Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 163 of 182
Found at i:50103503 original size:3 final size:3
Alignment explanation
Indices: 50103495--50103532 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
50103485 TAGTTTACCC
50103495 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
50103533 CACACTCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:50103728 original size:22 final size:22
Alignment explanation
Indices: 50103703--50103749 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
50103693 TTTTTCTTCC
*
50103703 GTGCGATGCATGGGTTTATCGT
1 GTGCGATGCATGAGTTTATCGT
50103725 GTGCGATGCATGAGTTTATCGT
1 GTGCGATGCATGAGTTTATCGT
50103747 GTG
1 GTG
50103750 TATAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.13, G:0.36, T:0.36
Consensus pattern (22 bp):
GTGCGATGCATGAGTTTATCGT
Found at i:50107497 original size:26 final size:27
Alignment explanation
Indices: 50107449--50107500 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50107439 CGTTTTGAGC
50107449 ACTTTTTTTTGTTTTTATGTTCTTTAA
1 ACTTTTTTTTGTTTTTATGTTCTTTAA
*
50107476 ACTTTCTTTTT-TTTTTCT-TTCTTTA
1 ACTTT-TTTTTGTTTTTATGTTCTTTA
50107501 TTTTCCGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 11 0.48
28 5 0.22
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.73
Consensus pattern (27 bp):
ACTTTTTTTTGTTTTTATGTTCTTTAA
Found at i:50115873 original size:9 final size:9
Alignment explanation
Indices: 50115859--50115943 Score: 109
Period size: 9 Copynumber: 9.4 Consensus size: 9
50115849 TTTGGTTAAA
*
50115859 AATTAACTG
1 AATTAACCG
50115868 AATTAACCG
1 AATTAACCG
*
50115877 AATTACCCG
1 AATTAACCG
50115886 AATTAACCG
1 AATTAACCG
50115895 AATTAACCG
1 AATTAACCG
* *
50115904 GATT-ACCTT
1 AATTAACC-G
50115913 AATTAACCG
1 AATTAACCG
*
50115922 AATTACCCG
1 AATTAACCG
50115931 AATTAACCG
1 AATTAACCG
50115940 AATT
1 AATT
50115944 GAATCACTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
8 3 0.05
9 59 0.91
10 3 0.05
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:50115994 original size:6 final size:6
Alignment explanation
Indices: 50115983--50116011 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
50115973 ACTTTTAGAC
50115983 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
50116012 AATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:50116035 original size:20 final size:20
Alignment explanation
Indices: 50115967--50116024 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 20
50115957 ATTAAATTAT
* *
50115967 TTTTAGACTTTTAGACTTTAG
1 TTTTAGAATTTTAG-TTTTAG
50115988 TTTTAG--TTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
*
50116006 TTTTAGAATTTTATTTTTA
1 TTTTAGAATTTTAGTTTTA
50116025 TTTATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 11 0.33
19 6 0.18
20 10 0.30
21 6 0.18
ACGTcount: A:0.22, C:0.03, G:0.12, T:0.62
Consensus pattern (20 bp):
TTTTAGAATTTTAGTTTTAG
Found at i:50120214 original size:18 final size:18
Alignment explanation
Indices: 50120188--50120222 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50120178 ACATAAGAAT
*
50120188 ATATGTATGTATATGAAA
1 ATATATATGTATATGAAA
*
50120206 ATATATATGTATGTGAA
1 ATATATATGTATATGAA
50120223 TTATAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (18 bp):
ATATATATGTATATGAAA
Found at i:50120277 original size:23 final size:22
Alignment explanation
Indices: 50120251--50120293 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
50120241 CAAAATAAAA
*
50120251 TAATATAGATAATATACATATTT
1 TAATATAGATAA-AAACATATTT
*
50120274 TAATATATATAAAAACATAT
1 TAATATAGATAAAAACATAT
50120294 ATAGATATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
TAATATAGATAAAAACATATTT
Found at i:50120454 original size:3 final size:3
Alignment explanation
Indices: 50120420--50120501 Score: 67
Period size: 3 Copynumber: 27.0 Consensus size: 3
50120410 TTATAAAAAC
* ** * * * *
50120420 ATA ACA ATA ATA ACC ATA ATA TTA AAA ATA ATA ATA ATA ATA ACA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
50120468 A-A GATA ATA ATA ATA ATA ATA AAA GATA ATA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
50120502 CATTAAGATA
Statistics
Matches: 60, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
2 1 0.02
3 56 0.93
4 3 0.05
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:50122866 original size:25 final size:24
Alignment explanation
Indices: 50122838--50122885 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
50122828 ATCTGGGCAA
50122838 TATAACGAGAAGCTCACAAAGAGCC
1 TATAACGAGAAGCTC-CAAAGAGCC
*
50122863 TATAACGAGTAGCTCCAAAGAGC
1 TATAACGAGAAGCTCCAAAGAGC
50122886 AATTAACGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.15
Consensus pattern (24 bp):
TATAACGAGAAGCTCCAAAGAGCC
Found at i:50122892 original size:24 final size:26
Alignment explanation
Indices: 50122834--50122899 Score: 84
Period size: 24 Copynumber: 2.7 Consensus size: 26
50122824 GCTTATCTGG
*
50122834 GCAATATAACGAGAAGCTCACAAAGA
1 GCAATATAACGAGTAGCTCACAAAGA
*
50122860 GC-CTATAACGAGTAGCTC-CAAAGA
1 GCAATATAACGAGTAGCTCACAAAGA
*
50122884 GCAAT-TAACGGGTAGC
1 GCAATATAACGAGTAGC
50122900 ACCGGATAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 18 0.51
25 15 0.43
26 2 0.06
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.15
Consensus pattern (26 bp):
GCAATATAACGAGTAGCTCACAAAGA
Found at i:50127854 original size:16 final size:16
Alignment explanation
Indices: 50127833--50127863 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50127823 GGTATTTTGA
*
50127833 TTTTTTGTTTTTGTTT
1 TTTTTTGTTGTTGTTT
50127849 TTTTTTGTTGTTGTT
1 TTTTTTGTTGTTGTT
50127864 GGAAGCCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (16 bp):
TTTTTTGTTGTTGTTT
Found at i:50127984 original size:3 final size:3
Alignment explanation
Indices: 50127971--50128000 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
50127961 CCTCATGCAA
50127971 CAT CA- CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
50128001 TGCAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:50134186 original size:31 final size:30
Alignment explanation
Indices: 50134124--50134195 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
50134114 TTAGACATCT
*
50134124 TTTAGATAATAATATTTAATTTAAATTTAAA
1 TTTAAATAATAATATTTAA-TTAAATTTAAA
50134155 TTTAAATAATAATATTTAGA-TAAATTATAAA
1 TTTAAATAATAATATTTA-ATTAAATT-TAAA
*
50134186 TAATAAATAA
1 T-TTAAATAA
50134196 GTTGTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 6 0.17
31 22 0.61
32 8 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
TTTAAATAATAATATTTAATTAAATTTAAA
Found at i:50134781 original size:18 final size:18
Alignment explanation
Indices: 50134758--50134792 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50134748 TTACATATAA
50134758 AAATAATAATGACATTTG
1 AAATAATAATGACATTTG
* *
50134776 AAATAATTATTACATTT
1 AAATAATAATGACATTT
50134793 TATAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAATAATGACATTTG
Found at i:50135785 original size:5 final size:5
Alignment explanation
Indices: 50135777--50135806 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
50135767 TAAATTATAT
50135777 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
50135807 AGCCTCTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:50135879 original size:46 final size:47
Alignment explanation
Indices: 50135814--50135909 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 47
50135804 AAAAGCCTCT
* * *
50135814 ACCACCCCGTACCCATCCCTCTCCTCCTCC-CCACTGGAGCTCCCCC
1 ACCACCCCGTACCCATCCCTCTCCCCCTCCTCCACCGGACCTCCCCC
* *
50135860 ACCACCCTGT-CCCTATCCCTCTCCCCCTCCTCCACCGGACCTCCCGC
1 ACCACCCCGTACCC-ATCCCTCTCCCCCTCCTCCACCGGACCTCCCCC
50135907 ACC
1 ACC
50135910 TCCGTCCCTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 3 0.07
46 24 0.56
47 16 0.37
ACGTcount: A:0.12, C:0.61, G:0.08, T:0.18
Consensus pattern (47 bp):
ACCACCCCGTACCCATCCCTCTCCCCCTCCTCCACCGGACCTCCCCC
Found at i:50147280 original size:17 final size:19
Alignment explanation
Indices: 50147245--50147286 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
50147235 GTAATAATAA
50147245 TATTTA-ATATCAAATTTT
1 TATTTATATATCAAATTTT
50147263 TATTTATATAT-AAATTTT
1 TATTTATATATCAAATTTT
50147281 T-TTTAT
1 TATTTAT
50147287 TATTCTGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 14 0.61
19 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATATATCAAATTTT
Found at i:50154590 original size:3 final size:3
Alignment explanation
Indices: 50154582--50154626 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
50154572 TCACATTTTA
* * * *
50154582 TAT TAT TAT TAC TAT TAT TAT TAT TGT TAG TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50154627 ATATCAATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:50156181 original size:56 final size:55
Alignment explanation
Indices: 50156114--50156221 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 55
50156104 GTATCCATTG
* * *
50156114 GATGATAAATCATCACTTTTAATTTGAACAGTGTTTATGAATAATTAAATTTGTAA
1 GATGATAAATCACCACTTTTAATTTGAACAGTGCTCATGAATAATT-AATTTGTAA
*
50156170 GATGATAAATCACCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCACCACTTTTAATTTGAACAGTGCTCATGAATAATTAATTTG
50156222 CAATCTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
55 6 0.12
56 42 0.88
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (55 bp):
GATGATAAATCACCACTTTTAATTTGAACAGTGCTCATGAATAATTAATTTGTAA
Found at i:50160001 original size:124 final size:124
Alignment explanation
Indices: 50159700--50160002 Score: 409
Period size: 124 Copynumber: 2.5 Consensus size: 124
50159690 TTTGAAGTGT
* * *
50159700 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATACA---AAAAAAAGGGGTGA
1 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGGAAAAAAAGGGCTAA
* * * *
50159762 TATGTAAGTAAAGGATTAAAGTAAATAATGTAAATTTTGTTTTGAAGTGTTTCAAAAAA
66 AATGTAAGTAAAGGACTAAAGTAAATAATGTAAATTTTGTTTTGAAATATTTCAAAAAA
* ** * ** *
50159821 TTGGAAAACTGTGATAGAATCTTTTGGTACAATCATTTAACAAATGTAGGGGAAAAAAGGGCTAA
1 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGGAAAAAAAGGGCTAA
* *
50159886 AATGTAAGTAAATGG-CTAAAGTAAACT-GTGTAAATTTTGTTTTGAAATATTTGAAAAAA
66 AATGTAAGTAAA-GGACTAAAGTAAA-TAATGTAAATTTTGTTTTGAAATATTTCAAAAAA
50159945 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGGAAAAAAA
1 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGGAAAAAAA
50160003 TTGAGTATGA
Statistics
Matches: 155, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
121 42 0.27
124 110 0.71
125 3 0.02
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.30
Consensus pattern (124 bp):
TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGGAAAAAAAGGGCTAA
AATGTAAGTAAAGGACTAAAGTAAATAATGTAAATTTTGTTTTGAAATATTTCAAAAAA
Found at i:50160912 original size:19 final size:17
Alignment explanation
Indices: 50160873--50160912 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 17
50160863 TGTGAAGCAA
50160873 AGGAGGAAAGAAAAATT
1 AGGAGGAAAGAAAAATT
50160890 -GGAGGAAAGAATAAGATT
1 AGGAGGAAAGAA-AA-ATT
50160908 AGGAG
1 AGGAG
50160913 ATCATGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 11 0.55
17 2 0.10
18 3 0.15
19 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (17 bp):
AGGAGGAAAGAAAAATT
Found at i:50166224 original size:24 final size:23
Alignment explanation
Indices: 50166162--50166230 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
50166152 AAAGAGTGTC
* *
50166162 CCGTTATTAGCTCTCATGAGCTT
1 CCGTTAATAGCTCTTATGAGCTT
* * *
50166185 CCGTTATATGGTTCTTGTGAGCTT
1 CCGTTA-ATAGCTCTTATGAGCTT
*
50166209 CCTGTTAATAGCTCTTTTGAGC
1 CC-GTTAATAGCTCTTATGAGC
50166231 ATCCCGATTG
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 6 0.17
24 26 0.72
25 4 0.11
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (23 bp):
CCGTTAATAGCTCTTATGAGCTT
Found at i:50170115 original size:36 final size:37
Alignment explanation
Indices: 50170065--50170156 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 37
50170055 GTCTCCAAAT
* * *
50170065 TCACATTTCAATTCAATTTCACTTTTTCACTTTCAA-
1 TCACAATTCGATTCAATTTCACTTTTCCACTTTCAAG
* *
50170101 TCACAATTCGATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACAATTCGATTC-AATTTCACTTTTCCACTTTCAAG
*
50170139 TCA-ATAATCGATTCAATT
1 TCACA-ATTCGATTCAATT
50170157 CCACACATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
36 12 0.26
37 23 0.50
38 11 0.24
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (37 bp):
TCACAATTCGATTCAATTTCACTTTTCCACTTTCAAG
Found at i:50171052 original size:25 final size:25
Alignment explanation
Indices: 50171018--50171067 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
50171008 CATTTGTTAC
*
50171018 AATTCAATTTATTTTATAATATAAT
1 AATTCAATTTAATTTATAATATAAT
*
50171043 AATTTAATTTAATTTATAATATAAT
1 AATTCAATTTAATTTATAATATAAT
50171068 TTTTAGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
AATTCAATTTAATTTATAATATAAT
Found at i:50176058 original size:24 final size:24
Alignment explanation
Indices: 50175977--50176059 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
50175967 CAGCTTGAAA
* *
50175977 GAGCATCCCGTTATTAGCTCTCAT-
1 GAGCATCCCGTTAATAGCTCT-TTG
* * *
50176001 GAGCTTCCCGTTATATGGTTC-TTG
1 GAGCATCCCGTTA-ATAGCTCTTTG
* *
50176025 TAAGCTTCCCGTTAATAGCTCTTTG
1 -GAGCATCCCGTTAATAGCTCTTTG
50176050 GAGCATCCCG
1 GAGCATCCCG
50176060 ATTGGTTATG
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
23 1 0.02
24 25 0.56
25 19 0.42
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (24 bp):
GAGCATCCCGTTAATAGCTCTTTG
Found at i:50176150 original size:25 final size:27
Alignment explanation
Indices: 50176122--50176172 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50176112 CCCGATATAT
50176122 GGCTC-TTCA-GAGCTTC-CTGATTAAA
1 GGCTCTTTCATGAGCTTCTC-GATTAAA
50176147 GGCTCTTTCATGAGCTTCTCGATTAA
1 GGCTCTTTCATGAGCTTCTCGATTAA
50176173 TTGGCTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.22
26 4 0.17
27 13 0.57
28 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (27 bp):
GGCTCTTTCATGAGCTTCTCGATTAAA
Found at i:50176203 original size:24 final size:24
Alignment explanation
Indices: 50176158--50176263 Score: 88
Period size: 24 Copynumber: 4.3 Consensus size: 24
50176148 GCTCTTTCAT
50176158 GAGCTTCTCGATTAATTGGCTCTCTG
1 GAGCTTCTCGA-T-ATTGGCTCTCTG
* *
50176184 GAGCTTCTTGATATTGGCTCACTTG
1 GAGCTTCTCGATATTGGCTCTC-TG
* * * *
50176209 AACCTTCCCGATATTGGCTCGTAT-
1 GAGCTTCTCGATATTGGCTC-TCTG
* *
50176233 GAGCTTCTCGTTAATGGCTCTCTG
1 GAGCTTCTCGATATTGGCTCTCTG
*
50176257 GAACTTC
1 GAGCTTC
50176264 CCGTTACATG
Statistics
Matches: 62, Mismatches: 15, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
23 2 0.03
24 30 0.48
25 20 0.32
26 10 0.16
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.37
Consensus pattern (24 bp):
GAGCTTCTCGATATTGGCTCTCTG
Found at i:50176268 original size:24 final size:24
Alignment explanation
Indices: 50176169--50176277 Score: 67
Period size: 24 Copynumber: 4.4 Consensus size: 24
50176159 AGCTTCTCGA
* **
50176169 TTAATTGGCTCTCTGGAGCTTCTTG
1 TTAA-TGGCTCTCTGGAACTTCCCG
* * * *
50176194 ATATTGGCTCACTTGAACCTTCCCG
1 TTAATGGCTCTCTGGAA-CTTCCCG
* * * * *
50176219 ATATTGGCTCGTAT-GAGCTTCTCG
1 TTAATGGCTC-TCTGGAACTTCCCG
50176243 TTAATGGCTCTCTGGAACTTCCCG
1 TTAATGGCTCTCTGGAACTTCCCG
50176267 TTACATGGCTC
1 TTA-ATGGCTC
50176278 ACATGAGCTT
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
23 2 0.03
24 35 0.55
25 26 0.41
26 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.37
Consensus pattern (24 bp):
TTAATGGCTCTCTGGAACTTCCCG
Found at i:50176288 original size:25 final size:24
Alignment explanation
Indices: 50176198--50176317 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 24
50176188 TTCTTGATAT
* * * *
50176198 TGGCTCACTTGAACCTTCCCGATAT
1 TGGCTCACATG-AGCTTCCCGTTAA
** *
50176223 TGGCTCGTATGAGCTTCTCGTTAA
1 TGGCTCACATGAGCTTCCCGTTAA
* *
50176247 TGGCTCTC-TGGAACTTCCCGTTACA
1 TGGCTCACAT-GAGCTTCCCGTTA-A
*
50176272 TGGCTCACATGAGCTTCCTGTTTATA
1 TGGCTCACATGAGCTTCCCG-TTA-A
50176298 T-GCTCACATGAGCATTCCCG
1 TGGCTCACATGAGC-TTCCCG
50176318 AATATGAATT
Statistics
Matches: 74, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.01
24 26 0.35
25 36 0.49
26 11 0.15
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.33
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCGTTAA
Found at i:50180297 original size:3 final size:3
Alignment explanation
Indices: 50180289--50180317 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50180279 CTTATATGAA
50180289 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50180318 ATCAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:50190042 original size:16 final size:16
Alignment explanation
Indices: 50190021--50190055 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
50190011 CCCTATTTTT
50190021 CCCTATATTATAATCA
1 CCCTATATTATAATCA
50190037 CCCTATATTATAATCA
1 CCCTATATTATAATCA
50190053 CCC
1 CCC
50190056 CATTGTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (16 bp):
CCCTATATTATAATCA
Found at i:50192162 original size:42 final size:42
Alignment explanation
Indices: 50192094--50192237 Score: 152
Period size: 42 Copynumber: 3.4 Consensus size: 42
50192084 AGCTCTCACA
*
50192094 AGCTTCTGTTTAA-C-TCATGTGAGTTTCCGTTCAGCTCTATTG
1 AGCTTCTGTTTAACCTTTATG-G-GTTTCCGTTCAGCTCTATTG
* *
50192136 AGCTTCTGTTTAACCTTTATGGGTTTCCATTCAGCTCT-TACG
1 AGCTTCTGTTTAACCTTTATGGGTTTCCGTTCAGCTCTAT-TG
* * * *
50192178 AGCTTCTATTCAACCTTTATGGGTTTCTGTTTAGCTCTCA-TG
1 AGCTTCTGTTTAACCTTTATGGGTTTCCGTTCAGCTCT-ATTG
*
50192220 AGCTTCTGTTTACCCTTT
1 AGCTTCTGTTTAACCTTT
50192238 GGGCTTCTGA
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 78 0.92
43 2 0.02
44 4 0.05
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (42 bp):
AGCTTCTGTTTAACCTTTATGGGTTTCCGTTCAGCTCTATTG
Found at i:50192205 original size:21 final size:21
Alignment explanation
Indices: 50192147--50192205 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
50192137 GCTTCTGTTT
*
50192147 AACCTTTATGGGTTTCCATTC
1 AACCTTTATGGGTTTCTATTC
* * * *
50192168 -AGCTCTTACGAGCTTCTATTC
1 AACCT-TTATGGGTTTCTATTC
50192189 AACCTTTATGGGTTTCT
1 AACCTTTATGGGTTTCT
50192206 GTTTAGCTCT
Statistics
Matches: 27, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (21 bp):
AACCTTTATGGGTTTCTATTC
Found at i:50199993 original size:13 final size:14
Alignment explanation
Indices: 50199974--50200011 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
50199964 CAATGGCATA
50199974 GAAATAATATAAAC
1 GAAATAATATAAAC
50199988 -AAATAA-ATAAAC
1 GAAATAATATAAAC
50200000 GAAATGAATATA
1 GAAAT-AATATA
50200012 TATATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:50201919 original size:19 final size:19
Alignment explanation
Indices: 50201895--50201932 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
50201885 TTTTCTTATT
50201895 AAGGGCCGGGTAAAATTTA
1 AAGGGCCGGGTAAAATTTA
*
50201914 AAGGGCCGGGTTAAATTTA
1 AAGGGCCGGGTAAAATTTA
50201933 GGTATTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.24
Consensus pattern (19 bp):
AAGGGCCGGGTAAAATTTA
Found at i:50204543 original size:19 final size:20
Alignment explanation
Indices: 50204508--50204546 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
50204498 CTATCTTTCA
50204508 AATTTTATAATTTTGCTCAG
1 AATTTTATAATTTTGCTCAG
*
50204528 AATTTTATGA-TTTGCTCAG
1 AATTTTATAATTTTGCTCAG
50204547 TTTAGTCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (20 bp):
AATTTTATAATTTTGCTCAG
Found at i:50204640 original size:80 final size:80
Alignment explanation
Indices: 50204553--50204712 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
50204543 TCAGTTTAGT
*
50204553 CCCTAAATGATTCTTAAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCTGATGATATGA
1 CCCTAAATGATTCTTAAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
50204618 ATAATGTTATAAGTC
66 ATAATGTTATAAGTC
*
50204633 CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
1 CCCTAAATGATTCTTAAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
50204698 ATAATGTTATAAGTC
66 ATAATGTTATAAGTC
50204713 ATGATCTGGT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (80 bp):
CCCTAAATGATTCTTAAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
ATAATGTTATAAGTC
Found at i:50209237 original size:32 final size:33
Alignment explanation
Indices: 50209201--50209268 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
50209191 TGAACATTAC
* *
50209201 AATTTTG-GGTTGTTCTTATATTTATATATGCA
1 AATTTTGAGGTTGATCTTATATTTACATATGCA
* *
50209233 AA-TTTGAGGTTGATCTTATTTTTGCATATGCA
1 AATTTTGAGGTTGATCTTATATTTACATATGCA
50209265 AATT
1 AATT
50209269 CGGGTCGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 4 0.13
32 25 0.83
33 1 0.03
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.50
Consensus pattern (33 bp):
AATTTTGAGGTTGATCTTATATTTACATATGCA
Found at i:50213037 original size:47 final size:47
Alignment explanation
Indices: 50212968--50213065 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
50212958 GAATCAGTTT
50212968 TGGAAAAGAATGAAAAAATTTTAGAGTATTGATATCTCTCACATACA
1 TGGAAAAGAATGAAAAAATTTTAGAGTATTGATATCTCTCACATACA
50213015 TGGAAAAGAATGAAAAAATTTTAGAGTATTGATATCTCTCACATACA
1 TGGAAAAGAATGAAAAAATTTTAGAGTATTGATATCTCTCACATACA
50213062 TGGA
1 TGGA
50213066 GCCAATGCAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (47 bp):
TGGAAAAGAATGAAAAAATTTTAGAGTATTGATATCTCTCACATACA
Found at i:50219568 original size:12 final size:12
Alignment explanation
Indices: 50219551--50219575 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50219541 TCCCCCACGC
50219551 TTCTTCTTCTTG
1 TTCTTCTTCTTG
50219563 TTCTTCTTCTTG
1 TTCTTCTTCTTG
50219575 T
1 T
50219576 CTTTTGCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.08, T:0.68
Consensus pattern (12 bp):
TTCTTCTTCTTG
Found at i:50220245 original size:29 final size:30
Alignment explanation
Indices: 50220204--50220266 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
50220194 AATTGAACCT
50220204 AATTTTTAAAATAAAAAAATATAA-GCACTA
1 AATTTTTAAAATAAAAAAATA-AATGCACTA
* * *
50220234 AATTTTT-GAATATAAAAATAAATGGACTA
1 AATTTTTAAAATAAAAAAATAAATGCACTA
50220263 AATT
1 AATT
50220267 CTAAATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 20 0.69
30 7 0.24
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (30 bp):
AATTTTTAAAATAAAAAAATAAATGCACTA
Found at i:50221152 original size:15 final size:15
Alignment explanation
Indices: 50221143--50221175 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
50221133 CAAATGCTAT
50221143 AATAATAAATACAAC
1 AATAATAAATACAAC
*
50221158 AATAATAAATACATC
1 AATAATAAATACAAC
50221173 AAT
1 AAT
50221176 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:50223401 original size:44 final size:43
Alignment explanation
Indices: 50223304--50224019 Score: 489
Period size: 44 Copynumber: 16.7 Consensus size: 43
50223294 CTAGGGTCTA
* * ***
50223304 CTCCACTGCAACTTCAGGGAGATAAGACT-A-GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
* * *
50223345 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
* * * * *
50223388 CTCCACTGCAACTTCAGAGAAATATGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTAATCTG
* * ***
50223432 CTCCACTGCAACTTCAGGGAGATGAGATT-A-GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
* * * * ** * *
50223473 CT-CTCTGCAACTTTAGAGAAATAAGATCTGTGATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
* * **
50223516 CTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTAATCTG
* * *
50223560 TTCCACTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
* * **
50223604 CTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTAATCTG
* * * *
50223648 TTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAG--GT-TTTAATCTG
* *
50223693 C-CTCACTGCAACTTCA-GGAGGATAAGACTT--GCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTAAGGTT--TTAATCTG
* * * **
50223737 CTCCACTGCAACTTTAGGGAGATAAGACT-A-GATGCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
* * * * **
50223778 CT-CTCTGCAACTTCAGAGAGATAAGATCT--GATTTTAGTCCA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
* *
50223819 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTAATCTG
* * ***
50223863 TTCCACTGCAACTTCAGGGAGATAAGATT-A-GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
* * ** * *
50223904 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
* * *
50223947 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTAATCTG
* *
50223991 CTCCACTGTAACTTTAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
50224020 TGCCATCTTC
Statistics
Matches: 522, Mismatches: 119, Indels: 65
0.74 0.17 0.09
Matches are distributed among these distances:
40 86 0.16
41 36 0.07
42 26 0.05
43 30 0.06
44 308 0.59
45 34 0.07
46 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
Found at i:50223481 original size:84 final size:84
Alignment explanation
Indices: 50223304--50224106 Score: 524
Period size: 84 Copynumber: 9.3 Consensus size: 84
50223294 CTAGGGTCTA
* * * *** * *
50223304 CTCCACTGCAACTTCAGGGAGATAAGACTA--GATGCGATCTGCT-CTCTGCAACTTCAGAGAGA
1 CTCCACTGCAACTTCAGAGAGATAAGATTATGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* * *
50223366 TAAGATCCAAGGTTTTAATCTG
66 TAAGAT--TA-GATTCAATCTG
* *
50223388 CTCCACTGCAACTTCAGAGAAATATGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGAGAGATAAGATTAT-GGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
50223453 ATGAGATTAGATGCGATCTG
65 ATAAGATTAGATTCAATCTG
* * * * ** *
50223473 CT-CTCTGCAACTTTAGAGAAATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGAGAGATAAGAT-TATGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
50223537 ATAGGATTATCGACTTTAATCTG
65 ATAAGATTA--GA-TTCAATCTG
* * * *
50223560 TTCCACTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGAGAGATAAGAT-TATGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
50223625 ATAGGATTATCGACTTTAATCTG
65 ATAAGATTA--GA-TTCAATCTG
* * *
50223648 TTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTCAATCTGC-CTCACTGCAACTTCA-G
1 CTCCACTGCAACTTCAGAGAGATAAGATTATGGC-T-TT-AATCTGCTC-CACTGCAACTTCAGG
* *
50223710 GAGGATAAGACTT-GCTTACTTAGTCTG
62 GA-GATAAGA-TTAGATT-C--AATCTG
* * * * ** * *
50223737 CTCCACTGCAACTTTAGGGAGATAAGACTA--GATGCAATCTGCT-CTCTGCAACTTCAGAGAGA
1 CTCCACTGCAACTTCAGAGAGATAAGATTATGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* * **
50223799 TAAGATCT-GATTTTAGTCCA
66 TAAGAT-TAGA-TTCAATCTG
* *
50223819 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTGTTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGAGAGATAAGATTAT-GGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
50223884 ATAAGATTAGATGCGATCTG
65 ATAAGATTAGATTCAATCTG
* * ** *
50223904 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGAGAGATAAGAT-TATGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
50223968 ATAGGATTATCGGCTTTAATCTG
65 ATAAGATTA---GATTCAATCTG
* * * * * *
50223991 CTCCACTGTAACTTTAGGGAGATAAGATT-TGCCATCTTCAGTCTGC-CTCACTGCAACTTCA-T
1 CTCCACTGCAACTTCAGAGAGATAAGATTATGGC-T-TT-AATCTGCTC-CACTGCAACTTCAGG
* * *
50224053 GAGGATAAAACTT-GCTTACTTAGTCTG
62 GA-GATAAGA-TTAGATT-C--AATCTG
*
50224080 CTCCACTGCAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGAGAGATAAGA
50224107 CTAGATGCGA
Statistics
Matches: 577, Mismatches: 100, Indels: 79
0.76 0.13 0.10
Matches are distributed among these distances:
82 32 0.06
83 1 0.00
84 166 0.29
85 39 0.07
86 37 0.06
87 30 0.05
88 158 0.27
89 110 0.19
90 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (84 bp):
CTCCACTGCAACTTCAGAGAGATAAGATTATGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGATTAGATTCAATCTG
Found at i:50223532 original size:128 final size:128
Alignment explanation
Indices: 50223304--50223587 Score: 433
Period size: 128 Copynumber: 2.2 Consensus size: 128
50223294 CTAGGGTCTA
* *
50223304 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAATAA
* * * *
50223369 GATCCAAGGTTTTAATCTGCTCCACTGCAACTTCAGAGAAATATGATTATCGGCTTTAATCTG
66 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAAATAGGATTATCGACTTTAATCTG
* *
50223432 CTCCACTGCAACTTCAGGGAGATGAGATTAGATGCGATCTGCTCTCTGCAACTTTAGAGAAATAA
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAATAA
*** * *
50223497 GATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCTG
66 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAAATAGGATTATCGACTTTAATCTG
* *
50223560 TTCCACTGCAACTTCAGAGAGATAAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGAT
50223588 CCAAGGTTTT
Statistics
Matches: 140, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
128 140 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (128 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAATAA
GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAAATAGGATTATCGACTTTAATCTG
Found at i:50223744 original size:133 final size:131
Alignment explanation
Indices: 50223379--50224019 Score: 361
Period size: 128 Copynumber: 5.0 Consensus size: 131
50223369 GATCCAAGGT
* * * * ** *
50223379 TTTAATCTGCTCCACTGCAACTTCAGAGAAATATGATTATCGGCTTTAATCTGCTCCACTGCAAC
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCCACTTCAATCTGCTCCACTGCAAC
* * ** * *** * * * * * *
50223444 TTCAGGGAGATGAGA-TTAG-ATGCGATCTGCT-CTCTGCAACTTTAGAGAAATAAGATCTGT-G
66 TTCAGAGAGATAAGACCAAGCTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TATCG
*
50223505 AT
130 AC
* * * *
50223507 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCTGTTCCACTGCAAC
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCCACTTCAATCTGCTCCACTGCAAC
*
50223572 TTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCG
66 TTCAGAGAGATAAGA-CCAAGCTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCG
50223637 AC
130 AC
* *
50223639 TTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTCAATCTGC-CTCACTGC
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTAT-CCA-CTTCAATCTGCTC-CACTGC
** * * * *
50223702 AACTTCAG-GAGGATAAGA-CTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGAC
63 AACTTCAGAGA-GATAAGACCAAGCTT--TTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
50223765 TA--GA-
125 TATCGAC
** * * * * * * * * **
50223769 TGCAATCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCT-GATTTTAGTCCACTCCACTGCAAC
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCCACTTCAATCTGCTCCACTGCAAC
* ** * * *
50223831 TTCAGGGAGATAAGATTATCGGC-TTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTA--
66 TTCAGAGAGATAAGACCA--AGCTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATC
50223893 GA-
129 GAC
*** * * * * *** * *
50223895 TGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGT-GTTTTTAATCCGCTCCACTGCAA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCCACTTCAATCTGCTCCACTGCAA
* * ** * * * *
50223958 CTTCAGGGAGATAGGATTATCGGC-TTTAATCTGCTCCACTGTAACTTTAGGGAGATAAGATT
65 CTTCAGAGAGATAAGACCA--AGCTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATT
50224020 TGCCATCTTC
Statistics
Matches: 433, Mismatches: 61, Indels: 38
0.81 0.11 0.07
Matches are distributed among these distances:
126 97 0.22
127 4 0.01
128 154 0.36
129 25 0.06
130 10 0.02
131 17 0.04
132 62 0.14
133 64 0.15
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (131 bp):
TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCCACTTCAATCTGCTCCACTGCAAC
TTCAGAGAGATAAGACCAAGCTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGA
C
Found at i:50223831 original size:82 final size:86
Alignment explanation
Indices: 50223649--50224110 Score: 245
Period size: 89 Copynumber: 5.3 Consensus size: 86
50223639 TTTAATCTGT
* * *
50223649 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGG
1 TCCACTGCAACTTCAGGGAGATAAGACTAG-CA-CTGCAATCTGCCTCACTGCAACTTCAGGAGG
* **
50223714 ATAAGACTTGCTTACTTAGTCTGC
64 ATAAGACTTGATTA-TTAGTCCAC
* *
50223738 TCCACTGCAACTTTAGGGAGATAAGACTAG-A-TGCAATCTG-CTCTCTGCAACTTCA-GAGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTAGCACTGCAATCTGCCTCACTGCAACTTCAGGAG-GA
50223799 TAAGA-TCTGATT-TTAGTCCAC
65 TAAGACT-TGATTATTAGTCCAC
* * * ** *
50223820 TCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG-TTCCACTGCAACTTCAGG-GA
1 TCCACTGCAACTTCAGGGAGATAAGACTAGC-ACTGCAATCTGCCT-CACTGCAACTTCAGGAG-
* ** **
50223883 GATAAGA-TT-A-GATGCGATCTGC
63 GATAAGACTTGATTATTAG-TCCAC
* * *** ** *
50223905 T-CTCTGCAACTTCAGAGAGATAAGATCT-GTGTTTTTAATCCG-CTCCACTGCAACTTCAGG-G
1 TCCACTGCAACTTCAGGGAGATAAGA-CTAG-CACTGCAATCTGCCT-CACTGCAACTTCAGGAG
* * ** * **
50223966 AGATAGGATTATCGGCT-TTAATCTGC
63 -GATAAGACT-T-GATTATTAGTCCAC
* * * * * * *
50223992 TCCACTGTAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCATGAGG
1 TCCACTGCAACTTCAGGGAGATAAGACTAG-CA-CTGCAATCTGCCTCACTGCAACTTCAGGAGG
* * **
50224057 ATAAAACTTGCTTACTTAGTCTGC
64 ATAAGACTTGATTA-TTAGTCCAC
50224081 TCCACTGCAACTTCAGGGAGATAAGACTAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAG
50224111 ATGCGATCTT
Statistics
Matches: 291, Mismatches: 59, Indels: 46
0.73 0.15 0.12
Matches are distributed among these distances:
82 34 0.12
83 4 0.01
84 83 0.29
85 23 0.08
86 23 0.08
87 11 0.04
88 23 0.08
89 87 0.30
90 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (86 bp):
TCCACTGCAACTTCAGGGAGATAAGACTAGCACTGCAATCTGCCTCACTGCAACTTCAGGAGGAT
AAGACTTGATTATTAGTCCAC
Found at i:50224104 original size:44 final size:44
Alignment explanation
Indices: 50223304--50224108 Score: 383
Period size: 44 Copynumber: 18.7 Consensus size: 44
50223294 CTAGGGTCTA
* * * *
50223304 CTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * ** *
50223345 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * *
50223388 CTCCACTGCAACTTCAGAGAAATATGATTATCGGC-T--TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAATCTG
* * * *
50223432 CTCCACTGCAACTTCAGGGAGATGAGA-TTAG-ATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTTACTTAATCTG
* * * * * *
50223473 CT-CTCTGCAACTTTAGAGAAATAAGATCTGTGATT--TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTACTTAATCTG
* * *
50223516 CTCCACTGCAACTTCAGGGAGATAGGA-TT-ATCGACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCT-TAC-TTAATCTG
* * ** *
50223560 TTCCACTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * *
50223604 CTCCACTGCAACTTCAGGGAGATAGGA-TT-ATCGACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCT-TAC-TTAATCTG
* * *
50223648 TTCCACTGCAACTTCAGGGAGATAAGATTTGC-CATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
*
50223693 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * *
50223737 CTCCACTGCAACTTTAGGGAGATAAGACTAG-ATGC--AATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * * * **
50223778 CT-CTCTGCAACTTCAGAGAGATAAGA-TCTGATT--TTAGTCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGCTTACTTAATCTG
*
50223819 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGC-T--TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAATCTG
* * * *
50223863 TTCCACTGCAACTTCAGGGAGATAAGA-TTAG-ATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTTACTTAATCTG
* * * *
50223904 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTG-TT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTACTTAATCTG
* *
50223947 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGC-T--TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAATCTG
* * * * *
50223991 CTCCACTGTAACTTTAGGGAGATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* * *
50224036 C-CTCACTGCAACTTCA-TGAGGATAAAACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
50224080 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
50224109 AGATGCGATC
Statistics
Matches: 591, Mismatches: 104, Indels: 135
0.71 0.13 0.16
Matches are distributed among these distances:
39 1 0.00
40 88 0.15
41 35 0.06
42 33 0.06
43 32 0.05
44 322 0.54
45 77 0.13
46 2 0.00
48 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
Found at i:50236013 original size:15 final size:15
Alignment explanation
Indices: 50236004--50236036 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
50235994 CAAATGCTAT
50236004 AATAATAAATACAAC
1 AATAATAAATACAAC
*
50236019 AATAATAAATACATC
1 AATAATAAATACAAC
50236034 AAT
1 AAT
50236037 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:50236413 original size:40 final size:43
Alignment explanation
Indices: 50236352--50236431 Score: 103
Period size: 40 Copynumber: 1.9 Consensus size: 43
50236342 GAGCTTTTTT
* *
50236352 TTAAAGAATAAATATCCATATG-GATATAAATAA-AATATTTG
1 TTAAAGAATAAATATACATATGACATATAAATAATAATATTTG
*
50236393 TTAAA-AATATATATACATATGTACATATAAATAATAATA
1 TTAAAGAATAAATATACATATG-ACATATAAATAATAATA
50236432 ATAATTCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 14 0.42
41 5 0.15
42 10 0.30
43 4 0.12
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (43 bp):
TTAAAGAATAAATATACATATGACATATAAATAATAATATTTG
Found at i:50240071 original size:4 final size:4
Alignment explanation
Indices: 50240057--50240102 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
50240047 GATGATGTGT
*
50240057 TAAA AAAA TAAA TAAA TATAA TAAA TAAA T-AA -AAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TA-AA TAAA TAAA TAAA TAAA TAAA TAAA TAA
50240103 TATAGAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 4 0.11
4 29 0.78
5 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:50240084 original size:17 final size:18
Alignment explanation
Indices: 50240057--50240115 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
50240047 GATGATGTGT
* *
50240057 TAAAAAAATAAATAAATA
1 TAAATAAATAAATAAAAA
50240075 T-AATAAATAAATAAAAA
1 TAAATAAATAAATAAAAA
50240092 TAAATAAATAATATAGAAAA
1 TAAATAAATAA-ATA-AAAA
50240112 -AAAT
1 TAAAT
50240116 TGAAATCGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 15 0.42
18 10 0.28
19 7 0.19
20 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
TAAATAAATAAATAAAAA
Found at i:50240096 original size:23 final size:23
Alignment explanation
Indices: 50240061--50240115 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 23
50240051 ATGTGTTAAA
50240061 AAAATAAATAAATATAATAA-ATA-
1 AAAA-AAATAAATA-AATAATATAG
50240084 AATAAAAATAAATAAATAATATAG
1 AA-AAAAATAAATAAATAATATAG
50240108 AAAAAAAT
1 AAAAAAAT
50240116 TGAAATCGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.17
23 20 0.69
24 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAAAAATAAATAAATAATATAG
Found at i:50241020 original size:58 final size:58
Alignment explanation
Indices: 50240954--50241069 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
50240944 CAATAAATGA
*
50240954 AAGTTATCAAGAAGGAGAAGTCAATATATAAGATATTATTTTGTTACTCCATGTTATG
1 AAGTTATCAAGAAGGAAAAGTCAATATATAAGATATTATTTTGTTACTCCATGTTATG
*
50241012 AAGTTATCAAGAAGGAAAAGTCAATATATAAGATATTATTTTGTTACTCTATGTTATG
1 AAGTTATCAAGAAGGAAAAGTCAATATATAAGATATTATTTTGTTACTCCATGTTATG
50241070 TATTGTATAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (58 bp):
AAGTTATCAAGAAGGAAAAGTCAATATATAAGATATTATTTTGTTACTCCATGTTATG
Found at i:50244361 original size:33 final size:33
Alignment explanation
Indices: 50244319--50244438 Score: 127
Period size: 33 Copynumber: 3.6 Consensus size: 33
50244309 CTCATCTGCC
*
50244319 TCAGCTTGTACACCTTCTACATCACCCTCCCCA
1 TCAGCTTGTACACCTTCTACATCACCTTCCCCA
* *
50244352 TCAGCTTGTATC-TCTTCTATATCACCTTCCCCA
1 TCAGCTTGTA-CACCTTCTACATCACCTTCCCCA
* * * * * *
50244385 TAAACTTCTACCCCTTCAACATCACATTCCCCAA
1 TCAGCTTGTACACCTTCTACATCACCTTCCCC-A
50244419 T-AGCTTGTACACCTTCTACA
1 TCAGCTTGTACACCTTCTACA
50244439 ACGCCATCCC
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
32 1 0.01
33 66 0.94
34 3 0.04
ACGTcount: A:0.24, C:0.39, G:0.05, T:0.32
Consensus pattern (33 bp):
TCAGCTTGTACACCTTCTACATCACCTTCCCCA
Found at i:50244562 original size:66 final size:65
Alignment explanation
Indices: 50244391--50244566 Score: 198
Period size: 66 Copynumber: 2.7 Consensus size: 65
50244381 CCCATAAACT
* *
50244391 TCTACCCCTTCAACATCACATTCC-CCA-ATAGCTTGTACACCTTCTACAACGCCATCCCTATCT
1 TCTACCCCTTCAACATCAC---CCTCCATACAGCTTGTACTCCTTCTACAACGCCATCCCTATCT
50244454 AAA
63 AAA
* * *
50244457 TTTACCCCTTCAACATCACCCTCCATAACAACTTGTACTCCTTCTACAACGCCAT-CTTCATCTA
1 TCTACCCCTTCAACATCACCCTCCAT-ACAGCTTGTACTCCTTCTACAACGCCATCCCT-ATCTA
50244521 AA
64 AA
* *
50244523 TCTACCCTTTCAACATCACCCTTCTCAT-CAGCTTCTACTCCTTC
1 TCTACCCCTTCAACATCACCC-TC-CATACAGCTTGTACTCCTTC
50244567 AACATCACTT
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
63 2 0.02
64 3 0.03
65 2 0.02
66 83 0.87
67 2 0.02
68 3 0.03
ACGTcount: A:0.26, C:0.40, G:0.03, T:0.31
Consensus pattern (65 bp):
TCTACCCCTTCAACATCACCCTCCATACAGCTTGTACTCCTTCTACAACGCCATCCCTATCTAAA
Found at i:50252183 original size:22 final size:24
Alignment explanation
Indices: 50252157--50252217 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
50252147 TTTTTTGAAT
50252157 TTTTAAAAAAATATTT-AT-ATTA
1 TTTTAAAAAAATATTTAATAATTA
***
50252179 TTTTAATTTAATATTTAATAATTA
1 TTTTAAAAAAATATTTAATAATTA
50252203 TTTTAAAAAAATATT
1 TTTTAAAAAAATATT
50252218 ATTATTAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 13 0.42
23 2 0.06
24 16 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTAAAAAAATATTTAATAATTA
Found at i:50257616 original size:9 final size:9
Alignment explanation
Indices: 50257602--50257628 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
50257592 CTCAAATTCA
50257602 AATTAATTT
1 AATTAATTT
50257611 AATTAATTT
1 AATTAATTT
50257620 AATTAATTT
1 AATTAATTT
50257629 TTAATTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTAATTT
Found at i:50262877 original size:17 final size:17
Alignment explanation
Indices: 50262852--50262898 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
50262842 TAATTAAGCT
*
50262852 AAAATAAATGAAAA-ATA
1 AAAAAAAAT-AAAAGATA
50262869 AAAAAAAATAAAAGATA
1 AAAAAAAATAAAAGATA
* *
50262886 ACAAAAACTAAAA
1 AAAAAAAATAAAA
50262899 ACCGGATTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (17 bp):
AAAAAAAATAAAAGATA
Found at i:50265294 original size:25 final size:25
Alignment explanation
Indices: 50265249--50265296 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50265239 CTTTACTGTT
50265249 TAAAAATAATAATAAAATAATAAAA
1 TAAAAATAATAATAAAATAATAAAA
* * *
50265274 TAAAAATTATATTAATATAATAA
1 TAAAAATAATAATAAAATAATAA
50265297 TAATTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
TAAAAATAATAATAAAATAATAAAA
Found at i:50269240 original size:21 final size:21
Alignment explanation
Indices: 50269214--50269254 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
50269204 TAATTTAAAA
*
50269214 TATTTTTAAAATACTTTTTTT
1 TATTTTTAAAATAATTTTTTT
50269235 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTT
50269255 GGTGTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTTTTAAAATAATTTTTTT
Found at i:50273572 original size:22 final size:22
Alignment explanation
Indices: 50273547--50273591 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
50273537 TACTCATATA
50273547 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
50273569 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
50273591 A
1 A
50273592 ATTTAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:50273650 original size:16 final size:15
Alignment explanation
Indices: 50273610--50273650 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
50273600 TTTCAATTTT
50273610 ATTTT-AATAATAAA
1 ATTTTAAATAATAAA
50273624 A-TTTAAA-AATAATA
1 ATTTTAAATAATAA-A
50273638 ATTTTAAATAATA
1 ATTTTAAATAATA
50273651 TTATTCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.35
14 5 0.22
15 6 0.26
16 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAATAATAAA
Found at i:50276618 original size:67 final size:67
Alignment explanation
Indices: 50276547--50276673 Score: 154
Period size: 67 Copynumber: 1.9 Consensus size: 67
50276537 TTTTGCTATG
*
50276547 TTATTATTAAATTAATT-AATTAACTA-TTATCAT-CATTATTAT-TTTCCTTTTATTTATTTAC
1 TTATTACTAAATT-ATTAAATTAACTAGTT-T--TGCATTATTATATTTCCTTTTATTTATTTAC
50276608 TTATTA
62 TTATTA
* * *
50276614 TTATTACTATATTGTTAAATTAATTAGTTTTGCATTATTATATTTCCTTTTATTTATTTA
1 TTATTACTAAATTATTAAATTAACTAGTTTTGCATTATTATATTTCCTTTTATTTATTTA
50276674 TCTAAATATT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
65 1 0.02
66 11 0.21
67 38 0.73
68 2 0.04
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (67 bp):
TTATTACTAAATTATTAAATTAACTAGTTTTGCATTATTATATTTCCTTTTATTTATTTACTTAT
TA
Found at i:50278916 original size:11 final size:11
Alignment explanation
Indices: 50278898--50278939 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
50278888 ACAATAACAA
50278898 CAAAATAATAG
1 CAAAATAATAG
*
50278909 CAATATAATAG
1 CAAAATAATAG
*
50278920 CAAAATGATAG
1 CAAAATAATAG
50278931 CAAAATAAT
1 CAAAATAAT
50278940 GAAAAAATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:50278916 original size:22 final size:22
Alignment explanation
Indices: 50278890--50278938 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
50278880 ATATCCAAAC
50278890 AATAACAACAAAATAATAGCAA
1 AATAACAACAAAATAATAGCAA
* * * *
50278912 TATAATAGCAAAATGATAGCAA
1 AATAACAACAAAATAATAGCAA
50278934 AATAA
1 AATAA
50278939 TGAAAAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.63, C:0.10, G:0.08, T:0.18
Consensus pattern (22 bp):
AATAACAACAAAATAATAGCAA
Found at i:50278947 original size:22 final size:22
Alignment explanation
Indices: 50278899--50278945 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
50278889 CAATAACAAC
* *
50278899 AAAATAATAGCAATATAATAGC
1 AAAATAATAGCAAAATAATAGA
*
50278921 AAAATGATAGCAAAATAAT-GA
1 AAAATAATAGCAAAATAATAGA
50278942 AAAA
1 AAAA
50278946 ATAGTGAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.64, C:0.06, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAATAATAGCAAAATAATAGA
Found at i:50284369 original size:18 final size:19
Alignment explanation
Indices: 50284329--50284382 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 19
50284319 CAATTTGAAT
50284329 GAAA-AAAAAGCAAAA-AAA
1 GAAAGAAAAAG-AAAAGAAA
*
50284347 AAAAGAAAAAG-AAAGAAA
1 GAAAGAAAAAGAAAAGAAA
50284365 GAAAG-AAAAGAAAAGAAA
1 GAAAGAAAAAGAAAAGAAA
50284383 AGCTAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 8 0.26
18 17 0.55
19 6 0.19
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (19 bp):
GAAAGAAAAAGAAAAGAAA
Found at i:50284374 original size:5 final size:5
Alignment explanation
Indices: 50284329--50284384 Score: 52
Period size: 5 Copynumber: 12.2 Consensus size: 5
50284319 CAATTTGAAT
*
50284329 GAAAA -AAAA GCAAA -AAAA -AAAA GAAAA -AGAAA G-AAA G-AAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GA-AAA GAAAA GAAAA GAAAA
50284374 GAAAA GAAAA G
1 GAAAA GAAAA G
50284385 CTAAAATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 20 0.45
5 24 0.55
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:50284384 original size:23 final size:22
Alignment explanation
Indices: 50284329--50284390 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
50284319 CAATTTGAAT
50284329 GAAAAAAAAGCAAAAAAAAAAA
1 GAAAAAAAAGCAAAAAAAAAAA
*
50284351 GAAAAAGAAAG-AAAGAAAGAAAA
1 GAAAAA-AAAGCAAA-AAAAAAAA
*
50284374 GAAAAGAAAAGCTAAAA
1 GAAAA-AAAAGCAAAAA
50284391 TTATTGTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 9 0.26
23 22 0.65
24 3 0.09
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (22 bp):
GAAAAAAAAGCAAAAAAAAAAA
Found at i:50287684 original size:47 final size:47
Alignment explanation
Indices: 50287623--50287765 Score: 218
Period size: 47 Copynumber: 3.1 Consensus size: 47
50287613 GTAATAAGGC
*
50287623 GAATCATTGTTCAATGAGATCGTTTGGGATTATGATCAATATGTGTA
1 GAATAATTGTTCAATGAGATCGTTTGGGATTATGATCAATATGTGTA
50287670 GAATAATTGTTCAATGAGATCGTTTGGGATTATGATCAATATGTGTA
1 GAATAATTGTTCAATGAGATCGTTTGGGATTATGATCAATATGTGTA
* * * *
50287717 GAATAATTATTCAATGAAATCGTTTGAGATTAT-ATTGAATATGTG-A
1 GAATAATTGTTCAATGAGATCGTTTGGGATTATGA-TCAATATGTGTA
50287763 GAA
1 GAA
50287766 CTGATTAACA
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
46 5 0.06
47 85 0.94
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (47 bp):
GAATAATTGTTCAATGAGATCGTTTGGGATTATGATCAATATGTGTA
Found at i:50289255 original size:3 final size:3
Alignment explanation
Indices: 50289247--50289277 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
50289237 AACTAATACA
*
50289247 AAT AAT AAT ATT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
50289278 GTTAAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:50290620 original size:16 final size:16
Alignment explanation
Indices: 50290599--50290666 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
50290589 TTTGGTTCGC
50290599 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
50290615 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
50290630 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
50290647 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
50290663 TGTA
1 TGTA
50290667 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:50290638 original size:32 final size:32
Alignment explanation
Indices: 50290599--50290666 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
50290589 TTTGGTTCGC
50290599 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
50290631 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
50290663 TGTA
1 TGTA
50290667 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:50290990 original size:157 final size:157
Alignment explanation
Indices: 50290796--50291105 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
50290786 CCCTTAGCAT
*
50290796 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
50290861 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
50290926 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
50290953 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
50291018 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
50291083 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
50291106 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:50291102 original size:82 final size:81
Alignment explanation
Indices: 50290859--50291108 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
50290849 TATTATTATC
* * *
50290859 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
50290924 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
50290941 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
50290995 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
50291016 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
50291081 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
50291098 AATAATTAATA
1 AATAATAAATA
50291109 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:50291179 original size:157 final size:155
Alignment explanation
Indices: 50290842--50291163 Score: 349
Period size: 157 Copynumber: 2.0 Consensus size: 155
50290832 TTAAATTTTA
* * * *
50290842 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * * * * ** *
50290907 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCAGAAATTTGTTTTGGTAAATT
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
* * * * *
50290972 ATTATTGTTATTGTTATTTAAATTTTG
131 ATAATTATTATTGATATATAAA--TAG
* *
50290999 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * **
50291064 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-A
50291129 AATCATAATATATTATATGATACTATAAA-AG
127 AATCATAAT-TATTAT-TGATA-TATAAATAG
50291160 ATAA
1 ATAA
50291164 TTTGAAATAA
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
157 102 0.74
159 4 0.03
160 4 0.03
161 13 0.09
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
ATAATTATTATTGATATATAAATAG
Found at i:50295329 original size:23 final size:23
Alignment explanation
Indices: 50295303--50295391 Score: 61
Period size: 25 Copynumber: 3.7 Consensus size: 23
50295293 TTTAAATATA
50295303 TATATATATTTTAAAAAAATGCG
1 TATATATATTTTAAAAAAATGCG
* * *
50295326 TATATATTATATATAAAAATATGTG
1 TATATA-TAT-TTTAAAAAAATGCG
* * ** * *
50295351 TGTTTAATACATAAAAAAAATGCA
1 TATAT-ATATTTTAAAAAAATGCG
*
50295375 TATATATATTGTAAAAA
1 TATATATATTTTAAAAA
50295392 CCATGCGTGC
Statistics
Matches: 45, Mismatches: 18, Indels: 6
0.65 0.26 0.09
Matches are distributed among these distances:
23 14 0.31
24 14 0.31
25 16 0.36
26 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (23 bp):
TATATATATTTTAAAAAAATGCG
Found at i:50295342 original size:25 final size:25
Alignment explanation
Indices: 50295299--50295381 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
50295289 AAGCTTTAAA
*
50295299 TATATATATATATTTTAAAAAAATGCG
1 TATATAT-TATA-TATAAAAAAATGCG
* *
50295326 TATATATTATATATAAAAATATGTG
1 TATATATTATATATAAAAAAATGCG
* * * * *
50295351 TGTTTAATACATA-AAAAAAATGCA
1 TATATATTATATATAAAAAAATGCG
50295375 TATATAT
1 TATATAT
50295382 ATTGTAAAAA
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
24 12 0.28
25 20 0.47
26 4 0.09
27 7 0.16
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (25 bp):
TATATATTATATATAAAAAAATGCG
Found at i:50297242 original size:44 final size:45
Alignment explanation
Indices: 50297146--50297242 Score: 101
Period size: 44 Copynumber: 2.2 Consensus size: 45
50297136 CACTAGTGCT
* * * *
50297146 TAGGGAGATAAGATCTGTAATCTTCAATCTACTTCGCCACCACTA
1 TAGGAAGATAAAATCTGTAATATTCAATCCACTTCGCCACCACTA
* *
50297191 T-GAGAAGATAAAATCTGT-ATATTCGATCCACTTCGCTACCGA-TA
1 TAG-GAAGATAAAATCTGTAATATTCAATCCACTTCGCCACC-ACTA
50297235 TAGGAAGA
1 TAGGAAGA
50297243 CAGGACCTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
44 27 0.63
45 16 0.37
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (45 bp):
TAGGAAGATAAAATCTGTAATATTCAATCCACTTCGCCACCACTA
Found at i:50297310 original size:44 final size:44
Alignment explanation
Indices: 50297255--50297790 Score: 399
Period size: 44 Copynumber: 12.1 Consensus size: 44
50297245 GGACCTGCTA
* * **
50297255 TCTTTGATCTACTCCACGCCAGTACATGAAGATAAGATCTATTT
1 TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGGTT
* *** *
50297299 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCT-GTT
1 TCTTTGATCTACTCCA-CACCAGTACATGAAGACAAGATCTGGTT
* * * *
50297343 TCTTTGATCTGCTTCGC-CACCAGTATGA-GAAGGCAAGATCTGGTA
1 TCTTTGATCTAC-TC-CACACCAGTA-CATGAAGACAAGATCTGGTT
* * *
50297388 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
1 TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGGTT
* *** *
50297432 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCT-GTT
1 TCTTTGATCTACTCCA-CACCAGTACATGAAGACAAGATCTGGTT
* * * *
50297476 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTT
1 TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGGTT
* *** *
50297520 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCT-GTT
1 TCTTTGATCTACTCCA-CACCAGTACATGAAGACAAGATCTGGTT
* * *
50297564 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
1 TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGGTT
* * * * * *
50297608 TCTTTGATCTGCTTCGC-CACCGGTATAGGAAGGCAAGATCTAGTAT
1 TCTTTGATCTAC-TC-CACACCAGTACATGAAGACAAGATCTGGT-T
* * * * * * *
50297654 T-TCTGATCTATTTCACGCTAGTACATGAAGGCAAGATCTGTTT
1 TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGGTT
* * * * *
50297697 TCTTTGATCTGCTTCGC-CACCGGTATGA-GAAGGCAAGATCTGGTA
1 TCTTTGATCTAC-TC-CACACCAGTA-CATGAAGACAAGATCTGGTT
* * *
50297742 TCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCT-GTT
1 TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGGTT
50297785 ATCTTT
1 -TCTTT
50297791 CAACCTACTC
Statistics
Matches: 375, Mismatches: 95, Indels: 44
0.73 0.18 0.09
Matches are distributed among these distances:
43 46 0.12
44 194 0.52
45 129 0.34
46 6 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
TCTTTGATCTACTCCACACCAGTACATGAAGACAAGATCTGGTT
Found at i:50297422 original size:88 final size:88
Alignment explanation
Indices: 50297329--50297790 Score: 642
Period size: 88 Copynumber: 5.2 Consensus size: 88
50297319 CAGTATGGGG
50297329 AGACAAGATCTG-TTTCTTTGATCTGCTTCGCCACCAGTATGAGAAGGCAAGATCTGGTATCTTT
1 AGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATGAGAAGGCAAGATCT-GTATCTTT
50297393 GATCTACTTCACGCCAGTACATGA
65 GATCTACTTCACGCCAGTACATGA
* * * * * * * *
50297417 AGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTG
1 AGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATGAGAAGGCAAGATCTGTATCTTTG
50297482 ATCTACTTCACGCCAGTACATGA
66 ATCTACTTCACGCCAGTACATGA
* * * * * * * * *
50297505 AGACAAGATTTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTG
1 AGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATGAGAAGGCAAGATCTGTATCTTTG
50297570 ATCTACTTCACGCCAGTACATGA
66 ATCTACTTCACGCCAGTACATGA
*
50297593 AGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCGGTAT-AGGAAGGCAAGATCTAGTAT-TT
1 AGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATGA-GAAGGCAAGATCT-GTATCTT
* *
50297656 CTGATCTATTTCACGCTAGTACATGA
64 -TGATCTACTTCACGCCAGTACATGA
* * *
50297682 AGGCAAGATCTGTTTTCTTTGATCTGCTTCGCCACCGGTATGAGAAGGCAAGATCTGGTATCTCT
1 AGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATGAGAAGGCAAGATCT-GTATCTTT
50297747 GATCTACTTCACGCCAGTACATGA
65 GATCTACTTCACGCCAGTACATGA
*
50297771 AGACAAGATCTGTTATCTTT
1 AGACAAGATCTGTTTTCTTT
50297791 CAACCTACTC
Statistics
Matches: 340, Mismatches: 28, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
88 178 0.52
89 160 0.47
90 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (88 bp):
AGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATGAGAAGGCAAGATCTGTATCTTTG
ATCTACTTCACGCCAGTACATGA
Found at i:50297778 original size:133 final size:133
Alignment explanation
Indices: 50297155--50297781 Score: 533
Period size: 133 Copynumber: 4.7 Consensus size: 133
50297145 TTAGGGAGAT
** * * * * * * * * * *
50297155 AAGATCTGTAATCTTCAATCTACTTCGCCACCACTATGAGAAGATAAAATCTGTATATTCGATCC
1 AAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGAGAAGACAAGATCTGTTTCTTTGATCT
* * * *
50297220 ACTTCG-CTACC-GATATAGGAAGACAGGACCT-GCTATCTT-TGATCTACTCCACGCCAGTACA
66 ACTTCGAC-ACCAG-TACATGAAGACAAGATCTAG-TAT-TTCTGATCTACTCCACGCCAGTACA
*
50297281 TGAAGAT
127 TGAAGAC
* * *
50297288 AAGATCTATTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCT
1 AAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGAGAAGACAAGATCTGTTTCTTTGATCT
* * * * * *
50297353 GCTTCGCCACCAGTATGA-GAAGGCAAGATCTGGTATCTT-TGATCTACTTCACGCCAGTACATG
66 ACTTCGACACCAGTA-CATGAAGACAAGATCTAGTAT-TTCTGATCTACTCCACGCCAGTACATG
50297416 AAGAC
129 AAGAC
* *
50297421 AAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCT
1 AAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGAGAAGACAAGATCTGTTTCTTTGATCT
* * * ***
50297486 ACTTC-ACGCCAGTACATGAAGACAAGAT-TTGT-TTTCTTCGATCTACTCCACCACCAGTATGG
66 ACTTCGACACCAGTACATGAAGACAAGATCTAGTATTTC-T-GATCTACTCCA-CGCCAGTACAT
*
50297548 GGAGAC
128 GAAGAC
* * * *
50297554 AAGATCTG-TTTCTTTGATCTACTTCA-CGCCAGTA-CATGAAGACAAGATCTGTTTTCTTTGAT
1 AAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGA-GAAGACAAGATCTG-TTTCTTTGAT
* * * * * * * * *
50297616 CTGCTTCGCCACCGGTATAGGAAGGCAAGATCTAGTATTTCTGATCTATTTCACGCTAGTACATG
64 CTACTTCGACACCAGTACATGAAGACAAGATCTAGTATTTCTGATCTACTCCACGCCAGTACATG
*
50297681 AAGGC
129 AAGAC
* * * * * * * *
50297686 AAGATCTGTTTTCTTTGATCTGCTTCGCCACCGGTATGAGAAGGCAAGATCTGGTATCTCTGATC
1 AAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGAGAAGACAAGATCT-GTTTCTTTGATC
*
50297751 TACTTC-ACGCCAGTACATGAAGACAAGATCT
65 TACTTCGACACCAGTACATGAAGACAAGATCT
50297782 GTTATCTTTC
Statistics
Matches: 403, Mismatches: 73, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
129 2 0.00
130 1 0.00
131 25 0.06
132 77 0.19
133 252 0.63
134 40 0.10
135 6 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (133 bp):
AAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGAGAAGACAAGATCTGTTTCTTTGATCT
ACTTCGACACCAGTACATGAAGACAAGATCTAGTATTTCTGATCTACTCCACGCCAGTACATGAA
GAC
Found at i:50309605 original size:24 final size:24
Alignment explanation
Indices: 50309577--50309635 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
50309567 TCATAAAAGC
50309577 TTAAAAATAT-ATATATATATATAT
1 TTAAAAATATCATATATAT-TATAT
* *
50309601 TTAAAAAAATGCGTATATATTATAT
1 TTAAAAATAT-CATATATATTATAT
*
50309626 ATAAAAATAT
1 TTAAAAATAT
50309636 GTGTGTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 9 0.31
25 13 0.45
26 7 0.24
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (24 bp):
TTAAAAATATCATATATATTATAT
Found at i:50309736 original size:21 final size:21
Alignment explanation
Indices: 50309701--50309763 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
50309691 ATGAATATAG
* *
50309701 AAATAATGATAATAACCATAAT
1 AAATAATAAT-ATAACAATAAT
50309723 -AATAAATAATATAACAATAAT
1 AAAT-AATAATATAACAATAAT
* *
50309744 AAATAATGATATAACGATAA
1 AAATAATAATATAACAATAA
50309764 ATATTTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 27 0.77
22 8 0.23
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.27
Consensus pattern (21 bp):
AAATAATAATATAACAATAAT
Found at i:50311467 original size:14 final size:14
Alignment explanation
Indices: 50311448--50311492 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
50311438 TTAATTTTCG
50311448 TAAAATATAAAAAC
1 TAAAATATAAAAAC
* *
50311462 TAAAATTTGAAAAAT
1 TAAAATAT-AAAAAC
*
50311477 TAAAATATAAAGAC
1 TAAAATATAAAAAC
50311491 TA
1 TA
50311493 CCCTCTCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (14 bp):
TAAAATATAAAAAC
Found at i:50314678 original size:36 final size:36
Alignment explanation
Indices: 50314638--50314723 Score: 154
Period size: 36 Copynumber: 2.4 Consensus size: 36
50314628 ATCTTGCCCG
*
50314638 AAACGACGTCGTTTTGGGGTTTATGGAACCAGGCCA
1 AAACGACGTCGTTTTGGAGTTTATGGAACCAGGCCA
*
50314674 AAACGATGTCGTTTTGGAGTTTATGGAACCAGGCCA
1 AAACGACGTCGTTTTGGAGTTTATGGAACCAGGCCA
50314710 AAACGACGTCGTTT
1 AAACGACGTCGTTT
50314724 CAATACCCTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (36 bp):
AAACGACGTCGTTTTGGAGTTTATGGAACCAGGCCA
Found at i:50316114 original size:18 final size:18
Alignment explanation
Indices: 50316093--50316128 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
50316083 GTAGAACCAT
50316093 GCCTTAGTGTATCTACAG
1 GCCTTAGTGTATCTACAG
50316111 GCCTTAGTGTATCTACAG
1 GCCTTAGTGTATCTACAG
50316129 TGAACTTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (18 bp):
GCCTTAGTGTATCTACAG
Found at i:50316280 original size:18 final size:18
Alignment explanation
Indices: 50316259--50316294 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
50316249 GTAGAACCAT
50316259 GCCTTAGTGTATCTACAG
1 GCCTTAGTGTATCTACAG
50316277 GCCTTAGTGTATCTACAG
1 GCCTTAGTGTATCTACAG
50316295 TGAACTTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (18 bp):
GCCTTAGTGTATCTACAG
Found at i:50316283 original size:166 final size:166
Alignment explanation
Indices: 50316009--50316344 Score: 654
Period size: 166 Copynumber: 2.0 Consensus size: 166
50315999 TCTTTGAAAC
50316009 AAATTAAGAGTACATTCCTAAATGAAGATGAAGAGAGAATGCTTAATGCCAAAAGACAAATGGCA
1 AAATTAAGAGTACATTCCTAAATGAAGATGAAGAGAGAATGCTTAATGCCAAAAGACAAATGGCA
*
50316074 GTAGCTTTTGTAGAACCATGCCTTAGTGTATCTACAGGCCTTAGTGTATCTACAGTGAACTTGTC
66 GTAGCTTTTGTAGAACCATGCCTTAGTGTATCTACAGGCCTTAGTGTATCTACAGTGAACTTGGC
*
50316139 TAAGTGGAACATCGGATCGAGTCTGTCATATATTAT
131 TAAGTGGAACATCGGATCGAGCCTGTCATATATTAT
50316175 AAATTAAGAGTACATTCCTAAATGAAGATGAAGAGAGAATGCTTAATGCCAAAAGACAAATGGCA
1 AAATTAAGAGTACATTCCTAAATGAAGATGAAGAGAGAATGCTTAATGCCAAAAGACAAATGGCA
50316240 GTAGCTTTTGTAGAACCATGCCTTAGTGTATCTACAGGCCTTAGTGTATCTACAGTGAACTTGGC
66 GTAGCTTTTGTAGAACCATGCCTTAGTGTATCTACAGGCCTTAGTGTATCTACAGTGAACTTGGC
50316305 TAAGTGGAACATCGGATCGAGCCTGTCATATATTAT
131 TAAGTGGAACATCGGATCGAGCCTGTCATATATTAT
50316341 AAAT
1 AAAT
50316345 GGAGATTACA
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 168 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (166 bp):
AAATTAAGAGTACATTCCTAAATGAAGATGAAGAGAGAATGCTTAATGCCAAAAGACAAATGGCA
GTAGCTTTTGTAGAACCATGCCTTAGTGTATCTACAGGCCTTAGTGTATCTACAGTGAACTTGGC
TAAGTGGAACATCGGATCGAGCCTGTCATATATTAT
Found at i:50318676 original size:42 final size:42
Alignment explanation
Indices: 50318610--50318768 Score: 149
Period size: 42 Copynumber: 3.7 Consensus size: 42
50318600 CAAAAAGAAC
* * * * *
50318610 GTATAATTCATGGACAATATTACTTGGCTTAATGTATGGCAT
1 GTATGATTCATGAACAATAGTACTTAGTTTAATGTATGGCAT
*
50318652 GTATGATTCATGAACAATAGTACTTAGTTTAATGTATGCCAT
1 GTATGATTCATGAACAATAGTACTTAGTTTAATGTATGGCAT
* * *
50318694 GCATGATGTATGAT-ATGAACAATAGTACTCAATTTAAAGTATGGCAT
1 G--T-ATG-AT--TCATGAACAATAGTACTTAGTTTAATGTATGGCAT
* * *
50318741 GTATGATGCATGAACGATGGTACTTAGT
1 GTATGATTCATGAACAATAGTACTTAGT
50318769 AAAAAGCACG
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
42 52 0.55
43 2 0.02
44 4 0.04
45 4 0.04
46 2 0.02
47 30 0.32
48 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (42 bp):
GTATGATTCATGAACAATAGTACTTAGTTTAATGTATGGCAT
Found at i:50318716 original size:47 final size:49
Alignment explanation
Indices: 50318650--50318753 Score: 140
Period size: 47 Copynumber: 2.2 Consensus size: 49
50318640 AATGTATGGC
* * *
50318650 ATGTATGATTCATGAACAATAGTACTTAGTTTAATGTATGCCATGCATG
1 ATGTATGATTCATGAACAATAGTACTCAATTTAAAGTATGCCATGCATG
* *
50318699 ATGTATGA-T-ATGAACAATAGTACTCAATTTAAAGTATGGCATGTATG
1 ATGTATGATTCATGAACAATAGTACTCAATTTAAAGTATGCCATGCATG
*
50318746 ATGCATGA
1 ATGTATGA
50318754 ACGATGGTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
47 40 0.82
48 1 0.02
49 8 0.16
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (49 bp):
ATGTATGATTCATGAACAATAGTACTCAATTTAAAGTATGCCATGCATG
Found at i:50326532 original size:16 final size:17
Alignment explanation
Indices: 50326508--50326542 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
50326498 GAATGGAATT
50326508 AAATGTTTG-AAATTTA
1 AAATGTTTGAAAATTTA
*
50326524 AAATTTTTGAAAATTTA
1 AAATGTTTGAAAATTTA
50326541 AA
1 AA
50326543 TTTGATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (17 bp):
AAATGTTTGAAAATTTA
Found at i:50326543 original size:16 final size:15
Alignment explanation
Indices: 50326506--50326545 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
50326496 TAGAATGGAA
*
50326506 TTAAATGTTTGAAAT
1 TTAAATTTTTGAAAT
50326521 TTAAAATTTTTGAAAAT
1 TT-AAATTTTTG-AAAT
50326538 TTAAATTT
1 TTAAATTT
50326546 GATTTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 14 0.64
17 6 0.27
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
TTAAATTTTTGAAAT
Found at i:50326673 original size:75 final size:80
Alignment explanation
Indices: 50326527--50326676 Score: 204
Period size: 75 Copynumber: 1.9 Consensus size: 80
50326517 AAATTTAAAA
* *
50326527 TTTTTGAAAATTTAAATTTGATTTATTTTGAATTTAAATTTTTTAAAAACAAAAACTTAAAATTT
1 TTTTAGAAAAATTAAATTTGATTTATTTTGAATTTAAATTTTTTAAAAACAAAAACTTAAAATTT
50326592 TAAAAGTTAACAAAC
66 TAAAAGTTAACAAAC
* * *
50326607 TTTTAGAAAAATTAAATTTGA-TT-TTTT-ATTTTAAA-TTTTT-GAAATAAAAACTTAAATATT
1 TTTTAGAAAAATTAAATTTGATTTATTTTGAATTTAAATTTTTTAAAAACAAAAACTTAAA-ATT
50326667 TT-AAAGTTAA
65 TTAAAAGTTAA
50326677 GAATTTTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
75 22 0.34
76 10 0.16
77 7 0.11
78 4 0.06
79 2 0.03
80 19 0.30
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (80 bp):
TTTTAGAAAAATTAAATTTGATTTATTTTGAATTTAAATTTTTTAAAAACAAAAACTTAAAATTT
TAAAAGTTAACAAAC
Found at i:50328334 original size:17 final size:17
Alignment explanation
Indices: 50328312--50328345 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50328302 TTAAATTAAT
*
50328312 TTAAATTAATTTTCCAA
1 TTAAATAAATTTTCCAA
50328329 TTAAATAAATTTTCCAA
1 TTAAATAAATTTTCCAA
50328346 CCCAATTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATAAATTTTCCAA
Found at i:50330697 original size:26 final size:27
Alignment explanation
Indices: 50330644--50330707 Score: 112
Period size: 26 Copynumber: 2.4 Consensus size: 27
50330634 ATAAAAAATA
50330644 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAC-TTTTTTTATTT
50330672 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
50330698 ACCAAAATAT
1 ACCAAAATAT
50330708 ACCAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 21 0.58
28 15 0.42
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:50330728 original size:14 final size:14
Alignment explanation
Indices: 50330711--50330737 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50330701 AAAATATACC
50330711 AAAAAAAACCTGTA
1 AAAAAAAACCTGTA
50330725 AAAAAAAACCTGT
1 AAAAAAAACCTGT
50330738 GGCGGCACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (14 bp):
AAAAAAAACCTGTA
Found at i:50331393 original size:23 final size:23
Alignment explanation
Indices: 50331367--50331438 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 23
50331357 ACTCTATTTT
50331367 AATTTAATAAACTATTCTCATCA
1 AATTTAATAAACTATTCTCATCA
*
50331390 AATTACTTAATAACTCTATT-T--T--
1 AA-T--TTAATAA-ACTATTCTCATCA
50331412 AATTTAATAAACTATTCTCATCA
1 AATTTAATAAACTATTCTCATCA
50331435 AATT
1 AATT
50331439 ACCAAAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
18 5 0.13
19 8 0.21
21 2 0.05
22 2 0.05
23 6 0.16
24 2 0.05
26 8 0.21
27 5 0.13
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTAATAAACTATTCTCATCA
Found at i:50331401 original size:45 final size:45
Alignment explanation
Indices: 50331352--50331440 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
50331342 TCTAATTAAG
50331352 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
50331397 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTAC
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTAC
50331441 CAAAATAGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (45 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
Found at i:50331466 original size:15 final size:15
Alignment explanation
Indices: 50331446--50331495 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
50331436 ATTACCAAAA
50331446 TAGAGTTTATTAAAT
1 TAGAGTTTATTAAAT
50331461 TAGAGTTTATTAAAT
1 TAGAGTTTATTAAAT
*
50331476 GAGAATAGTTTATTAAAT
1 TAG---AGTTTATTAAAT
50331494 TA
1 TA
50331496 AAATAGAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 17 0.57
18 13 0.43
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (15 bp):
TAGAGTTTATTAAAT
Found at i:50331500 original size:18 final size:18
Alignment explanation
Indices: 50331464--50331501 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
50331454 ATTAAATTAG
*
50331464 AGTTTATTAAATGAGAAT
1 AGTTTATTAAATGAAAAT
*
50331482 AGTTTATTAAATTAAAAT
1 AGTTTATTAAATGAAAAT
50331500 AG
1 AG
50331502 AGTTATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.39
Consensus pattern (18 bp):
AGTTTATTAAATGAAAAT
Found at i:50331791 original size:26 final size:28
Alignment explanation
Indices: 50331759--50331822 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
50331749 TTTTTTTGGT
50331759 ATATTTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
50331785 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
50331813 ATATTTTGGT
1 ATATTTTGGT
50331823 TACTTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 14 0.39
27 7 0.19
28 15 0.42
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:50333536 original size:13 final size:13
Alignment explanation
Indices: 50333518--50333543 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50333508 AATTAATTTT
50333518 TAAAAAAATAAAA
1 TAAAAAAATAAAA
50333531 TAAAAAAATAAAA
1 TAAAAAAATAAAA
50333544 AAGGACTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:50334845 original size:10 final size:10
Alignment explanation
Indices: 50334827--50334858 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
50334817 ATAATTATAC
*
50334827 TACAAATATT
1 TACATATATT
50334837 TACATATATT
1 TACATATATT
50334847 TACATATATT
1 TACATATATT
50334857 TA
1 TA
50334859 TTACACGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (10 bp):
TACATATATT
Found at i:50335045 original size:22 final size:22
Alignment explanation
Indices: 50335017--50335061 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
50335007 TATTTTCCAT
*
50335017 TTTAGTCCTTTTTCCTAATTAC
1 TTTAGTCATTTTTCCTAATTAC
*
50335039 TTTAGTCATTTTTCCTACTTAC
1 TTTAGTCATTTTTCCTAATTAC
50335061 T
1 T
50335062 CTTAATTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.22, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTAGTCATTTTTCCTAATTAC
Found at i:50337479 original size:25 final size:26
Alignment explanation
Indices: 50337415--50337479 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
50337405 AAGCTCTCTC
*
50337415 TCGAGCCATATAACGGGAAGCTCATG
1 TCGAGCTATATAACGGGAAGCTCATG
*
50337441 T-GAG-TCATGTAACGGGAAGCTCAT-
1 TCGAGCT-ATATAACGGGAAGCTCATG
*
50337465 TCGAGCTATACAACG
1 TCGAGCTATATAACG
50337480 AAAAGTTCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
24 1 0.03
25 29 0.91
26 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (26 bp):
TCGAGCTATATAACGGGAAGCTCATG
Found at i:50337886 original size:16 final size:17
Alignment explanation
Indices: 50337844--50337886 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
50337834 AATATTTATC
50337844 GAACATTGTCAGATATGT
1 GAACATT-TCAGATATGT
*
50337862 GAACAATTTCATATATGT
1 GAAC-ATTTCAGATATGT
50337880 G-ACATTT
1 GAACATTT
50337887 ATAGAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 2 0.09
18 14 0.61
19 3 0.13
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (17 bp):
GAACATTTCAGATATGT
Found at i:50338092 original size:5 final size:5
Alignment explanation
Indices: 50338082--50338118 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
50338072 AATTAATAAC
*
50338082 CAATT CAATT CAATT CAATT CAATT GAATT CACATT C
1 CAATT CAATT CAATT CAATT CAATT CAATT CA-ATT C
50338119 TAGGAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (5 bp):
CAATT
Found at i:50341067 original size:29 final size:29
Alignment explanation
Indices: 50341034--50341097 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
50341024 TAATCCACCA
50341034 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
50341063 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
50341093 CCCAA
1 CCCAA
50341098 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:50341071 original size:30 final size:30
Alignment explanation
Indices: 50341041--50341097 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50341031 CCACCCAACT
50341041 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
50341070 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
50341098 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:50342684 original size:9 final size:9
Alignment explanation
Indices: 50342670--50342699 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
50342660 CATTAATTAA
50342670 TTAATTTAG
1 TTAATTTAG
50342679 TTAATTTAG
1 TTAATTTAG
50342688 TTAATTTTAG
1 TTAA-TTTAG
50342698 TT
1 TT
50342700 TTTAATCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (9 bp):
TTAATTTAG
Found at i:50343584 original size:36 final size:37
Alignment explanation
Indices: 50343509--50343615 Score: 105
Period size: 37 Copynumber: 2.9 Consensus size: 37
50343499 AAAAATAAGG
* **
50343509 AGATGAACATGAGTGATTCTCTGCAAATAAAAGGTGA
1 AGATAAACATGAGTGATTCTCTGCAAATAAAAGACGA
*
50343546 AGATAAACATGAGT-AGTTCTTTGCAAA-AAAAGACGA
1 AGATAAACATGAGTGA-TTCTCTGCAAATAAAAGACGA
* * *
50343582 AGAT-GACA-GATGTGATTCTCTGTAAACAAAAGAC
1 AGATAAACATGA-GTGATTCTCTGCAAATAAAAGAC
50343616 AGAGATGAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
34 2 0.03
35 14 0.24
36 20 0.34
37 23 0.39
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.23
Consensus pattern (37 bp):
AGATAAACATGAGTGATTCTCTGCAAATAAAAGACGA
Found at i:50343950 original size:15 final size:16
Alignment explanation
Indices: 50343920--50343957 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
50343910 TTTTGTTTAC
50343920 AAATTTAAATTTTCAA
1 AAATTTAAATTTTCAA
50343936 AAATTTAAA-TTTCAA
1 AAATTTAAATTTTCAA
*
50343951 AATTTTA
1 AAATTTA
50343958 CTTCCATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTTAAATTTTCAA
Found at i:50344366 original size:9 final size:9
Alignment explanation
Indices: 50344339--50344399 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 9
50344329 TTAATTTTTT
50344339 AAATATAAA
1 AAATATAAA
50344348 AAAT-TCAAA
1 AAATAT-AAA
50344357 AAATATAAAA
1 AAATAT-AAA
50344367 AAAGTATTTAAA
1 AAA-TA--TAAA
50344379 AAAGTATAAA
1 AAA-TATAAA
*
50344389 AATTATAAA
1 AAATATAAA
50344398 AA
1 AA
50344400 TATTTTTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 1 0.02
9 19 0.42
10 13 0.29
11 2 0.04
12 9 0.20
13 1 0.02
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (9 bp):
AAATATAAA
Found at i:50351913 original size:17 final size:16
Alignment explanation
Indices: 50351874--50351918 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
50351864 TACTTTATGC
*
50351874 AAAATATTTTTTATTTA
1 AAAATA-TTTTTATTCA
*
50351891 ATAATATTTTTATCTCA
1 AAAATATTTTTAT-TCA
50351908 AAAATATTTTT
1 AAAATATTTTT
50351919 GAAAAGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (16 bp):
AAAATATTTTTATTCA
Found at i:50357521 original size:13 final size:13
Alignment explanation
Indices: 50357503--50357528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50357493 ATTTTGGTAC
50357503 TTTTGGTTCAATA
1 TTTTGGTTCAATA
50357516 TTTTGGTTCAATA
1 TTTTGGTTCAATA
50357529 GCATGTATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTTGGTTCAATA
Found at i:50363324 original size:21 final size:21
Alignment explanation
Indices: 50363298--50363414 Score: 135
Period size: 21 Copynumber: 5.6 Consensus size: 21
50363288 GAAGCTTGAA
50363298 AGCTGAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCATAAG
* *
50363319 AGCTGAACAGAAACTCTTAAG
1 AGCTGAACAGAAGCTCATAAG
* * *
50363340 AGTTAAACAGAAGCTCTTAAG
1 AGCTGAACAGAAGCTCATAAG
** *
50363361 AGCTGAACAGAAAATCATTAG
1 AGCTGAACAGAAGCTCATAAG
* *
50363382 AGTTGAACAGAAGCTCGTAAG
1 AGCTGAACAGAAGCTCATAAG
*
50363403 AGTTGAACAGAA
1 AGCTGAACAGAA
50363415 AGTAAAACAC
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 80 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCATAAG
Found at i:50363351 original size:42 final size:42
Alignment explanation
Indices: 50363303--50363415 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 42
50363293 TTGAAAGCTG
*
50363303 AACAGAAGCTCATAAGAGCTGAACAGAAACTC-TTAAGAGTTA
1 AACAGAAGCTCATAAGAGCTGAACAGAAAATCATT-AGAGTTA
* *
50363345 AACAGAAGCTCTTAAGAGCTGAACAGAAAATCATTAGAGTTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAAATCATTAGAGTTA
* *
50363387 AACAGAAGCTCGTAAGAGTTGAACAGAAA
1 AACAGAAGCTCATAAGAGCTGAACAGAAA
50363416 GTAAAACACG
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 63 0.97
43 2 0.03
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACAGAAAATCATTAGAGTTA
Done.