCCTATATA
Found at i:15838687 original size:26 final size:26
Alignment explanation
Indices: 15838658--15838710 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
15838648 TCAAACATGC
15838658 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
15838684 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
15838710 A
1 A
15838711 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:15840223 original size:26 final size:26
Alignment explanation
Indices: 15840192--15840299 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
15840182 TGAAATGCCC
*
15840192 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
15840218 ATCATGGAGCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* ** *
15840244 ATCATGTATTATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
15840270 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15840296 ATCA
1 ATCA
15840300 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15842579 original size:13 final size:14
Alignment explanation
Indices: 15842563--15842591 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15842553 TTATAAATAT
15842563 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
15842576 TTATAATGGTTTAA
1 TTATAATGGTTTAA
15842590 TT
1 TT
15842592 CATGTTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:15843467 original size:43 final size:42
Alignment explanation
Indices: 15843420--15843521 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 42
15843410 AAAGTTAGGG
* *
15843420 CTTTTAGCGGCGTTTGT-GATAAAAACGCCACTAAAAGCCCTGA
1 CTTTTAGCGGCGTTT-TCCA-AAAAACGCCACTAAAAACCCTGA
* * *
15843463 CTTTTAGCGGCGCTTTTCCAAGAAATGCCGCTAAAAACCCTGA
1 CTTTTAGCGGCG-TTTTCCAAAAAACGCCACTAAAAACCCTGA
*
15843506 CTTTTAGTGGCGTTTT
1 CTTTTAGCGGCGTTTT
15843522 TAGAGATAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
42 4 0.08
43 43 0.84
44 4 0.08
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (42 bp):
CTTTTAGCGGCGTTTTCCAAAAAACGCCACTAAAAACCCTGA
Found at i:15844226 original size:22 final size:22
Alignment explanation
Indices: 15844201--15844242 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
15844191 TTGACAATCA
15844201 AAGAATCAAACAAAAAAAAAAC
1 AAGAATCAAACAAAAAAAAAAC
15844223 AAGAATCAAACAAAAAAAAA
1 AAGAATCAAACAAAAAAAAA
15844243 TAGTTGGTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.79, C:0.12, G:0.05, T:0.05
Consensus pattern (22 bp):
AAGAATCAAACAAAAAAAAAAC
Found at i:15846541 original size:17 final size:16
Alignment explanation
Indices: 15846508--15846537 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15846498 CATTTAAAAA
15846508 AAAAAAGAGATCATTC
1 AAAAAAGAGATCATTC
15846524 AAAAAA-AGATCATT
1 AAAAAAGAGATCATT
15846538 TTCATTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (16 bp):
AAAAAAGAGATCATTC
Found at i:15846641 original size:64 final size:64
Alignment explanation
Indices: 15846571--15846778 Score: 335
Period size: 64 Copynumber: 3.2 Consensus size: 64
15846561 TTCATAACAC
* *
15846571 GTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGATATCAGCATCACATCTA
1 GTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCATCACATCTA
* * * * *
15846635 ATTAGGAGTATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCATCACATCTA
1 GTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCATCACATCTA
*
15846699 GTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGTATCACATCTA
1 GTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCATCACATCTA
*
15846763 GTTAGGAGTATTTGAT
1 GTTAGGAGCATTTGAT
15846779 CATAGCATCC
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 130 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (64 bp):
GTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCATCACATCTA
Found at i:15847180 original size:44 final size:46
Alignment explanation
Indices: 15847097--15847192 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 46
15847087 AGCCACCAGC
* ** ** *
15847097 CTTATC-TCTCTAAAGTAGCAAGGGAGCAGGTTGGCGATTGTAG-T
1 CTTATCTTCTCTAAAGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
*
15847141 CTTATCTTC-CTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
1 CTTATCTTCTCTAAAGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
15847186 CTTATCT
1 CTTATCT
15847193 CCATATACTG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
44 33 0.77
45 10 0.23
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (46 bp):
CTTATCTTCTCTAAAGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
Found at i:15847236 original size:132 final size:133
Alignment explanation
Indices: 15847051--15847322 Score: 361
Period size: 132 Copynumber: 2.1 Consensus size: 133
15847041 AAGATGGCGA
*
15847051 ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGC
1 ATCTTATCTCCATATATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGC
* ** * * *
15847116 AAGGGAGCAGGTTGGCGATTG-TAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATT
66 AAGAGAGCAGGTTGAAGA-TGATAGTCTTATCTTCCTAAGGCAGCAAAGAAGCAGACTAAAGATT
15847180 GAAG
130 GAAG
* * * * *
15847184 ATCTTATCTCCATATA-CTGTAATGGAGCAGATTTTAGCCA-CTGACCTTATCTCTCTGAGGTAG
1 ATCTTATCTCCATATATCGGCAATGGAGCAGATTTTAGCCACCAG-CCTTATCTCTCTAAAGTAG
* *
15847247 CAAGAGAGCAGGTTGAAGATGATAGTCTTATCTTTCTGAGGCAGCAAAGAAGCAGACTAAAGATT
65 CAAGAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTAAGGCAGCAAAGAAGCAGACTAAAGATT
*
15847312 GCAG
130 GAAG
*
15847316 GTCTTAT
1 ATCTTAT
15847323 TTCCCTAAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
131 4 0.03
132 102 0.84
133 15 0.12
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (133 bp):
ATCTTATCTCCATATATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGC
AAGAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTAAGGCAGCAAAGAAGCAGACTAAAGATTG
AAG
Found at i:15847480 original size:309 final size:310
Alignment explanation
Indices: 15846960--15847626 Score: 780
Period size: 309 Copynumber: 2.1 Consensus size: 310
15846950 CTCAATATAC
* *
15846960 AAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGATTGAAGGTTGAAGATCTTATCTCCCTAAGCA
1 AAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCA
* * * * * * * *
15847025 GTAGTAGGGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGC
66 GTAGTAGGACAAACCAAAGACGACAAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTTAGC
* * ** *
15847090 CACCAGCCTTATCTCTCTAAAGTAGCAAGGGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTAAG
131 CACCAGCCTTATCTCCCTAAAGTAGCAAGGGAGCAGGCT-GCGATTCAAGTCTTATCTCCCTAAG
* *
15847155 GTAGCAAGGAAGCAGACTGAAGATT-GAAGATCTTATCTCCATATA-CTG-TAATGGAGCAGATT
195 GTAGCAAGGAAGCAGACTGAAGATTGGAAAATCTTATCTCCATATATC-GACAATGGAGCAGATT
* * *
15847217 TTAGCCAC-TGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA-TG
259 TAAGCCCCAAG-CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG
* * * * * * * *
15847268 ATAGTCTTATCTTTCTGAGGCAGCAAAGAAGCAGACTAAAGATTGCAGGTCTTATTTCCCTAAGC
1 A-AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGC
*
15847333 AGTAGT-GGAATAAACCAAAGACGACAAATCTTATCTCCATGTACCGGCAATGGAGCAGA-TTTA
65 AGTAGTAGG-ACAAACCAAAGACGACAAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTTA
* * * *
15847396 GGTCACCAGCCTTATCTCCCTGAAGTTA-C-AGTGGGGTAGGCT-CGATATACAAGTCTTATCTC
129 -GCCACCAGCCTTATCTCCCTAAAG-TAGCAAG-GGAGCAGGCTGCGAT-T-CAAGTCTTATCTC
* * * * *
15847458 CCTGAGGTTGC-AGTGGAGCAGACTGAAGATTGGAGGAAAATCTTATCTTCATGTATCGACAATG
189 CCTAAGGTAGCAAG-GAAGCAGACTGAAGATT---GGAAAATCTTATCTCCATATATCGACAATG
*
15847522 GAGTAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG
250 GAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG
15847583 AAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTG
1 AAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTG
15847627 GAGGCAAATC
Statistics
Matches: 299, Mismatches: 44, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
307 4 0.01
308 12 0.04
309 164 0.55
310 2 0.01
313 18 0.06
314 95 0.32
315 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (310 bp):
AAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCA
GTAGTAGGACAAACCAAAGACGACAAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTTAGC
CACCAGCCTTATCTCCCTAAAGTAGCAAGGGAGCAGGCTGCGATTCAAGTCTTATCTCCCTAAGG
TAGCAAGGAAGCAGACTGAAGATTGGAAAATCTTATCTCCATATATCGACAATGGAGCAGATTTA
AGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG
Found at i:15847521 original size:137 final size:137
Alignment explanation
Indices: 15847358--15847762 Score: 419
Period size: 137 Copynumber: 3.0 Consensus size: 137
15847348 CAAAGACGAC
* * *
15847358 AAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAGGTCACC-AGCCTTATCTCCCTGAAGT
1 AAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAG-CACCAAGCCTTATCTCCCTG-AGG
* * * * * * *
15847422 TA-C-AGTGGGGTAGGCTCG-ATATACAAGTCTTATCTCCCTGAGGTTGC-AGTGGAGCAGACTG
64 TAGCAAG-AGAGCAGG-TCGAAGATACAAGTCTTATCTCCCTAAGGTAGCAAG-GAAGCAGACTG
15847483 AAGATTGGAGGA
126 AAGATTGGAGGA
* * * * *
15847495 AAATCTTATCTTCATGTATCGACAATGGAGTAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTA
1 AAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCACCAAGCCTTATCTCCCTGAGGTA
* ** *
15847560 GCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGAT
66 GCAAGAGAGCAGGTCGAAGATACAAGTCTTATCTCCCTAAGGTAGCAAGGAAGCAGACTGAAGAT
*
15847625 TGGAGGC
131 TGGAGGA
* *
15847632 AAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGC-CTGAAGCCTTATCTCTCTGAGGT
1 AAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCAC-CAAGCCTTATCTCCCTGAGGT
* ** ** ** * * *
15847696 AGCAAGAGAGCAGATTAAAGAT-TGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTAAAGA
65 AGCAAGAGAGCAGGTCGAAGATACAAGTCTTATCTCCCTAAGGTAGCAAGGAAGCAGACTGAAGA
15847760 TTG
130 TTG
15847763 AAGATCTTAT
Statistics
Matches: 230, Mismatches: 32, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
136 49 0.21
137 177 0.77
138 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (137 bp):
AAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCACCAAGCCTTATCTCCCTGAGGTA
GCAAGAGAGCAGGTCGAAGATACAAGTCTTATCTCCCTAAGGTAGCAAGGAAGCAGACTGAAGAT
TGGAGGA
Found at i:15847591 original size:44 final size:44
Alignment explanation
Indices: 15847543--15847775 Score: 186
Period size: 44 Copynumber: 5.2 Consensus size: 44
15847533 AGCCCCAAGC
* *
15847543 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTAAAGATTGAAGT
* * * * *
15847587 CTTATCT-TCCTAAGGTAGCAAG-GAAGCAGACTGAAGATTGGAGG
1 CTTATCTCT-CTGAGGTAGCAAGAG-AGCAGATTAAAGATTGAAGT
** * * * * ** *
15847631 CAAATCTTATCTCCATGTATCGGCAATG-GAGCAGATTTAAGCCTGAAGC
1 CTTATC-TCTCT-GAGGTA---GCAA-GAGAGCAGATTAAAGATTGAAGT
15847680 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTAAAGATTG-AGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTAAAGATTGAAGT
* * *
15847723 CTTATCTTTCTGAGGTAGCAAGAAAGCAGACTAAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTAAAGATTGAAG-T
15847768 CTTATCTC
1 CTTATCTC
15847776 CCCTAAGCAA
Statistics
Matches: 149, Mismatches: 28, Indels: 23
0.75 0.14 0.12
Matches are distributed among these distances:
43 42 0.28
44 59 0.40
45 11 0.07
46 5 0.03
47 4 0.03
48 4 0.03
49 22 0.15
50 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (44 bp):
CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTAAAGATTGAAGT
Found at i:15847843 original size:177 final size:176
Alignment explanation
Indices: 15847630--15848025 Score: 485
Period size: 177 Copynumber: 2.2 Consensus size: 176
15847620 AAGATTGGAG
** *
15847630 GCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCTGAAGCCTTATCTCTCTGAGG
1 GCAAATCTTATCTCCATGTAT-GGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAAG
* *
15847695 TAGCAAGAGAGCAGATTAAAGA-TTGAGTCTTATCTTTC-TGAGGTAGCAAGAAAGCAGACTAAA
65 TAGCAAGAGACCAGATTAAAGATTTGAGTCTTATC-TTCATGAGGTACCAAGAAAGCAGACTAAA
* *
15847758 GATTGAAGATCTTATCTCCCCT-AAGCAATAGTGGAGCAGATCGA-AGATG
129 GATTGAAGATC-TAT-TCCCCTAAAGCAATAGCGGAGCAGATCGAGA-ATA
* * *
15847807 GCGAATCTTATCTCCATGTACTGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAAG
1 GCAAATCTTATCTCCATGTA-TGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAAG
* *** * * * *
15847872 TAGCAAGAGACCAGGTTGGCGATTTTAGTCTTATCTTCATGAGGTACCAAGGAAGTAGACTGAAG
65 TAGCAAGAGACCAGATTAAAGATTTGAGTCTTATCTTCATGAGGTACCAAGAAAGCAGACTAAAG
* * * *
15847937 ATTGAAGATCTATTTCCCTAAAGCAGTTGCGGAGCAGATTGAGAATA
130 ATTGAAGATCTATTCCCCTAAAGCAATAGCGGAGCAGATCGAGAATA
* *
15847984 GCAAATCTTATCTCCATGTATTGGCAATGGAACAAATTTAAG
1 GCAAATCTTATCTCCATGTA-TGGCAATGGAGCAGATTTAAG
15848026 TCACTAGTCC
Statistics
Matches: 187, Mismatches: 27, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
176 5 0.03
177 137 0.73
178 45 0.24
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (176 bp):
GCAAATCTTATCTCCATGTATGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAAGT
AGCAAGAGACCAGATTAAAGATTTGAGTCTTATCTTCATGAGGTACCAAGAAAGCAGACTAAAGA
TTGAAGATCTATTCCCCTAAAGCAATAGCGGAGCAGATCGAGAATA
Found at i:15850576 original size:26 final size:24
Alignment explanation
Indices: 15850534--15850584 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 24
15850524 AGTGTACGAG
15850534 TTTTTGAAAGTCAAAAGTCGATCGTA
1 TTTTTGAAAGTCAAAAG--GATCGTA
*
15850560 TTTTTGAAGGT-ATAAAGGATCGTA
1 TTTTTGAAAGTCA-AAAGGATCGTA
15850584 T
1 T
15850585 CTAATCGTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 8 0.35
25 1 0.04
26 14 0.61
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (24 bp):
TTTTTGAAAGTCAAAAGGATCGTA
Found at i:15851866 original size:11 final size:12
Alignment explanation
Indices: 15851849--15851881 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
15851839 CAAAACTACC
15851849 CAAACCCAATTA
1 CAAACCCAATTA
15851861 -AAACCCAATTA
1 CAAACCCAATTA
15851872 CAAAGCCCAA
1 CAAA-CCCAA
15851882 AACAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 3 0.16
13 5 0.26
ACGTcount: A:0.52, C:0.33, G:0.03, T:0.12
Consensus pattern (12 bp):
CAAACCCAATTA
Found at i:15853182 original size:24 final size:26
Alignment explanation
Indices: 15853155--15853205 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
15853145 TATTTTAAAC
15853155 TATTATCCATTTT-AAAT-TTATATA
1 TATTATCCATTTTAAAATATTATATA
**
15853179 TATTATTTATTTTAAAATATTATATA
1 TATTATCCATTTTAAAATATTATATA
15853205 T
1 T
15853206 TATTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 4 0.17
26 8 0.35
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
TATTATCCATTTTAAAATATTATATA
Found at i:15853231 original size:27 final size:27
Alignment explanation
Indices: 15853177--15853283 Score: 87
Period size: 24 Copynumber: 4.0 Consensus size: 27
15853167 TAAATTTATA
* * *
15853177 TATATTATTTATTTTAAA---ATATTA
1 TATATTATTTATTTTAAATTTCTTTTT
*
15853201 TATATTATTTATTTTGAATTTCTTTTT
1 TATATTATTTATTTTAAATTTCTTTTT
* * * *
15853228 TATATATCTTTTATTTTTAAACTGC-TTTG
1 TATAT-T-ATTTA-TTTTAAATTTCTTTTT
15853257 TATATTATTTATTTTAAATTTCTTTTT
1 TATATTATTTATTTTAAATTTCTTTTT
15853284 ACCTATTATA
Statistics
Matches: 63, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
24 17 0.27
26 9 0.14
27 15 0.24
28 2 0.03
29 12 0.19
30 8 0.13
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (27 bp):
TATATTATTTATTTTAAATTTCTTTTT
Found at i:15853281 original size:26 final size:26
Alignment explanation
Indices: 15853163--15853426 Score: 134
Period size: 26 Copynumber: 10.0 Consensus size: 26
15853153 ACTATTATCC
*
15853163 ATTTTAAA-TT-TATATATATTATTT
1 ATTTTAAATTTCTTTATATATTATTT
* *
15853187 ATTTTAAA-AT-ATTATATATTATTT
1 ATTTTAAATTTCTTTATATATTATTT
*
15853211 ATTTTGAATTTCTTTTTTATATATCT-TTT
1 ATTTTAAATTTC---TTTATATAT-TATTT
* * *
15853240 ATTTTTAAACTGCTTTGTATATTATTT
1 A-TTTTAAATTTCTTTATATATTATTT
* *
15853267 ATTTTAAATTTCTTTTTACCTATTATAT
1 ATTTTAAATTTCTTTATA--TATTATTT
* * *
15853295 ATCTTAAA-CTCTTTCATATTTCATATGTT
1 ATTTTAAATTTCTTT-ATATAT--TAT-TT
* * *
15853324 GTTTAAAAGTATC-TTATATATTATTT
1 ATTTTAAA-TTTCTTTATATATTATTT
* * *
15853350 ATTTGAAATTGCTTTGTATATTATTT
1 ATTTTAAATTTCTTTATATATTATTT
* * * *
15853376 ATTGT-ACTTTGTTTTACATATTATTT
1 ATTTTAAATTT-CTTTATATATTATTT
*
15853402 ATTTTAAA-TTGTTT-TATATTATTT
1 ATTTTAAATTTCTTTATATATTATTT
15853426 A
1 A
15853427 CTTCGAATTT
Statistics
Matches: 181, Mismatches: 40, Indels: 38
0.70 0.15 0.15
Matches are distributed among these distances:
24 38 0.21
25 9 0.05
26 58 0.32
27 21 0.12
28 19 0.10
29 23 0.13
30 11 0.06
31 2 0.01
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.60
Consensus pattern (26 bp):
ATTTTAAATTTCTTTATATATTATTT
Found at i:15855085 original size:27 final size:26
Alignment explanation
Indices: 15855048--15855162 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
15855038 AGCATGGCTG
* *
15855048 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
15855074 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
15855102 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
15855129 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
15855156 CCAGAAC
1 CCAGAAC
15855163 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:15855107 original size:54 final size:54
Alignment explanation
Indices: 15855048--15855162 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
15855038 AGCATGGCTG
*
15855048 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
15855102 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
15855156 CCAGAAC
1 CCAGAAC
15855163 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:15856815 original size:26 final size:26
Alignment explanation
Indices: 15856779--15856914 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
15856769 CATGAAATTC
15856779 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
15856805 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15856831 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15856857 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15856883 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15856909 TTATCA
1 TTATCA
15856915 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15858264 original size:28 final size:28
Alignment explanation
Indices: 15858240--15858330 Score: 164
Period size: 28 Copynumber: 3.2 Consensus size: 28
15858230 GGTCAAAATC
*
15858240 ATAAAATCTAAAAAATAGAGGCAAAACT
1 ATAAAATCTAAAAAATAGTGGCAAAACT
15858268 ATAAAATCTAAAAAATAGTGGCAAAACT
1 ATAAAATCTAAAAAATAGTGGCAAAACT
*
15858296 ATAAAATCTAAAAAACAGTGGCAAAACT
1 ATAAAATCTAAAAAATAGTGGCAAAACT
15858324 ATAAAAT
1 ATAAAAT
15858331 ATGAAAAACA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.59, C:0.11, G:0.10, T:0.20
Consensus pattern (28 bp):
ATAAAATCTAAAAAATAGTGGCAAAACT
Found at i:15858337 original size:28 final size:28
Alignment explanation
Indices: 15858240--15858341 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
15858230 GGTCAAAATC
* *
15858240 ATAAAATCTAAAAAATAGAGGCAAAACT
1 ATAAAATCTAAAAAACAGTGGCAAAACT
*
15858268 ATAAAATCTAAAAAATAGTGGCAAAACT
1 ATAAAATCTAAAAAACAGTGGCAAAACT
15858296 ATAAAATCTAAAAAACAGTGGCAAAACT
1 ATAAAATCTAAAAAACAGTGGCAAAACT
* *
15858324 ATAAAATATGAAAAACAG
1 ATAAAATCTAAAAAACAG
15858342 GGGACACAAG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.60, C:0.11, G:0.11, T:0.19
Consensus pattern (28 bp):
ATAAAATCTAAAAAACAGTGGCAAAACT
Found at i:15859886 original size:24 final size:22
Alignment explanation
Indices: 15859852--15859895 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
15859842 GATGATTTGA
*
15859852 CAAAAAAAAAAGAAGAAAAATT
1 CAAAAAAAAAAGAAAAAAAATT
15859874 CAAAAAACTAAAAGAAAAAAAA
1 CAAAAAA--AAAAGAAAAAAAA
15859896 ATAAATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.07
Consensus pattern (22 bp):
CAAAAAAAAAAGAAAAAAAATT
Found at i:15860702 original size:28 final size:28
Alignment explanation
Indices: 15860670--15860726 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
15860660 GGTTGAAATC
15860670 ATAGAGGGTGATTTTACATTCCATTTTA
1 ATAGAGGGTGATTTTACATTCCATTTTA
15860698 ATAGAGGGTGATTTTACATTCCATTTTA
1 ATAGAGGGTGATTTTACATTCCATTTTA
15860726 A
1 A
15860727 CATTCTCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.42
Consensus pattern (28 bp):
ATAGAGGGTGATTTTACATTCCATTTTA
Found at i:15864589 original size:30 final size:31
Alignment explanation
Indices: 15864535--15864595 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
15864525 ATTGATCAAG
* *
15864535 TTCCATATACATGTATCATCCATTT-CATGT
1 TTCCATATACATGTAACATACATTTCCATGT
15864565 TTCCATATACCATGTAACA-ACATTTCCATGT
1 TTCCATATA-CATGTAACATACATTTCCATGT
15864596 AATTCATGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (31 bp):
TTCCATATACATGTAACATACATTTCCATGT
Found at i:15869742 original size:19 final size:22
Alignment explanation
Indices: 15869703--15869742 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
15869693 AGAAACCCAA
15869703 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
15869725 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
15869743 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:15869866 original size:27 final size:27
Alignment explanation
Indices: 15869808--15869941 Score: 134
Period size: 27 Copynumber: 5.0 Consensus size: 27
15869798 GGCTGCCAAA
* *
15869808 CAGATAATGTGACAGAGTCACCAG-AT
1 CAGATAATGTGGCAGAGCCACCAGAAT
15869834 ACAGATAATCGTGGCAGAGCCACCAGAAT
1 -CAGATAAT-GTGGCAGAGCCACCAGAAT
15869863 -AGATATATGTGGCA-AGCCACCAG-AT
1 CAGATA-ATGTGGCAGAGCCACCAGAAT
* *
15869888 CAGATATTTGTGGCAGAGCCACTAG-AT
1 CAGATA-ATGTGGCAGAGCCACCAGAAT
* *
15869915 CAGATATTTGTGGCATAGCCACCAGAA
1 CAGATA-ATGTGGCAGAGCCACCAGAA
15869942 CGCTTCCTCC
Statistics
Matches: 95, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
25 2 0.02
26 22 0.23
27 52 0.55
28 17 0.18
29 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATAATGTGGCAGAGCCACCAGAAT
Found at i:15869903 original size:53 final size:55
Alignment explanation
Indices: 15869808--15869940 Score: 166
Period size: 53 Copynumber: 2.5 Consensus size: 55
15869798 GGCTGCCAAA
* *
15869808 CAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAGAAT
1 CAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG-AT
* * *
15869863 -AGATATATGTGGCA-AGCCACCAGAT-CAGATATTTGTGGCAGAGCCACTAGAT
1 CAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAT
* *
15869915 CAGATATTTGTGGCATAGCCACCAGA
1 CAGATATATGTGGCAGAGCCACCAGA
15869941 ACGCTTCCTC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
52 2 0.03
53 35 0.51
54 25 0.36
55 7 0.10
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (55 bp):
CAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAT
Found at i:15871585 original size:26 final size:26
Alignment explanation
Indices: 15871549--15871606 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
15871539 CATGAAATTC
15871549 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
15871575 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15871601 TTATCA
1 TTATCA
15871607 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15875476 original size:19 final size:22
Alignment explanation
Indices: 15875437--15875476 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
15875427 AGAAACCCAA
15875437 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
15875459 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
15875477 GTGTGGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:15875574 original size:27 final size:28
Alignment explanation
Indices: 15875537--15875675 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
15875527 AGCATGGCTG
* *
15875537 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
15875563 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
15875591 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
15875618 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
15875645 -CAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
15875671 CCAGA
1 CCAGA
15875676 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
26 30 0.29
27 57 0.55
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:15875670 original size:53 final size:55
Alignment explanation
Indices: 15875537--15875675 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
15875527 AGCATGGCTG
* *
15875537 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* *
15875591 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
15875645 -CAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGA
15875676 ACGCTTCCTC
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 28 0.36
54 31 0.40
55 18 0.23
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (55 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:15877328 original size:25 final size:26
Alignment explanation
Indices: 15877285--15877341 Score: 98
Period size: 25 Copynumber: 2.2 Consensus size: 26
15877275 CATGAAATTC
15877285 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
15877311 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15877336 TTATCA
1 TTATCA
15877342 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15880352 original size:22 final size:20
Alignment explanation
Indices: 15880317--15880356 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
15880307 CCAGTCCCAT
15880317 GCATCAGAAATAACAACATG
1 GCATCAGAAATAACAACATG
15880337 GCATGCAGTAAATAACAACA
1 GCAT-CAG-AAATAACAACA
15880357 GTCAAACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 3 0.17
22 11 0.61
ACGTcount: A:0.50, C:0.20, G:0.15, T:0.15
Consensus pattern (20 bp):
GCATCAGAAATAACAACATG
Found at i:15881929 original size:26 final size:26
Alignment explanation
Indices: 15881900--15882061 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
15881890 CATGAAATTC
* *
15881900 TTATAATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
15881926 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
15881952 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
15881978 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
15882004 TTATCATGGAACACTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
15882030 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
15882056 TTATCA
1 TTATCA
15882062 ATTTGTATCA
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:15885448 original size:15 final size:15
Alignment explanation
Indices: 15885419--15885448 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15885409 ATTATCTTCA
*
15885419 TTTAAATTATTATCT
1 TTTAAATTAATATCT
15885434 TTTAAATTAATATCT
1 TTTAAATTAATATCT
15885449 ATTCAGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTAAATTAATATCT
Found at i:15886979 original size:18 final size:19
Alignment explanation
Indices: 15886942--15886981 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
15886932 ATTTACGTTT
* *
15886942 TTATTTGTTATTGTTTATA
1 TTATTTGTTAATGTTAATA
15886961 TTATTTG-TAATGTTAATA
1 TTATTTGTTAATGTTAATA
15886979 TTA
1 TTA
15886982 ATGATATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TTATTTGTTAATGTTAATA
Found at i:15887199 original size:2 final size:2
Alignment explanation
Indices: 15887192--15887223 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15887182 ACAAAATTAT
15887192 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
15887224 ATTTAAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15887805 original size:25 final size:24
Alignment explanation
Indices: 15887759--15887805 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
15887749 ATATATTTAC
*
15887759 TTCATTTTTTTATACATTATTAAT
1 TTCATTTTTTTATACATAATTAAT
15887783 TTCATTCTTTTTAT-CAATAATTA
1 TTCATT-TTTTTATAC-ATAATTA
15887806 TACCCAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.60
Consensus pattern (24 bp):
TTCATTTTTTTATACATAATTAAT
Found at i:15895245 original size:22 final size:22
Alignment explanation
Indices: 15895218--15895292 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
15895208 CATGCATATG
15895218 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
15895240 TGTGATGAATG-TGAACAT-GCAAATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
15895265 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
15895287 TGTGAT
1 TGTGAT
15895293 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:15895362 original size:47 final size:47
Alignment explanation
Indices: 15895196--15895342 Score: 249
Period size: 47 Copynumber: 3.1 Consensus size: 47
15895186 GATTCTATGA
*
15895196 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
15895243 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
** *
15895290 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATAT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
15895337 GATGAA
1 GATGAA
15895343 CGTGGAAGTG
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 94 1.00
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:15904552 original size:180 final size:180
Alignment explanation
Indices: 15904238--15904949 Score: 754
Period size: 180 Copynumber: 4.0 Consensus size: 180
15904228 ATTGGTAAAG
* * * * **
15904238 ATTGAAGATCTTATTTCCTTGAAGTTGCAGTGGAATAGATCCTT-GCAGATGGTGAATCTTATCT
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGAT-CTTCGCAGATGGTGAATCTTATCT
* * * * * * *
15904302 CCATGT-ATCAGCAATGGAGTAGATTTTACCACCAAGCCTTGA-CTCTCTGAGGTAGCAAGATAG
65 CCATGTAATC-GCAATGGAGCAGATTTTACTACCAAGCC-TCATCTCTCTGAAGTAGCAGGAGAA
* * *
15904365 TAGGTTGAAGAATGAATCTTATATTCCTGAGGTAGCAAGGAAGCAGACTGAGA
128 CAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
* * *
15904418 ATTGAAGATTTTATCTCCCTAAAGTTACAACGGAGCAGATCTTCGCAGATGGTGAATCTTATCTC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGTGAATCTTATCTC
* * * * **
15904483 CCTGTAAAT-GCAATGGAGTAGATTTTACTACTAAGCCTTATCTCTCTGAAGTAATAGGAGAACA
66 CATGT-AATCGCAATGGAGCAGATTTTACTACCAAGCCTCATCTCTCTGAAGTAGCAGGAGAACA
*
15904547 GGTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAGA
130 GGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
* * * * *
15904598 ATTGAAGATTTTATCTGCCTGAAGTTGCAGCGAAGCAGATATTCGCAAATGGTGAATCTTATCTT
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGTGAATCTTATCTC
* ** * *
15904663 CATGT-ATCGACAATGGAGCAGATTTTGCTATTAAGCCTCATCTTTCTG-AGATAGCAGGAGAAT
66 CATGTAATCG-CAATGGAGCAGATTTTACTACCAAGCCTCATCTCTCTGAAG-TAGCAGGAGAAC
* * * *
15904726 AGGTTGAAGAATGAGT-TTGATCTTCCTGAGATAGCAAGGAAGCAAATTAAGA
129 AGGTTGAAGAATGAGTCTT-ATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
* * * * * * *
15904778 ATTGAAGATTTTGTCTCCTTGAAGTCGTAGCGGAGTAGATCTTTAGAAG-TGGTGAATCTTATCT
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATC-TTCGCAGATGGTGAATCTTATCT
* * * *
15904842 CCATGTATTGGCAATGGAGCAGATTTTACCT-CCAA-CCTCATCTCTCTGAGGTAGCTAGG-GAG
65 CCATGTAATCGCAATGGAGCAGATTTTA-CTACCAAGCCTCATCTCTCTGAAGTAGC-AGGAGAA
*
15904904 CAGGTTGAAGAATGAG-----TCTTCCTGAAGTAGCAAGGAAGCAGACTGA
128 CAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGA
15904950 AGGTTGAGGA
Statistics
Matches: 448, Mismatches: 71, Indels: 32
0.81 0.13 0.06
Matches are distributed among these distances:
174 25 0.06
178 2 0.00
179 43 0.10
180 368 0.82
181 8 0.02
182 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (180 bp):
ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGTGAATCTTATCTC
CATGTAATCGCAATGGAGCAGATTTTACTACCAAGCCTCATCTCTCTGAAGTAGCAGGAGAACAG
GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
Found at i:15906242 original size:21 final size:21
Alignment explanation
Indices: 15906201--15906242 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
15906191 CGCTGTAATC
*
15906201 TGCTCTTATTTGCATTTGATT
1 TGCTCTTATTTCCATTTGATT
*
15906222 TGCT-TTATTTCCTTTTAGATT
1 TGCTCTTATTTCCATTT-GATT
15906243 ATCCCTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.14, C:0.14, G:0.12, T:0.60
Consensus pattern (21 bp):
TGCTCTTATTTCCATTTGATT
Found at i:15906558 original size:18 final size:19
Alignment explanation
Indices: 15906521--15906560 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
15906511 ATTTACATTT
* *
15906521 TTATTTGTTATTGTTTATA
1 TTATTTGTTAATGTTAATA
15906540 TTATTTG-TAATGTTAATA
1 TTATTTGTTAATGTTAATA
15906558 TTA
1 TTA
15906561 ATGGTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TTATTTGTTAATGTTAATA
Found at i:15907426 original size:25 final size:24
Alignment explanation
Indices: 15907380--15907426 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
15907370 ATATATTTAC
*
15907380 TTCATTTTTTTATACATTATTAAT
1 TTCATTTTTTTATACATAATTAAT
15907404 TTCATTCTTTTTAT-CAATAATTA
1 TTCATT-TTTTTATAC-ATAATTA
15907427 TACCCAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.60
Consensus pattern (24 bp):
TTCATTTTTTTATACATAATTAAT
Found at i:15909183 original size:4 final size:4
Alignment explanation
Indices: 15909174--15909198 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
15909164 TGAAATGATG
15909174 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
15909199 GATATGCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:15909369 original size:18 final size:18
Alignment explanation
Indices: 15909341--15909382 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15909331 AATAATAGCA
*
15909341 AATAA-AATAGTGCTAAT
1 AATAATAATAGTGATAAT
*
15909358 AGTAATAATAGTGATAAT
1 AATAATAATAGTGATAAT
15909376 AATAATA
1 AATAATA
15909383 GTATGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.55, C:0.02, G:0.12, T:0.31
Consensus pattern (18 bp):
AATAATAATAGTGATAAT
Found at i:15909471 original size:17 final size:17
Alignment explanation
Indices: 15909451--15909493 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
15909441 TATAATATCT
15909451 AAAATATAATA-ATAATG
1 AAAATATAATACATAA-G
15909468 AAAATATACATACATAAG
1 AAAATATA-ATACATAAG
15909486 -AAATATAA
1 AAAATATAA
15909494 ATAGATGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 1 0.04
17 15 0.62
18 4 0.17
19 4 0.17
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (17 bp):
AAAATATAATACATAAG
Found at i:15909684 original size:26 final size:24
Alignment explanation
Indices: 15909653--15909704 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
15909643 AACAAATAAT
15909653 ATAATAGTAA-AAATAATTAAAAAATG
1 ATAATAGTAATAAA-AA-T-AAAAATG
15909679 ATAATAGTAATAAAAATAAAAATG
1 ATAATAGTAATAAAAATAAAAATG
15909703 AT
1 AT
15909705 GTTGATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 9 0.36
25 1 0.04
26 12 0.48
27 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (24 bp):
ATAATAGTAATAAAAATAAAAATG
Found at i:15910046 original size:3 final size:3
Alignment explanation
Indices: 15910040--15910074 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15910030 AAAAGAAGAT
15910040 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
15910075 GTGAGTAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15912112 original size:43 final size:44
Alignment explanation
Indices: 15912042--15912136 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 44
15912032 CTGTACATTT
* * *
15912042 AGTCTGCTCCATTGCGACTTCAAGGAGATTAGACTTGTAACTTC
1 AGTCTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTC
* * * *
15912086 AGTCTGCTCCACTG-TACTTCAGGGAGATAAGGCTAGTGACTTC
1 AGTCTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTC
*
15912129 AATCTGCT
1 AGTCTGCT
15912137 TCGCTGAGGC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 30 0.70
44 13 0.30
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (44 bp):
AGTCTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTC
Found at i:15912657 original size:50 final size:50
Alignment explanation
Indices: 15912582--15912682 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
15912572 TTGAGTTTGG
15912582 TCAGTTCTAAATAATAGTCCTGTTTTAGGTTCCTGTACTATTTAGAAACT
1 TCAGTTCTAAATAATAGTCCTGTTTTAGGTTCCTGTACTATTTAGAAACT
*
15912632 TCAGTTCTAAATAATAGTCCTGTTTTAGGTTCCTGTACTGTTTAGAAACT
1 TCAGTTCTAAATAATAGTCCTGTTTTAGGTTCCTGTACTATTTAGAAACT
15912682 T
1 T
15912683 TCAGAGCAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.43
Consensus pattern (50 bp):
TCAGTTCTAAATAATAGTCCTGTTTTAGGTTCCTGTACTATTTAGAAACT
Found at i:15913709 original size:26 final size:26
Alignment explanation
Indices: 15913673--15913782 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
15913663 TGATACAAAT
15913673 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15913699 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
15913725 TGATAATGGGTTCGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
15913751 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15913777 TGATAA
1 TGATAA
15913783 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:15915294 original size:26 final size:26
Alignment explanation
Indices: 15915265--15915317 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
15915255 TTTACAGTTT
15915265 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
15915291 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
15915317 T
1 T
15915318 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:15919427 original size:26 final size:26
Alignment explanation
Indices: 15919393--15919483 Score: 146
Period size: 26 Copynumber: 3.5 Consensus size: 26
15919383 TGGTACAAAT
*
15919393 TGTTCCATGATAATAGGTTAGGTAAA
1 TGTTCCATGATAATGGGTTAGGTAAA
*
15919419 TGTTCCATGATAATGGGTTCGGTAAA
1 TGTTCCATGATAATGGGTTAGGTAAA
*
15919445 TGTTTCATGATAATGGGTTAGGTAAA
1 TGTTCCATGATAATGGGTTAGGTAAA
*
15919471 TGTTTCATGATAA
1 TGTTCCATGATAA
15919484 GAATTTCATG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (26 bp):
TGTTCCATGATAATGGGTTAGGTAAA
Found at i:15920994 original size:24 final size:25
Alignment explanation
Indices: 15920958--15921005 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
15920948 ACAGTTTTAC
15920958 CCCTAGAGATAAATT-ACCGAAATA
1 CCCTAGAGATAAATTGACCGAAATA
* * *
15920982 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGAGATAAATTGACCGAAAT
15921006 GCATGTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (25 bp):
CCCTAGAGATAAATTGACCGAAATA
Found at i:15930340 original size:20 final size:20
Alignment explanation
Indices: 15930317--15930354 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15930307 CACTTCCAAA
*
15930317 TACAAAATTTTAAAAATCAT
1 TACAAAATATTAAAAATCAT
15930337 TACAAAATATTAAAAATC
1 TACAAAATATTAAAAATC
15930355 GCGAATAAAC
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:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (20 bp):
TACAAAATATTAAAAATCAT
Found at i:15930757 original size:27 final size:27
Alignment explanation
Indices: 15930715--15930854 Score: 147
Period size: 27 Copynumber: 5.2 Consensus size: 27
15930705 GAGGAAGCGT
*
15930715 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
15930742 TCTAGTGGCTCTGCCATAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
15930769 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* ** *
15930796 TTTGGTGGCTCTGCCAGGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
15930824 TCTGGTGACTCTGTCAC-ATTATCTGC
1 TCTGGTGGCTCTGCCACAAATATCTGA
15930850 TCTGG
1 TCTGG
15930855 CAGCCATGCT
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
26 5 0.05
27 76 0.81
28 13 0.14
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:15930804 original size:54 final size:55
Alignment explanation
Indices: 15930715--15930848 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 55
15930705 GAGGAAGCGT
* * *
15930715 TCTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCATAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGATCTAGTGGCTCTGCCAGAAATATCTGTA
* * * * *
15930769 TCTGGTGGCTCTGCCACATATATCTGTTTTGGTGGCTCTGCCAGGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGATCTAGTGGCTCTGCCAGAAATATCTGTA
* *
15930824 TCTGGTGACTCTGTCACAT-TATCTG
1 TCTGGTGGCTCTGCCACATATATCTG
15930849 CTCTGGCAGC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
54 51 0.74
55 18 0.26
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGATCTAGTGGCTCTGCCAGAAATATCTGTA
Found at i:15934881 original size:26 final size:26
Alignment explanation
Indices: 15934845--15935006 Score: 288
Period size: 26 Copynumber: 6.2 Consensus size: 26
15934835 TGATACAAAT
*
15934845 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15934871 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15934897 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15934923 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
15934949 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
15934975 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15935001 TGATAA
1 TGATAA
15935007 GAATTTCATG
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 133 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:15936658 original size:27 final size:27
Alignment explanation
Indices: 15936620--15936742 Score: 147
Period size: 27 Copynumber: 4.5 Consensus size: 27
15936610 AAGCGTTCTG
* *
15936620 GTGGCTATGCCACAAATATATGATCTA
1 GTGGCTCTGCCACAAATATCTGATCTA
*
15936647 GTGGCTCTGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTA
* * *
15936674 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTA
* *
15936701 GTGGCTCTGCCACGATTATCTGTATCTA
1 GTGGCTCTGCCACAAATATCTG-ATCTA
* *
15936729 GTGACTCTGTCACA
1 GTGGCTCTGCCACA
15936743 TTATCTGTTC
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 68 0.83
28 14 0.17
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATCTGATCTA
Done.