Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 158 of 221
Found at i:47843387 original size:18 final size:18
Alignment explanation
Indices: 47843364--47843400 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
47843354 TTTTTGTACT
*
47843364 ACCAATGCCGTATCCCAG
1 ACCAATGCCATATCCCAG
47843382 ACCAATGCCATATCCCAG
1 ACCAATGCCATATCCCAG
47843400 A
1 A
47843401 TATGGTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.38, G:0.14, T:0.16
Consensus pattern (18 bp):
ACCAATGCCATATCCCAG
Found at i:47843573 original size:50 final size:50
Alignment explanation
Indices: 47843383--47843572 Score: 263
Period size: 50 Copynumber: 3.8 Consensus size: 50
47843373 GTATCCCAGA
* * * ** * *
47843383 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTG
* * **
47843433 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTG
* *
47843483 CCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTG
47843533 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
47843573 TTACCCAAAT
Statistics
Matches: 124, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 124 1.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTG
Found at i:47845040 original size:17 final size:17
Alignment explanation
Indices: 47845018--47845050 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47845008 TCAAAATCTT
*
47845018 GTTCGGGTTGGAAGCTC
1 GTTCGGGTTAGAAGCTC
47845035 GTTCGGGTTAGAAGCT
1 GTTCGGGTTAGAAGCT
47845051 GATTGAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.39, T:0.30
Consensus pattern (17 bp):
GTTCGGGTTAGAAGCTC
Found at i:47845103 original size:22 final size:22
Alignment explanation
Indices: 47845075--47845117 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
47845065 CACAGTATCT
*
47845075 ATCGGTCCTTTTGGTACTTTCC
1 ATCGGTCCTTTCGGTACTTTCC
47845097 ATCGGTCCTTTCGGTACTTTC
1 ATCGGTCCTTTCGGTACTTTC
47845118 AGTAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.28, G:0.19, T:0.44
Consensus pattern (22 bp):
ATCGGTCCTTTCGGTACTTTCC
Found at i:47847244 original size:103 final size:104
Alignment explanation
Indices: 47847000--47847265 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
47846990 GTTGTACATA
** *
47847000 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
47847065 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
47847104 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
47847169 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
47847207 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
47847266 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:47851217 original size:25 final size:25
Alignment explanation
Indices: 47851189--47851269 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
47851179 TGTAAAAAGT
* *
47851189 AAGCTCTTCCAAACTGAATAACGGG
1 AAGCTCATACAAACTGAATAACGGG
* *
47851214 AAGCTCATACGAACTGAATAACGAG
1 AAGCTCATACAAACTGAATAACGGG
* * *
47851239 AAGCTCATGCAAGCTGTATAACGGG
1 AAGCTCATACAAACTGAATAACGGG
47851264 AAGCTC
1 AAGCTC
47851270 GTGCGAGCTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (25 bp):
AAGCTCATACAAACTGAATAACGGG
Found at i:47851278 original size:25 final size:25
Alignment explanation
Indices: 47851206--47851280 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
47851196 TCCAAACTGA
* * *
47851206 ATAACGGGAAGCTCATACGAACTGA
1 ATAACGGGAAGCTCATGCGAGCTGT
* *
47851231 ATAACGAGAAGCTCATGCAAGCTGT
1 ATAACGGGAAGCTCATGCGAGCTGT
*
47851256 ATAACGGGAAGCTCGTGCGAGCTGT
1 ATAACGGGAAGCTCATGCGAGCTGT
47851281 GGTGTGTGTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGCGAGCTGT
Found at i:47867865 original size:44 final size:43
Alignment explanation
Indices: 47867799--47867962 Score: 181
Period size: 43 Copynumber: 3.8 Consensus size: 43
47867789 TCTGATATGT
*
47867799 GATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTG
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTG
* * * *
47867841 CGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCG-TATAG
1 -GATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTG
* * * *
47867885 GAGTTCGTGTAAGACCCCGTCGGGGACAG-TGGCATCGATATTT
1 GATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATTG
* *
47867928 GATTTCATGTAAGACCACGTCTGGGATGTTGGCAT
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
47867963 TGAATGAGCT
Statistics
Matches: 98, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.28
43 40 0.41
44 31 0.32
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (43 bp):
GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTG
Found at i:47873553 original size:22 final size:23
Alignment explanation
Indices: 47873527--47873576 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
47873517 AAGCTCCATG
47873527 TTCATATATCAT-TATCCAT-ATT
1 TTCATATATCATGTAT-CATCATT
47873549 TTCATATATCATGTATCATCATT
1 TTCATATATCATGTATCATCATT
47873572 TTCAT
1 TTCAT
47873577 GTATTTCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.50
Consensus pattern (23 bp):
TTCATATATCATGTATCATCATT
Found at i:47874054 original size:64 final size:64
Alignment explanation
Indices: 47873968--47874094 Score: 182
Period size: 64 Copynumber: 2.0 Consensus size: 64
47873958 CGGAGAGCCA
* *
47873968 TATAATAGGACACTCATAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACTACCGATCG
1 TATAACAGGACACTCACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACTACCGATCG
* ** * * *
47874032 TATAACAGGACGCTCACAAAGAGCTGTGGTATGTTCGCAACACATGCCGGGTCACTACCGATC
1 TATAACAGGACACTCACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACTACCGATC
47874095 AGGATGCTCG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (64 bp):
TATAACAGGACACTCACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACTACCGATCG
Found at i:47877172 original size:3 final size:3
Alignment explanation
Indices: 47877164--47877203 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
47877154 TCATGTCATG
47877164 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47877204 CAAGGATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47879384 original size:18 final size:18
Alignment explanation
Indices: 47879343--47879376 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47879333 AAGAATTCTT
*
47879343 TAAAAATTGTTTAAATTA
1 TAAAAATTGTTGAAATTA
47879361 TAAAAATT-TTGAAATT
1 TAAAAATTGTTGAAATT
47879377 TTGAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
TAAAAATTGTTGAAATTA
Found at i:47880156 original size:16 final size:16
Alignment explanation
Indices: 47880117--47880163 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
47880107 AATTATTTTT
47880117 ACAATTTTTTTTGAAA
1 ACAATTTTTTTTGAAA
47880133 ACATATTTTTTTT-AAA
1 ACA-ATTTTTTTTGAAA
*
47880149 ATTAATTTTTTTTGA
1 A-CAATTTTTTTTGA
47880164 CATGGTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (16 bp):
ACAATTTTTTTTGAAA
Found at i:47882096 original size:63 final size:65
Alignment explanation
Indices: 47882015--47882144 Score: 192
Period size: 63 Copynumber: 2.0 Consensus size: 65
47882005 TTTTCAAGTC
* ** * *
47882015 TTTTTCAATTTTCATTTTCATTTTTGTTTTGGAGAAAACCACATTCATTTCCAAATGTTTC-TAT
1 TTTTTCAATCTTCATTTTCATTTTCATTTTGGAGAAAACCACAATCATCTCCAAATGTTTCTTAT
*
47882079 TTTTTC-ATCTTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATCTCCAAATGTTTCTTAT
1 TTTTTCAATCTTCATTTTCATTTTCATTTTGGAGAAAACCACAATCATCTCCAAATGTTTCTTAT
47882143 TT
1 TT
47882145 CTCCATTTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 48 0.81
64 11 0.19
ACGTcount: A:0.25, C:0.17, G:0.07, T:0.51
Consensus pattern (65 bp):
TTTTTCAATCTTCATTTTCATTTTCATTTTGGAGAAAACCACAATCATCTCCAAATGTTTCTTAT
Found at i:47898256 original size:56 final size:56
Alignment explanation
Indices: 47898163--47898366 Score: 260
Period size: 56 Copynumber: 3.8 Consensus size: 56
47898153 ATTTAGGTAA
* *
47898163 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATAATTGAGATTATG
* *
47898219 AGAGGTCCCATGTAAGACCATGTCTAGGACATAGCATTGGCATAATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATAATTGAGATTATG
* * **
47898275 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGC---ACCGAG---ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATAATTGAGATTATG
* *
47898325 AGAGGTCCTC-CGTAAGACCATGTCTGGGACATGGCATGGGCA
1 AGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCA
47898367 CCTATATGAG
Statistics
Matches: 132, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
50 38 0.29
51 1 0.01
53 4 0.03
56 89 0.67
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (56 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATAATTGAGATTATG
Found at i:47898330 original size:50 final size:51
Alignment explanation
Indices: 47898163--47898416 Score: 244
Period size: 56 Copynumber: 4.8 Consensus size: 51
47898153 ATTTAGGTAA
* *
47898163 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG--TATG
* * **
47898219 AGAGGTCCCATGTAAGACCATGTCTAGGACATAGCATTGGCATAATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGAG--TATG
* *
47898275 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
* * *
47898325 AGAGGTCCTC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCTA-TATG
1 AGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
** * * *
47898375 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
47898417 GTACAAGAAA
Statistics
Matches: 170, Mismatches: 22, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
49 1 0.01
50 78 0.46
51 1 0.01
53 4 0.02
56 85 0.50
59 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
Found at i:47905944 original size:19 final size:19
Alignment explanation
Indices: 47905906--47905945 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47905896 AAAATATTAT
* *
47905906 ATTAATTTTATTTAATTTG
1 ATTAATTTAATTTAACTTG
*
47905925 ATTAATTTAATTTTACTTG
1 ATTAATTTAATTTAACTTG
47905944 AT
1 AT
47905946 CAAAGTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTAATTTAACTTG
Found at i:47906987 original size:25 final size:25
Alignment explanation
Indices: 47906931--47907017 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
47906921 TGAAAGAGTG
* ** *
47906931 TCCTGTTAT-TAGCTCTCATGAGCA
1 TCCTGTTATATGGCTCTCACAAGCT
* *
47906955 TCCCGTTATTTGGCTCTCACAAGCT
1 TCCTGTTATATGGCTCTCACAAGCT
* * *
47906980 TCTTGTTATATGGTTCTTACAAGCT
1 TCCTGTTATATGGCTCTCACAAGCT
47907005 TCCTGTTATATGG
1 TCCTGTTATATGG
47907018 TTCTTATGAG
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 8 0.16
25 43 0.84
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.41
Consensus pattern (25 bp):
TCCTGTTATATGGCTCTCACAAGCT
Found at i:47907018 original size:25 final size:25
Alignment explanation
Indices: 47906959--47907037 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
47906949 TGAGCATCCC
* * * *
47906959 GTTATTTGGCTCTCACAAGCTTCTT
1 GTTATATGGTTCTTACAAGCTTCCT
47906984 GTTATATGGTTCTTACAAGCTTCCT
1 GTTATATGGTTCTTACAAGCTTCCT
** *
47907009 GTTATATGGTTCTTATGAGCTTCCC
1 GTTATATGGTTCTTACAAGCTTCCT
47907034 GTTA
1 GTTA
47907038 ATAGCTCTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (25 bp):
GTTATATGGTTCTTACAAGCTTCCT
Found at i:47907150 original size:25 final size:25
Alignment explanation
Indices: 47907122--47907194 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 25
47907112 CTCAATAGAT
47907122 GGCTCTTTAGAGCTTCCCGATTAAA
1 GGCTCTTTAGAGCTTCCCGATTAAA
* *
47907147 GGCTCTTTCATGAGCTTCCTGATTAAT
1 GGCTCTTT-A-GAGCTTCCCGATTAAA
* *
47907174 GGCTCTCTGGAGCTTCCCGAT
1 GGCTCTTTAGAGCTTCCCGAT
47907195 ATTGGCTCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 19 0.46
26 1 0.02
27 21 0.51
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (25 bp):
GGCTCTTTAGAGCTTCCCGATTAAA
Found at i:47907165 original size:27 final size:27
Alignment explanation
Indices: 47907122--47907194 Score: 84
Period size: 25 Copynumber: 2.9 Consensus size: 27
47907112 CTCAATAGAT
47907122 GGCTCTTT-A-GAGCTTCCCGATTAAA
1 GGCTCTTTCATGAGCTTCCCGATTAAA
* *
47907147 GGCTCTTTCATGAGCTTCCTGATTAAT
1 GGCTCTTTCATGAGCTTCCCGATTAAA
47907174 GGCTC--TC-TGGAGCTTCCCGAT
1 GGCTCTTTCAT-GAGCTTCCCGAT
47907195 ATTGGCTCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.02
25 21 0.50
26 1 0.02
27 19 0.45
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (27 bp):
GGCTCTTTCATGAGCTTCCCGATTAAA
Found at i:47907237 original size:24 final size:23
Alignment explanation
Indices: 47907120--47907244 Score: 83
Period size: 24 Copynumber: 5.1 Consensus size: 23
47907110 GTCTCAATAG
47907120 ATGGCTCTTTAGAGCTTCCCGATT
1 ATGGCTCTTT-GAGCTTCCCGATT
* *
47907144 AAAGGCTCTTTCATGAGCTTCCTGATT
1 -ATGGCTC-TT--TGAGCTTCCCGATT
*
47907171 AATGGCTCTCTGGAGCTTCCCGA-T
1 -ATGGCTCT-TTGAGCTTCCCGATT
** *
47907195 ATTGGCTCGCCTGAACTTCCCGATT
1 A-TGGCTC-TTTGAGCTTCCCGATT
*
47907220 ACGGCTCTTATGAGCTTCCC-ATT
1 ATGGCTCTT-TGAGCTTCCCGATT
47907243 AT
1 AT
47907245 ACAGATCGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
23 5 0.06
24 31 0.40
25 18 0.23
26 3 0.04
27 20 0.26
28 1 0.01
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.34
Consensus pattern (23 bp):
ATGGCTCTTTGAGCTTCCCGATT
Found at i:47911751 original size:16 final size:16
Alignment explanation
Indices: 47911730--47911776 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
47911720 TTAATCACTT
*
47911730 TAATATTAAATTAATA
1 TAATATTAAATTAAAA
* *
47911746 TAATATT-TATCAAAA
1 TAATATTAAATTAAAA
47911761 TAAATATTAAATTAAA
1 T-AATATTAAATTAAA
47911777 TTGAAACATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 6 0.25
16 13 0.54
17 5 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATATTAAATTAAAA
Found at i:47914142 original size:17 final size:18
Alignment explanation
Indices: 47914120--47914219 Score: 61
Period size: 17 Copynumber: 5.8 Consensus size: 18
47914110 ATTATTTTAA
47914120 TAATTTAATATTTAAT-T
1 TAATTTAATATTTAATAT
** *
47914137 TAATTTAATACGT-ATCT
1 TAATTTAATATTTAATAT
* *
47914154 TAA--TAGTATTT-TTAT
1 TAATTTAATATTTAATAT
*
47914169 TAATTTAATATTAAAGTGAT
1 TAATTTAATATTTAA-T-AT
47914189 T-ATCTTAATATTTAAT-T
1 TAAT-TTAATATTTAATAT
*
47914206 TAATTTAATGTTTA
1 TAATTTAATATTTA
47914220 TCTACCAGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
15 10 0.16
16 2 0.03
17 32 0.51
18 2 0.03
19 4 0.06
20 13 0.21
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
TAATTTAATATTTAATAT
Found at i:47922304 original size:24 final size:24
Alignment explanation
Indices: 47922272--47922323 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
47922262 CACCACGAAC
* *
47922272 TTCTAATGCGGTATCGATTCATGT
1 TTCTAATGCGATATCGATTCACGT
* *
47922296 TTCTGATGCGATATCGGTTCACGT
1 TTCTAATGCGATATCGATTCACGT
47922320 TTCT
1 TTCT
47922324 TCTGACGGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.42
Consensus pattern (24 bp):
TTCTAATGCGATATCGATTCACGT
Found at i:47922890 original size:41 final size:42
Alignment explanation
Indices: 47922824--47922930 Score: 166
Period size: 40 Copynumber: 2.6 Consensus size: 42
47922814 AAATTAAAAT
* *
47922824 AAAAATT-TAAAAAAGTATTTTAAAAATA-TTTTAAAATTAA
1 AAAAATTAAAAAAAAGTATTTTAAAAAAATTTTTAAAATTAA
*
47922864 AAAAATT-AAAAAAAGTATTTTAAAAAAATTTTTAAATTTAA
1 AAAAATTAAAAAAAAGTATTTTAAAAAAATTTTTAAAATTAA
47922905 AAAAATTAAAAAAAAGTATTTTAAAA
1 AAAAATTAAAAAAAAGTATTTTAAAA
47922931 TTAAAAAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 26 0.42
41 18 0.29
42 18 0.29
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (42 bp):
AAAAATTAAAAAAAAGTATTTTAAAAAAATTTTTAAAATTAA
Found at i:47922896 original size:12 final size:14
Alignment explanation
Indices: 47922832--47922930 Score: 50
Period size: 14 Copynumber: 7.2 Consensus size: 14
47922822 ATAAAAATTT
47922832 AAAAAAGTATTTT-
1 AAAAAAGTATTTTA
47922845 -AAAAA-TATTTTA
1 AAAAAAGTATTTTA
* **
47922857 AAATTAAA-AAAATTA
1 AAA--AAAGTATTTTA
47922872 AAAAAAGTATTTTA
1 AAAAAAGTATTTTA
47922886 AAAAAA-T-TTTTA
1 AAAAAAGTATTTTA
* * *
47922898 AATTTAAAA-AAATTAA
1 AA---AAAAGTATTTTA
47922914 AAAAAAGTATTTTA
1 AAAAAAGTATTTTA
47922928 AAA
1 AAA
47922931 TTAAAAAATA
Statistics
Matches: 64, Mismatches: 12, Indels: 19
0.67 0.13 0.20
Matches are distributed among these distances:
11 6 0.09
12 12 0.19
13 10 0.16
14 17 0.27
15 14 0.22
16 5 0.08
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAAAAGTATTTTA
Found at i:47922907 original size:31 final size:30
Alignment explanation
Indices: 47922885--47922947 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 30
47922875 AAAGTATTTT
47922885 AAAAAAA-T-TTTTAAATTTAAAAAAATTA
1 AAAAAAAGTATTTTAAATTTAAAAAAATTA
*
47922913 AAAAAAAGTATTTTAAAATT-AAAAAA-TA
1 AAAAAAAGTATTTTAAATTTAAAAAAATTA
47922941 AAAAAAA
1 AAAAAAA
47922948 TAAAAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 16 0.50
29 7 0.22
30 9 0.28
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (30 bp):
AAAAAAAGTATTTTAAATTTAAAAAAATTA
Found at i:47922918 original size:29 final size:28
Alignment explanation
Indices: 47922885--47922947 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
47922875 AAAGTATTTT
*
47922885 AAAAAAAT-TTTTAAATTTAAAAAAATTAA
1 AAAAAAATATTTTAAAATT-AAAAAA-TAA
*
47922914 AAAAAAGTATTTTAAAATTAAAAAATAA
1 AAAAAAATATTTTAAAATTAAAAAATAA
47922942 AAAAAA
1 AAAAAA
47922948 TAAAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 9 0.29
29 13 0.42
30 9 0.29
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAAAAATATTTTAAAATTAAAAAATAA
Found at i:47928072 original size:16 final size:18
Alignment explanation
Indices: 47928039--47928079 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
47928029 TGTATCCTTG
*
47928039 TTATTATATTATTCATTA
1 TTATTTTATTATTCATTA
47928057 TT-TTTTATTA-TCATTA
1 TTATTTTATTATTCATTA
47928073 TTATTTT
1 TTATTTT
47928080 TATACACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 8 0.38
17 11 0.52
18 2 0.10
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTTATTATTCATTA
Found at i:47928196 original size:15 final size:16
Alignment explanation
Indices: 47928155--47928197 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47928145 TTTACATATA
47928155 TATATACATTATTATTT
1 TATATACA-TATTATTT
* *
47928172 TATTTTCATATT-TTT
1 TATATACATATTATTT
47928187 TATATACATAT
1 TATATACATAT
47928198 ATATACTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.55
16 4 0.18
17 6 0.27
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATACATATTATTT
Found at i:47928236 original size:23 final size:23
Alignment explanation
Indices: 47928183--47928249 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
47928173 ATTTTCATAT
47928183 TTTTTATATACATATA-TATACTCA
1 TTTTTAT-TA-ATATATTATACTCA
* *
47928207 TACTTTATTAATATATTATACTTA
1 T-TTTTATTAATATATTATACTCA
* *
47928231 TTTTTATTTATATTTTATA
1 TTTTTATTAATATATTATA
47928250 AGTATATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 20 0.56
24 11 0.31
25 5 0.14
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTTATTAATATATTATACTCA
Found at i:47929385 original size:21 final size:21
Alignment explanation
Indices: 47929338--47929396 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
47929328 CAAAAATGAT
* *
47929338 TATTTTTTATTGTCTTATTAT
1 TATTTTTTATTGTTTTATTAC
* * *
47929359 TGTTTTTTATTATTTTGTTAC
1 TATTTTTTATTGTTTTATTAC
47929380 TATTTTCTTATTGTTTT
1 TATTTT-TTATTGTTTT
47929397 TACACTATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (21 bp):
TATTTTTTATTGTTTTATTAC
Found at i:47929396 original size:11 final size:10
Alignment explanation
Indices: 47929340--47929397 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
47929330 AAAATGATTA
47929340 TTTTTTATTG
1 TTTTTTATTG
*
47929350 TCTTATTATTG
1 T-TTTTTATTG
*
47929361 TTTTTTATTA
1 TTTTTTATTG
* *
47929371 TTTTGTTACTA
1 TTTT-TTATTG
47929382 TTTTCTTATTG
1 TTTT-TTATTG
47929393 TTTTT
1 TTTTT
47929398 ACACTATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 13 0.33
11 26 0.67
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (10 bp):
TTTTTTATTG
Found at i:47932752 original size:21 final size:21
Alignment explanation
Indices: 47932709--47932765 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
47932699 AAATGATTGT
* * *
47932709 TTTTTTATTGTCTTATTATTA
1 TTTTTTATTATTTTATTACTA
*
47932730 TTTTTTATTATTTTGTTACTA
1 TTTTTTATTATTTTATTACTA
*
47932751 TTATCTTATTATTTT
1 TT-TTTTATTATTTT
47932766 TACACGATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (21 bp):
TTTTTTATTATTTTATTACTA
Found at i:47942093 original size:44 final size:44
Alignment explanation
Indices: 47942025--47942796 Score: 204
Period size: 44 Copynumber: 16.8 Consensus size: 44
47942015 TCATCGTTTT
* * *
47942025 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* *
47942069 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * * *
47942113 AACCTGCTCCACTGCAACTTTAGGAAGATAAGGTT--T-GATAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TC
* * * * * *
47942154 GATCTGCTCTACTGCAACTTTAGAGAGATAAGGTT--T-GATAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TC
* * * * * *
47942195 GATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATAATTTATAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A---GTAGCTTC
* ** * * * *
47942246 AATTTATTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTC
* ** * * *
47942291 AGTCTGCTCTGCTACAACTTCAGGGAGATAGGGA-TAGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATA-AGATTAGTAGCTTC
* * * *
47942335 AATCTACTACACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT------T-A---GTAGCTTC
* * ** ** * * *
47942389 AATTTGTTCCACTATAACGCCAGGGAAATAAGATTTG-ATGTTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTA-G-CTTC
* * * * ** *
47942434 AGTTTGCTCCGCTGTAACTTCAGGGAGATAAGGCTAGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * *
47942478 AATCTGCTCCACTGCAACTTCATGAAGATAAGATCCGCTATAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-----T-T-A---GTAGCTTC
* * * *
47942532 AATCTGTTCCACTGCAA-TGCCAGGGAAATAAGATTCA-TTGTCTTC
1 AATCTGCTCCACTGCAACT-TCAGGGAGATAAGATT-AGTAG-CTTC
* *** ** * *
47942577 AGTCTGCTTGGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * *
47942621 AATATGCTCTACTGCAACTTCAGGAAGATAAGATCCACTATAATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG----A-T-T-A---GTAGCTTC
* ** * * **
47942675 AATCTGTTCCACTGCAACACCAGGGA-A-AAAAATACGCTATTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-G-TAGCTTC
* * ** * *
47942719 AATCTGCTCCGCTGTAACTTCAGGGAGATAAGGCTGGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
** *
47942763 AATCTGCTATACTGCAACTTCAGGAAGATAAGAT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
47942797 CCGCCATAAT
Statistics
Matches: 523, Mismatches: 150, Indels: 110
0.67 0.19 0.14
Matches are distributed among these distances:
41 69 0.13
42 2 0.00
43 5 0.01
44 218 0.42
45 90 0.17
46 7 0.01
48 5 0.01
49 2 0.00
50 5 0.01
51 28 0.05
52 2 0.00
53 2 0.00
54 88 0.17
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
Found at i:47942173 original size:41 final size:41
Alignment explanation
Indices: 47942116--47942226 Score: 197
Period size: 41 Copynumber: 2.7 Consensus size: 41
47942106 TATCTTCAAC
*
47942116 CTGCTCCACTGCAACTTTAG-GAAGATAAGGTTTGATATGAT
1 CTGCTCTACTGCAACTTTAGAG-AGATAAGGTTTGATATGAT
47942157 CTGCTCTACTGCAACTTTAGAGAGATAAGGTTTGATATGAT
1 CTGCTCTACTGCAACTTTAGAGAGATAAGGTTTGATATGAT
47942198 CTGCTCTACTGCAACTTTAGAGAGATAAG
1 CTGCTCTACTGCAACTTTAGAGAGATAAG
47942227 ATCTATAATT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
41 67 0.99
42 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (41 bp):
CTGCTCTACTGCAACTTTAGAGAGATAAGGTTTGATATGAT
Found at i:47942418 original size:143 final size:143
Alignment explanation
Indices: 47942231--47942931 Score: 858
Period size: 143 Copynumber: 4.9 Consensus size: 143
47942221 GATAAGATCT
* * * ** *
47942231 ATAATTTATAGCTTTAATTTATTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTCAGTCT
1 ATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCT
* * * * * *
47942296 GCTCTGCTACAACTTCAGGGAGATAGGGATAGTGGCTTCAATCTACTACACTGCAACTTCAGGAA
66 GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTACACTGCAACTTCAGGAA
47942361 GATAAGATCCGCC
131 GATAAGATCCGCC
* ** * * * *
47942374 ATAATTTGTAGCTTTAATTTGTTCCACTATAACGCCAGGGAAATAAGATTTGATGTTTTCAGTTT
1 ATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCT
* * * *
47942439 GCTCCGCTGTAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTCATGAA
66 GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTACACTGCAACTTCAGGAA
*
47942504 GATAAGATCCGCT
131 GATAAGATCCGCC
* * *** *
47942517 ATAACTTGTAGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCATTGTCTTCAGTCT
1 ATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCT
** *
47942582 GCTTGGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATATGCT-CTACTGCAACTTCAGGA
66 GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTAC-ACTGCAACTTCAGGA
* *
47942646 AGATAAGATCCACT
130 AGATAAGATCCGCC
* * ** * *
47942660 ATAATTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAA-AAAATACGCTATTTTCAATCT
1 ATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCT
* *
47942724 GCTCCGCTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTATACTGCAACTTCAGGAA
66 GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTACACTGCAACTTCAGGAA
47942789 GATAAGATCCGCC
131 GATAAGATCCGCC
* * * ** * * *
47942802 ATAATTTGTGGCTTTAATATGTTCCACTACAACGCTTGAGAAATAAG--CTG-TA--TTCAATCT
1 ATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCT
* * *
47942862 GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTAAGGAA
66 GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTACACTGCAACTTCAGGAA
47942927 GATAA
131 GATAA
47942932 TATTCTTCAT
Statistics
Matches: 486, Mismatches: 69, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
138 73 0.15
140 2 0.00
141 1 0.00
142 121 0.25
143 289 0.59
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (143 bp):
ATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCT
GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTACACTGCAACTTCAGGAA
GATAAGATCCGCC
Found at i:47955050 original size:43 final size:42
Alignment explanation
Indices: 47955003--47955123 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
47954993 CTTCAAAAAA
* * * *
47955003 AAACGCCGCTAAAGGTCATGCTCTTTAGCGGTG-ATTCTACGAC
1 AAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCATAC--CAAC
*
47955046 AAACGCCGCTAAAGAACATGAC-CTTTAGCGGCGCATACCAAC
1 AAACGCCGCTAAAGATCATG-CTCTTTAGCGGCGCATACCAAC
* *
47955088 AAACGCCGCTAAAAGCTCATGTTCTTTTAGCGGCGC
1 AAACGCCGCT-AAAGATCATGCTC-TTTAGCGGCGC
47955124 CTTTTCCAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
42 13 0.20
43 37 0.57
44 15 0.23
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCATACCAAC
Found at i:47955645 original size:21 final size:21
Alignment explanation
Indices: 47955598--47955648 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
47955588 TTCTTTTGAA
* *
47955598 CCTCTACTTCTCTCGCTACAG
1 CCTCTGCTTCCCTCGCTACAG
* *
47955619 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTACAG
47955640 CCTCTGCTT
1 CCTCTGCTT
47955649 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.06, C:0.47, G:0.14, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTACAG
Found at i:47955700 original size:87 final size:87
Alignment explanation
Indices: 47955533--47955701 Score: 232
Period size: 87 Copynumber: 1.9 Consensus size: 87
47955523 TTCTGCTCTG
* * * *
47955533 CTCTGCTTCTCTCGATGCCGCATCTGTTTTAAGTTGTAGCTAGAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTAGAGTTCTTCATATTTCCTTTAAA
* *
47955598 CCTCTACTTCTCTCGCTACAGC
66 CCTCAACTTCGCTCGCTACAGC
* * * *
47955620 CTCTGCTTCCCTCGCTGCCGCCTCTGCTTTAAGTTGTAGGTGGAGTTCTTCATATTTCCTTTAAA
1 CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTAGAGTTCTTCATATTTCCTTTAAA
47955685 CCTCAACTGT-GCTCGCT
66 CCTCAACT-TCGCTCGCT
47955702 TGCATCTTAG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
87 70 0.99
88 1 0.01
ACGTcount: A:0.15, C:0.29, G:0.17, T:0.40
Consensus pattern (87 bp):
CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTAGAGTTCTTCATATTTCCTTTAAA
CCTCAACTTCGCTCGCTACAGC
Found at i:47960992 original size:9 final size:9
Alignment explanation
Indices: 47960975--47961550 Score: 173
Period size: 9 Copynumber: 67.4 Consensus size: 9
47960965 TAAGTATAAT
*
47960975 TAAGCTATG
1 TAAGTTATG
47960984 TAAGTTATG
1 TAAGTTATG
47960993 TAAGTTATG
1 TAAGTTATG
47961002 TATTAAGTTAT-
1 ---TAAGTTATG
*
47961013 T-TGTTATG
1 TAAGTTATG
* *
47961021 AAAATTATG
1 TAAGTTATG
47961030 TAAGTTATG
1 TAAGTTATG
47961039 T-A-TTATG
1 TAAGTTATG
*
47961046 -AATATTATG
1 TAA-GTTATG
*
47961055 TAAGTTGTG
1 TAAGTTATG
47961064 -AA-TTATG
1 TAAGTTATG
**
47961071 TAAGTGCTG
1 TAAGTTATG
47961080 T-A-TTATG
1 TAAGTTATG
47961087 ATCAA-TTATG
1 -T-AAGTTATG
47961097 TAAGTTATG
1 TAAGTTATG
47961106 T-A-TTATG
1 TAAGTTATG
* *
47961113 AAAATTATG
1 TAAGTTATG
* *
47961122 TAAGCTGTG
1 TAAGTTATG
* *
47961131 T-A-CTATA
1 TAAGTTATG
47961138 TAAGTTATG
1 TAAGTTATG
47961147 TAAGTTATG
1 TAAGTTATG
*
47961156 TAAGTT-TT
1 TAAGTTATG
*
47961164 TTA-TTATG
1 TAAGTTATG
* * *
47961172 AAAATTAAG
1 TAAGTTATG
*
47961181 TAACTTATG
1 TAAGTTATG
47961190 T-A-TTATG
1 TAAGTTATG
* *
47961197 AAAATTATG
1 TAAGTTATG
47961206 TAAGTTCA--
1 TAAGTT-ATG
*
47961214 -AAATTATG
1 TAAGTTATG
47961222 TAAGTTATG
1 TAAGTTATG
*
47961231 T-A-TTACG
1 TAAGTTATG
* *
47961238 AAAATTATG
1 TAAGTTATG
*
47961247 TAAGTTCA-A
1 TAAGTT-ATG
47961256 T-A-TTATG
1 TAAGTTATG
47961263 TAAGTTATG
1 TAAGTTATG
47961272 T-A-TTATG
1 TAAGTTATG
* *
47961279 AAAATTATG
1 TAAGTTATG
*
47961288 TAAGTTGTG
1 TAAGTTATG
* *
47961297 T-A-TTGTA
1 TAAGTTATG
47961304 TAAGTTATG
1 TAAGTTATG
*
47961313 TAGGTTATG
1 TAAGTTATG
* *
47961322 AAAATTATG
1 TAAGTTATG
47961331 TAAGTTATG
1 TAAGTTATG
47961340 TAAGTTAT-
1 TAAGTTATG
**
47961348 T-TTTTATG
1 TAAGTTATG
* * *
47961356 AAAATTAAG
1 TAAGTTATG
47961365 TAAGTTATG
1 TAAGTTATG
47961374 T-A-TTATG
1 TAAGTTATG
* *
47961381 AAAATTATG
1 TAAGTTATG
*
47961390 TAAGTTCA-A
1 TAAGTT-ATG
47961399 T-A-TTATG
1 TAAGTTATG
47961406 TAAGTTATG
1 TAAGTTATG
*
47961415 T-A-CTATG
1 TAAGTTATG
* *
47961422 AAAATTATG
1 TAAGTTATG
47961431 TAAGTTATG
1 TAAGTTATG
*
47961440 TATA-TTGTG
1 TA-AGTTATG
*
47961449 T-ATTATATG
1 TAAGT-TATG
*
47961458 CAAGTTATG
1 TAAGTTATG
*
47961467 TATGTGTATAATG
1 TA--AGT-T-ATG
* *
47961480 AAAGTTATA
1 TAAGTTATG
*
47961489 TAAGTTGTG
1 TAAGTTATG
*
47961498 T-A-TAATG
1 TAAGTTATG
47961505 TAAGTTATG
1 TAAGTTATG
*
47961514 TAAGTTAAG
1 TAAGTTATG
*
47961523 T-A-TAAT-
1 TAAGTTATG
*
47961529 TAAGCTATG
1 TAAGTTATG
*
47961538 TAAGATATG
1 TAAGTTATG
47961547 TAAG
1 TAAG
47961551 ATGTGATAGT
Statistics
Matches: 410, Mismatches: 97, Indels: 120
0.65 0.15 0.19
Matches are distributed among these distances:
6 4 0.01
7 79 0.19
8 42 0.10
9 253 0.62
10 15 0.04
11 4 0.01
12 9 0.02
13 4 0.01
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:47961043 original size:16 final size:16
Alignment explanation
Indices: 47960988--47961469 Score: 99
Period size: 16 Copynumber: 30.1 Consensus size: 16
47960978 GCTATGTAAG
47960988 TTATGTAAGTTATG--
1 TTATGTAAGTTATGTA
* *
47961002 -TAT-TAAGTTATTTG
1 TTATGTAAGTTATGTA
* *
47961016 TTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
47961033 GTTATGT-A-TTATGAATA
1 -TTATGTAAGTTATG--TA
* *
47961050 TTATGTAAGTTGTGAA
1 TTATGTAAGTTATGTA
**
47961066 TTATGTAAGTGCTGTA
1 TTATGTAAGTTATGTA
47961082 TTATGATCAA-TTATGTAA
1 TTATG-T-AAGTTATGT-A
*
47961100 GTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
* *
47961117 TTATGTAAGCTGTGTA
1 TTATGTAAGTTATGTA
* *
47961133 CTATATAAGTTATGTAA
1 TTATGTAAGTTATGT-A
* *
47961150 GTTATGTAAGTTTTTTA
1 -TTATGTAAGTTATGTA
* * *
47961167 TTATGAAAATTAAGTAA
1 TTATGTAAGTTATGT-A
*
47961184 CTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
**
47961201 TTATGTAAGTTCA-AAA
1 TTATGTAAGTT-ATGTA
47961217 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
47961233 TTACG-AA---A---A
1 TTATGTAAGTTATGTA
*
47961242 TTATGTAAGTTCA-ATA
1 TTATGTAAGTT-ATGTA
47961258 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
47961274 TTATG-AA---A---A
1 TTATGTAAGTTATGTA
*
47961283 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* *
47961299 TTGTATAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
47961315 GGTTATGAAAATTATGTAA
1 --TTATGTAAGTTATGT-A
* *
47961334 GTTATGTAAGTTATTTT
1 -TTATGTAAGTTATGTA
* * *
47961351 TTATGAAAATTAAGTAA
1 TTATGTAAGTTATGT-A
*
47961368 GTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
47961385 TTATGTAAGTTCA-ATA
1 TTATGTAAGTT-ATGTA
47961401 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* * *
47961417 CTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
*
47961434 GTTATGTATA-TTGTGTA
1 -TTATGTA-AGTTATGTA
*
47961451 TTATATGCAAGTTATGTA
1 -T-TATGTAAGTTATGTA
47961469 T
1 T
47961470 GTGTATAATG
Statistics
Matches: 338, Mismatches: 71, Indels: 115
0.65 0.14 0.22
Matches are distributed among these distances:
9 11 0.03
10 4 0.01
12 10 0.03
13 3 0.01
14 1 0.00
15 10 0.03
16 179 0.53
17 24 0.07
18 87 0.26
19 9 0.03
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:47961044 original size:25 final size:25
Alignment explanation
Indices: 47961005--47961395 Score: 179
Period size: 25 Copynumber: 15.2 Consensus size: 25
47960995 AGTTATGTAT
* *
47961005 TAAGTTATTTGTTATGAAAATTATG
1 TAAGTTATGTATTATGAAAATTATG
*
47961030 TAAGTTATGTATTATGAATATTATG
1 TAAGTTATGTATTATGAAAATTATG
* * * * **
47961055 TAAGTTGTGAATTATGTAAGTGCTG
1 TAAGTTATGTATTATGAAAATTATG
* *
47961080 T-A-TTATGATCAATTATGTAAGTTATG
1 TAAGTTATG-T--ATTATGAAAATTATG
* * ** *
47961106 T-A-TTATGAAAATTATGTAAGCTGTG
1 TAAGTTATG--TATTATGAAAATTATG
* * * *
47961131 T-ACTATAT-AAGTTATGTAAGTTATG
1 TAAGT-TATGTA-TTATGAAAATTATG
* * *
47961156 TAAGTTTTTTATTATGAAAATTAAG
1 TAAGTTATGTATTATGAAAATTATG
*
47961181 TAACTTATGTATTATGAAAATTATG
1 TAAGTTATGTATTATGAAAATTATG
** * *
47961206 TAAGTTCA-AAATTATGTAAGTTATG
1 TAAGTT-ATGTATTATGAAAATTATG
* * *
47961231 TATTACGAAAATTATGTAAGT-TCAATATTATG
1 TA--A-G----TTATGT-ATTATGAAAATTATG
47961263 TAAGTTATGTATTATGAAAATTATG
1 TAAGTTATGTATTATGAAAATTATG
* * *
47961288 TAAGTTGTGTATTGT-ATAAGTTATG
1 TAAGTTATGTATTATGA-AAATTATG
* * * *
47961313 TAGGTTATGAAAATTATGTAAGTTATG
1 TAAGTTATG--TATTATGAAAATTATG
* * *
47961340 TAAGTTATTTTTTATGAAAATTAAG
1 TAAGTTATGTATTATGAAAATTATG
47961365 TAAGTTATGTATTATGAAAATTATG
1 TAAGTTATGTATTATGAAAATTATG
47961390 TAAGTT
1 TAAGTT
47961396 CAATATTATG
Statistics
Matches: 280, Mismatches: 62, Indels: 48
0.72 0.16 0.12
Matches are distributed among these distances:
23 4 0.01
24 6 0.02
25 204 0.73
26 25 0.09
27 24 0.09
28 1 0.00
29 1 0.00
30 1 0.00
31 1 0.00
32 11 0.04
33 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (25 bp):
TAAGTTATGTATTATGAAAATTATG
Found at i:47961144 original size:41 final size:41
Alignment explanation
Indices: 47961091--47961336 Score: 235
Period size: 41 Copynumber: 5.9 Consensus size: 41
47961081 ATTATGATCA
* * **
47961091 ATTATGTAAGTTATGTATTATGAAAATTATGTAAGCTGTGT
1 ATTATATAAGTTATGTATTATGAAAATTATGTAAGTTGAAT
* * * * * * *
47961132 ACTATATAAGTTATGTAAGTTATGTAAGTT-TTTTATTATGAAA
1 ATTATATAAGTTATGT-A-TTATGAAAATTATGTAAGT-TGAAT
* * *
47961175 ATTA-AGTAACTTATGTATTATGAAAATTATGTAAGTTCAAA
1 ATTATA-TAAGTTATGTATTATGAAAATTATGTAAGTTGAAT
* * *
47961216 ATTATGTAAGTTATGTATTACGAAAATTATGTAAGTTCAAT
1 ATTATATAAGTTATGTATTATGAAAATTATGTAAGTTGAAT
* **
47961257 ATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTGT
1 ATTATATAAGTTATGTATTATGAAAATTATGTAAGTTGAAT
*
47961298 ATTGTATAAGTTATGTAGGTTATGAAAATTATGTAAGTT
1 ATTATATAAGTTATGTA--TTATGAAAATTATGTAAGTT
47961337 ATGTAAGTTA
Statistics
Matches: 168, Mismatches: 29, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
41 115 0.68
42 10 0.06
43 43 0.26
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.43
Consensus pattern (41 bp):
ATTATATAAGTTATGTATTATGAAAATTATGTAAGTTGAAT
Found at i:47961355 original size:43 final size:41
Alignment explanation
Indices: 47961097--47961375 Score: 168
Period size: 41 Copynumber: 6.9 Consensus size: 41
47961087 ATCAATTATG
* * * *
47961097 TAAGTTATGTATTATGAAAATTATGTAAGCTGTGTACTATA
1 TAAGTTATGTATTATGAAAATTATGTAAGTTATGTAGTGTA
* * * * * *
47961138 TAAGTTATGTAAGTTATGTAAGTT-TTTTA-TTATGAAAAT-TAA
1 TAAGTTATGT-A-TTATGAAAATTATGTAAGTTATG-TAGTGT-A
* ** * * *
47961180 GTAACTTATGTATTATGAAAATTATGTAAGTTCA-AAATTATG
1 -TAAGTTATGTATTATGAAAATTATGTAAGTT-ATGTAGTGTA
* * * * *
47961222 TAAGTTATGTATTACGAAAATTATGTAAGTTCA-ATATTATG
1 TAAGTTATGTATTATGAAAATTATGTAAGTT-ATGTAGTGTA
* *
47961263 TAAGTTATGTATTATGAAAATTATGTAAGTTGTGTATTGTA
1 TAAGTTATGTATTATGAAAATTATGTAAGTTATGTAGTGTA
*
47961304 TAAGTTATGTAGGTTATGAAAATTATGTAAGTTATGTA-AGT-
1 TAAGTTATGTA--TTATGAAAATTATGTAAGTTATGTAGTGTA
*
47961345 T-A-TT-T-T-TTATGAAAATTAAGTAAGTTATGTA
1 TAAGTTATGTATTATGAAAATTATGTAAGTTATGTA
47961376 TTATGAAAAT
Statistics
Matches: 199, Mismatches: 27, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
34 24 0.12
37 1 0.01
38 1 0.01
39 2 0.01
40 1 0.01
41 108 0.54
42 16 0.08
43 45 0.23
44 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (41 bp):
TAAGTTATGTATTATGAAAATTATGTAAGTTATGTAGTGTA
Found at i:47961409 original size:41 final size:41
Alignment explanation
Indices: 47961359--47961436 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
47961349 TTTTATGAAA
*
47961359 ATTAAGTAAGTTATGTATTATGAAAATTATGTAAGTTCAAT
1 ATTAAGTAAGTTATGTACTATGAAAATTATGTAAGTTCAAT
*
47961400 ATTATGTAAGTTATGTACTATGAAAATTATGTAAGTT
1 ATTAAGTAAGTTATGTACTATGAAAATTATGTAAGTT
47961437 ATGTATATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (41 bp):
ATTAAGTAAGTTATGTACTATGAAAATTATGTAAGTTCAAT
Found at i:47961517 original size:25 final size:25
Alignment explanation
Indices: 47961258--47961548 Score: 193
Period size: 25 Copynumber: 11.6 Consensus size: 25
47961248 AAGTTCAATA
* *
47961258 TTATGTAAGTTATGTATTATGAAAA
1 TTATGTAAGTTATGTATTATGTAAG
* * *
47961283 TTATGTAAGTTGTGTATTGTATAAG
1 TTATGTAAGTTATGTATTATGTAAG
* *
47961308 TTATGTAGGTTATGAAAATTATGTAAG
1 TTATGTAAGTTATG--TATTATGTAAG
* * * *
47961335 TTATGTAAGTTATTTTTTATGAAAA
1 TTATGTAAGTTATGTATTATGTAAG
* * *
47961360 TTAAGTAAGTTATGTATTATGAAAA
1 TTATGTAAGTTATGTATTATGTAAG
*
47961385 TTATGTAAGTTCA-ATATTATGTAAG
1 TTATGTAAGTT-ATGTATTATGTAAG
* *
47961410 TTATGT-A-CTATGAAAATTATGTAAG
1 TTATGTAAGTTATG--TATTATGTAAG
* *
47961435 TTATGTATA-TTGTGTATTATATGCAAG
1 TTATGTA-AGTTATGTA-T-TATGTAAG
* * *
47961462 TTATGT-A--TGTGTATAATGAAAG
1 TTATGTAAGTTATGTATTATGTAAG
* * *
47961484 TTATATAAGTTGTGTATAATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
* *
47961509 TTATGTAAGTTAAGTATAAT-TAAG
1 TTATGTAAGTTATGTATTATGTAAG
* *
47961533 CTATGTAAGATATGTA
1 TTATGTAAGTTATGTA
47961549 AGATGTGATA
Statistics
Matches: 213, Mismatches: 40, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
22 12 0.06
23 3 0.01
24 24 0.11
25 135 0.63
26 2 0.01
27 37 0.17
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.44
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTAAG
Found at i:47962313 original size:21 final size:21
Alignment explanation
Indices: 47962243--47962315 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
47962233 AGATGTTTAT
* *
47962243 ATAAATACGCTGAAAATATAA
1 ATAAATATGCTAAAAATATAA
* * *
47962264 ATAAATAAT-ATAATATTAATAA
1 ATAAAT-ATGCTAAAAAT-ATAA
47962286 TATTAAATATGCTAAAAATATAA
1 -A-TAAATATGCTAAAAATATAA
47962309 ATAAATA
1 ATAAATA
47962316 GTCTCAAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
21 16 0.41
22 6 0.15
23 7 0.18
24 10 0.26
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (21 bp):
ATAAATATGCTAAAAATATAA
Found at i:47962742 original size:10 final size:10
Alignment explanation
Indices: 47962727--47962751 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47962717 TAACATTCAA
47962727 AACATAGCTT
1 AACATAGCTT
47962737 AACATAGCTT
1 AACATAGCTT
47962747 AACAT
1 AACAT
47962752 TCAAAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (10 bp):
AACATAGCTT
Found at i:47962747 original size:45 final size:44
Alignment explanation
Indices: 47962693--47962796 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 44
47962683 TGCAGAATCT
*
47962693 CATATGCTTAACATTC-AAA-ATGTTTAACATTCAAAACATAGCTTAA
1 CATA-GCTTAACATTCAAAACATGCTTAACATTC-AAA-AT-GCTTAA
*
47962739 CATAGCTTAACATTCAAAACTATGCTTAACATTCAAAATGTTTAA
1 CATAGCTTAACATTCAAAAC-ATGCTTAACATTCAAAATGCTTAA
47962784 CATAGCTTAACAT
1 CATAGCTTAACAT
47962797 AGTTTTCAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
45 29 0.55
46 9 0.17
47 3 0.06
48 12 0.23
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (44 bp):
CATAGCTTAACATTCAAAACATGCTTAACATTCAAAATGCTTAA
Found at i:47962785 original size:16 final size:18
Alignment explanation
Indices: 47962696--47962776 Score: 65
Period size: 19 Copynumber: 4.9 Consensus size: 18
47962686 AGAATCTCAT
47962696 ATGCTTAACATTC-AAA-
1 ATGCTTAACATTCAAAAC
*
47962712 ATGTTTAACATTCAAAAC
1 ATGCTTAACATTCAAAAC
47962730 ATAGCTTAACA-T------
1 AT-GCTTAACATTCAAAAC
47962742 A-GCTTAACATTCAAAAC
1 ATGCTTAACATTCAAAAC
47962759 TATGCTTAACATTCAAAA
1 -ATGCTTAACATTCAAAA
47962777 TGTTTAACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 21
0.69 0.03 0.28
Matches are distributed among these distances:
10 8 0.16
11 1 0.02
12 1 0.02
16 12 0.24
17 3 0.06
18 4 0.08
19 22 0.43
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (18 bp):
ATGCTTAACATTCAAAAC
Found at i:47964825 original size:7 final size:7
Alignment explanation
Indices: 47964810--47964894 Score: 73
Period size: 7 Copynumber: 12.0 Consensus size: 7
47964800 ACTAAAGTGG
47964810 CCTAAAC
1 CCTAAAC
*
47964817 CCCAAAC
1 CCTAAAC
47964824 CCTAAAC
1 CCTAAAC
47964831 CCTAAAC
1 CCTAAAC
*
47964838 TCTTAAAC
1 -CCTAAAC
47964846 CCTAAAC
1 CCTAAAC
*
47964853 ACTAAACC
1 CCTAAA-C
*
47964861 CCAAAAC
1 CCTAAAC
*
47964868 ACTAAA-
1 CCTAAAC
* *
47964874 CCTACAT
1 CCTAAAC
*
47964881 CATAAAC
1 CCTAAAC
47964888 CCTAAAC
1 CCTAAAC
47964895 TCAAAACTCT
Statistics
Matches: 60, Mismatches: 15, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
6 4 0.07
7 45 0.75
8 11 0.18
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (7 bp):
CCTAAAC
Found at i:47964846 original size:15 final size:14
Alignment explanation
Indices: 47964811--47964906 Score: 79
Period size: 14 Copynumber: 6.8 Consensus size: 14
47964801 CTAAAGTGGC
* *
47964811 CTAAACCCCAAACC
1 CTAAACCCTAAACT
47964825 CTAAACCCTAAACT
1 CTAAACCCTAAACT
*
47964839 CTTAAACCCTAAACA
1 C-TAAACCCTAAACT
* *
47964854 CTAAACCCCAAAACA
1 CTAAA-CCCTAAACT
*
47964869 CTAAA-CCTACA-T
1 CTAAACCCTAAACT
47964881 CATAAACCCTAAACT
1 C-TAAACCCTAAACT
* *
47964896 CAAAACTCTAA
1 CTAAACCCTAA
47964907 TATTCACAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
12 1 0.01
13 8 0.12
14 30 0.45
15 28 0.42
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (14 bp):
CTAAACCCTAAACT
Found at i:47964848 original size:22 final size:22
Alignment explanation
Indices: 47964820--47964904 Score: 75
Period size: 22 Copynumber: 4.0 Consensus size: 22
47964810 CCTAAACCCC
47964820 AAACCCTAAACCCTAAACTCTT
1 AAACCCTAAACCCTAAACTCTT
* * **
47964842 AAACCCTAAACACTAAACCCCA
1 AAACCCTAAACCCTAAACTCTT
* * *
47964864 AAACACTAAA-CCTACA-TCAT
1 AAACCCTAAACCCTAAACTCTT
* *
47964884 AAACCCTAAACTCAAAACTCT
1 AAACCCTAAACCCTAAACTCT
47964905 AATATTCACA
Statistics
Matches: 46, Mismatches: 15, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
20 10 0.22
21 7 0.15
22 29 0.63
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (22 bp):
AAACCCTAAACCCTAAACTCTT
Found at i:47964873 original size:29 final size:28
Alignment explanation
Indices: 47964811--47964875 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
47964801 CTAAAGTGGC
* * *
47964811 CTAAACCCCAAACCCTAAACCCTAAACT
1 CTAAACCCCAAACACTAAACCCAAAACA
*
47964839 CTTAAACCCTAAACACTAAACCCCAAAACA
1 C-TAAACCCCAAACACTAAA-CCCAAAACA
47964869 CTAAACC
1 CTAAACC
47964876 TACATCATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 22 0.71
30 8 0.26
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (28 bp):
CTAAACCCCAAACACTAAACCCAAAACA
Found at i:47965643 original size:114 final size:113
Alignment explanation
Indices: 47965427--47965689 Score: 411
Period size: 114 Copynumber: 2.3 Consensus size: 113
47965417 TGCGGCGCTT
* * *
47965427 TGTGATTTAGCGGTGCTTTTTCATAAGCACCACTAATTCTAATATACCTCAAGACCAAACGCTGC
1 TGTGCTTTAGCGGCG-TTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGC
47965492 GTTTTGGTTAAGATATTTTGCAGCGTTTTGTACAATGCGCCGCTAATAC
65 GTTTTGGTTAAGATATTTTGCAGCGTTTTGTACAATGCGCCGCTAATAC
* * *
47965541 TGTGCTTTAGCGGCGTTTTTCCATAAGTGCCACTAATTTTAATATACCTCAAGACCAAACGCTTC
1 TGTGCTTTAGCGGCGTTTTT-CATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGC
* *
47965606 GTTTTGGTTAAGATATTTTGCGGCGCTTTT-TATAATGCGCCGCTAATAC
65 GTTTTGGTTAAGATATTTTGCAGCG-TTTTGTACAATGCGCCGCTAATAC
47965655 TGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTA
1 TGTGCTTTAGCGGCGTTTTT-CATAAGCGCCACTA
47965690 TGAGAACAGG
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
113 5 0.04
114 128 0.93
115 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (113 bp):
TGTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCG
TTTTGGTTAAGATATTTTGCAGCGTTTTGTACAATGCGCCGCTAATAC
Found at i:47970881 original size:13 final size:13
Alignment explanation
Indices: 47970863--47970887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47970853 TTGTTGTGTT
47970863 ATTTAGTTAATTA
1 ATTTAGTTAATTA
47970876 ATTTAGTTAATT
1 ATTTAGTTAATT
47970888 TTAGTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTAGTTAATTA
Found at i:47975686 original size:15 final size:15
Alignment explanation
Indices: 47975662--47975693 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47975652 TATGCATGCA
*
47975662 AAATATAAAAGACAT
1 AAATACAAAAGACAT
47975677 AAATACAAAAGACAT
1 AAATACAAAAGACAT
47975692 AA
1 AA
47975694 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:47981759 original size:6 final size:6
Alignment explanation
Indices: 47981742--47981776 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
47981732 AGTCCATTTA
*
47981742 ATTTTCT ATTTTT ATTTTT ATGTTT ATTTTT ATTT
1 ATTTT-T ATTTTT ATTTTT ATTTTT ATTTTT ATTT
47981777 GTACTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:47981767 original size:12 final size:12
Alignment explanation
Indices: 47981742--47981796 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
47981732 AGTCCATTTA
*
47981742 ATTTTCTATTTTT
1 ATTTT-TATGTTT
47981755 ATTTTTATGTTT
1 ATTTTTATGTTT
47981767 ATTTTTAT-TTGT
1 ATTTTTATGTT-T
*
47981779 ACTTTTTTTGTTT
1 A-TTTTTATGTTT
47981792 -TTTTT
1 ATTTTT
47981797 TCGTAGTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 7 0.19
12 16 0.43
13 12 0.32
14 2 0.05
ACGTcount: A:0.13, C:0.04, G:0.05, T:0.78
Consensus pattern (12 bp):
ATTTTTATGTTT
Found at i:47981784 original size:25 final size:24
Alignment explanation
Indices: 47981742--47981797 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
47981732 AGTCCATTTA
*
47981742 ATTTTCTATTTTTATTTTTATGTTT
1 ATTTT-TATTTGTATTTTTATGTTT
*
47981767 ATTTTTATTTGTACTTTTTTTGTTT
1 ATTTTTATTTGTA-TTTTTATGTTT
*
47981792 TTTTTT
1 ATTTTT
47981798 CGTAGTTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.12, C:0.04, G:0.05, T:0.79
Consensus pattern (24 bp):
ATTTTTATTTGTATTTTTATGTTT
Found at i:47981815 original size:22 final size:21
Alignment explanation
Indices: 47981764--47981820 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
47981754 TATTTTTATG
47981764 TTTATTTTTATTTGTACTTTT
1 TTTATTTTTATTTGTACTTTT
* * *
47981785 TTTGTTTTTTTTTCGTAGTTGTT
1 TTTATTTTTATTT-GTACTT-TT
47981808 TTTA-TTTTATTTG
1 TTTATTTTTATTTG
47981821 AGACTGTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 12 0.41
22 12 0.41
23 5 0.17
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.75
Consensus pattern (21 bp):
TTTATTTTTATTTGTACTTTT
Found at i:47982228 original size:23 final size:24
Alignment explanation
Indices: 47982201--47982245 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
47982191 ATGTTTTTTA
*
47982201 TTTGGAATT-TTTGTTGATGTTGT
1 TTTGGAATTATTTGTGGATGTTGT
*
47982224 TTTGGATTTATTTGTGGATGTT
1 TTTGGAATTATTTGTGGATGTT
47982246 TTTGCATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (24 bp):
TTTGGAATTATTTGTGGATGTTGT
Found at i:47985829 original size:6 final size:6
Alignment explanation
Indices: 47985818--47985856 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
47985808 AATAATTATT
47985818 TATTTA TATTTA TATTTA TATTTA TATTTA -ATTATA TAT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATT-TA TAT
47985857 GTTTGAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 3 0.10
6 26 0.84
7 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATTTA
Found at i:47985841 original size:18 final size:18
Alignment explanation
Indices: 47985801--47985856 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
47985791 ACTTTTTCAT
* *
47985801 TATTTATA-ATAATTATT
1 TATTTATATTTAATTATA
47985818 TATTTATATTTATATT-TA
1 TATTTATATTTA-ATTATA
47985836 TATTTATATTTAATTATA
1 TATTTATATTTAATTATA
47985854 TAT
1 TAT
47985857 GTTTGAAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 11 0.32
18 20 0.59
19 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTATATTTAATTATA
Found at i:47985987 original size:13 final size:13
Alignment explanation
Indices: 47985969--47985999 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
47985959 GTCAGATCAT
47985969 CATTTCCGTTAAC
1 CATTTCCGTTAAC
*
47985982 CATTTCCTTTAAC
1 CATTTCCGTTAAC
47985995 CATTT
1 CATTT
47986000 AACGAAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.29, G:0.03, T:0.45
Consensus pattern (13 bp):
CATTTCCGTTAAC
Found at i:47986579 original size:21 final size:21
Alignment explanation
Indices: 47986555--47986622 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
47986545 TTGATTTTAT
47986555 TAATTAAAAAGACTTCAAATG
1 TAATTAAAAAGACTTCAAATG
** **
47986576 TAATTATTTAAGGGTTCAAATG
1 TAATTA-AAAAGACTTCAAATG
*
47986598 TAATTAAAAAGATTTCAAATG
1 TAATTAAAAAGACTTCAAATG
47986619 TAAT
1 TAAT
47986623 CACTATGGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 21 0.55
22 17 0.45
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (21 bp):
TAATTAAAAAGACTTCAAATG
Found at i:47988737 original size:19 final size:19
Alignment explanation
Indices: 47988715--47988753 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47988705 AGTTTTCCAT
47988715 ATACAAAAT-AGTCGTTATA
1 ATAC-AAATGAGTCGTTATA
*
47988734 ATACAAATGAGTGGTTATA
1 ATACAAATGAGTCGTTATA
47988753 A
1 A
47988754 ATGTAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (19 bp):
ATACAAATGAGTCGTTATA
Found at i:47990794 original size:15 final size:15
Alignment explanation
Indices: 47990770--47990801 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47990760 TATGCATGCA
*
47990770 AAATATAAAAGACAT
1 AAATACAAAAGACAT
47990785 AAATACAAAAGACAT
1 AAATACAAAAGACAT
47990800 AA
1 AA
47990802 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:47991851 original size:29 final size:29
Alignment explanation
Indices: 47991808--47991883 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
47991798 GGGGGTGGGA
* *
47991808 TGAGAGGGGAATAAAAGTTATAGGGGAAAG
1 TGAGA-GGGAGTAAAAGTTATAAGGGAAAG
*
47991838 TGAGAGGGAGTAAAAGTTTTAAGGGAAAG
1 TGAGAGGGAGTAAAAGTTATAAGGGAAAG
*
47991867 TAAGAGGGAGTAAAAGT
1 TGAGAGGGAGTAAAAGT
47991884 ATTGGGGGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 37 0.88
30 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.18
Consensus pattern (29 bp):
TGAGAGGGAGTAAAAGTTATAAGGGAAAG
Found at i:47991896 original size:29 final size:29
Alignment explanation
Indices: 47991814--47991898 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
47991804 GGGATGAGAG
* *
47991814 GGGAATAAAAGT-TATAGGGGAAAGTGAGA
1 GGGAGTAAAAGTAT-TAGGGGAAAGTAAGA
* *
47991843 GGGAGTAAAAGTTTTAAGGGAAAGTAAGA
1 GGGAGTAAAAGTATTAGGGGAAAGTAAGA
* *
47991872 GGGAGTAAAAGTATTGGGGGGAAGTAA
1 GGGAGTAAAAGTATTAGGGGAAAGTAA
47991899 AAAGGTTTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 47 0.98
30 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.39, T:0.19
Consensus pattern (29 bp):
GGGAGTAAAAGTATTAGGGGAAAGTAAGA
Found at i:47997130 original size:16 final size:15
Alignment explanation
Indices: 47997098--47997127 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47997088 TAGAAACTTC
47997098 CCACTACAACGGATT
1 CCACTACAACGGATT
*
47997113 CCACTACGACGGATT
1 CCACTACAACGGATT
47997128 TCCCTATGAT
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:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (15 bp):
CCACTACAACGGATT
Found at i:48001432 original size:20 final size:18
Alignment explanation
Indices: 48001385--48001433 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
48001375 CAAGATAAAC
48001385 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
48001402 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
48001422 ATTAAATTAATA
1 ATTAAATTAATA
48001434 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:48011677 original size:15 final size:15
Alignment explanation
Indices: 48011657--48011716 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
48011647 GTAAGACGAA
48011657 ATTTTAAATTTTGTT
1 ATTTTAAATTTTGTT
*
48011672 ATTTTAAATTATGTT
1 ATTTTAAATTTTGTT
* *
48011687 AAATTTAAATAGTTTGTA
1 -ATTTTAAAT--TTTGTT
*
48011705 ATTTAAAATTTT
1 ATTTTAAATTTT
48011717 TATTGTGTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
15 17 0.47
16 8 0.22
17 7 0.19
18 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
ATTTTAAATTTTGTT
Found at i:48014709 original size:36 final size:36
Alignment explanation
Indices: 48014632--48014712 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
48014622 TGCTGCCCGC
* * *
48014632 TCTTCCTCACTTGTATCCTCTTTCTCGGTCACCCCT
1 TCTTCCTCACCTGTATCCTCTTTCTCGGTCACACAT
* ** * *
48014668 ACTTCCTCACCTGTATGTTCTTTCTCGGTCGCATAT
1 TCTTCCTCACCTGTATCCTCTTTCTCGGTCACACAT
48014704 TCTTCCTCA
1 TCTTCCTCA
48014713 TTTGTACCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.11, C:0.37, G:0.10, T:0.42
Consensus pattern (36 bp):
TCTTCCTCACCTGTATCCTCTTTCTCGGTCACACAT
Found at i:48018027 original size:6 final size:6
Alignment explanation
Indices: 48018016--48018050 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
48018006 TCGGGAGGAA
*
48018016 TAATAT TAATAT TAATAT CAATAT TAATAAT TAAT
1 TAATAT TAATAT TAATAT TAATAT TAAT-AT TAAT
48018051 TACTTTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (6 bp):
TAATAT
Found at i:48020267 original size:25 final size:25
Alignment explanation
Indices: 48020233--48020291 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
48020223 ATGTTTCAAG
48020233 AATGAGAGTTACAAAGCTAATAATT
1 AATGAGAGTTACAAAGCTAATAATT
*
48020258 AATGAGAGTTACAAAGCTAATAGTT
1 AATGAGAGTTACAAAGCTAATAATT
48020283 AATGAGAGT
1 AATGAGAGT
48020292 AATAATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (25 bp):
AATGAGAGTTACAAAGCTAATAATT
Found at i:48027840 original size:12 final size:11
Alignment explanation
Indices: 48027819--48027864 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 11
48027809 TATTGTATCC
48027819 TTATTATTATA
1 TTATTATTATA
48027830 TTATCTATTATA
1 TTAT-TATTATA
*
48027842 TTTATTATCATCA
1 -TTATTATTAT-A
48027855 TTATTATTAT
1 TTATTATTAT
48027865 TTCTATATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 4 0.13
12 21 0.70
13 5 0.17
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (11 bp):
TTATTATTATA
Found at i:48030067 original size:130 final size:130
Alignment explanation
Indices: 48029834--48030076 Score: 450
Period size: 130 Copynumber: 1.9 Consensus size: 130
48029824 CCACTTAAGC
*
48029834 TCATGGTAATGCTATTACGGGTGTAATACATTATTGATCTAATCGGTGAAATCCACCGATTTCTA
1 TCATGCTAATGCTATTACGGGTGTAATACATTATTGATCTAATCGGTGAAATCCACCGATTTCTA
* * *
48029899 ATCCGTCTCTTTTGCTCAGTTTAGGTGCTGCTTCACTTTACCCTCCCTTTATTCCGTTGTTTGGT
66 ATCCGTCCCTTTTACTCAGTTTAGGCGCTGCTTCACTTTACCCTCCCTTTATTCCGTTGTTTGGT
48029964 TCATGCTAATGCTATTACGGGTGTAATACATTATTGATCTAATCGGTGAAATCCACCGATTTCTA
1 TCATGCTAATGCTATTACGGGTGTAATACATTATTGATCTAATCGGTGAAATCCACCGATTTCTA
48030029 ATCCGTCCCTTTTACTCAGTTTAGGCGCTGCTTCACTTTACCCTCCCT
66 ATCCGTCCCTTTTACTCAGTTTAGGCGCTGCTTCACTTTACCCTCCCT
48030077 GTTTTACCCT
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (130 bp):
TCATGCTAATGCTATTACGGGTGTAATACATTATTGATCTAATCGGTGAAATCCACCGATTTCTA
ATCCGTCCCTTTTACTCAGTTTAGGCGCTGCTTCACTTTACCCTCCCTTTATTCCGTTGTTTGGT
Found at i:48030210 original size:19 final size:19
Alignment explanation
Indices: 48030186--48030222 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
48030176 CTGTTTCTCA
48030186 CAGTTTCTGCCGATTTGCT
1 CAGTTTCTGCCGATTTGCT
48030205 CAGTTTCTGCCGATTTGC
1 CAGTTTCTGCCGATTTGC
48030223 GTCTTCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.27, G:0.22, T:0.41
Consensus pattern (19 bp):
CAGTTTCTGCCGATTTGCT
Found at i:48033322 original size:16 final size:16
Alignment explanation
Indices: 48033301--48033342 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48033291 TTATTAAATT
*
48033301 ATATATTTTAATTATA
1 ATATATTTTAATAATA
48033317 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
48033332 AT-TATGTTTAA
1 ATATAT-TTTAA
48033343 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:48033327 original size:15 final size:15
Alignment explanation
Indices: 48033292--48033333 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48033282 TTAAGAATTT
*
48033292 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48033306 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48033320 TATTTAATAATAAT
1 TATTTAATTATAAT
48033334 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48033580 original size:16 final size:16
Alignment explanation
Indices: 48033555--48033592 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
48033545 TTGATTTGCT
48033555 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
48033571 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
48033587 AATACA
1 ATTACA
48033593 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.34, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:48034160 original size:18 final size:17
Alignment explanation
Indices: 48034138--48034172 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48034128 TAATTATTAA
*
48034138 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
48034156 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48034173 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48034231 original size:61 final size:61
Alignment explanation
Indices: 48034153--48034463 Score: 259
Period size: 61 Copynumber: 5.2 Consensus size: 61
48034143 TTTTAATTAA
* *
48034153 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTTAAATCAT
* * * * * * * *
48034214 AATATATGATATT-ATAAAA-T-ATAATTTAA-C-ATAATTATTAT-TAAATATATTTTAATTAA
1 AATATATGAT-TTAATAAAATTCTTAA--TAATCAAT-ATTCTTATATGAATTTACTTAAATCAT
*
48034273 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTAC-TACAATCAT
1 AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTTA-AATCAT
* * * * * * * * * * *
48034334 AATATATGATACT-ATAAAA-T-ATAAT-TTGAAATAATTATTAT-TAAATATATTTTAATTAA
1 AATATATGAT-TTAATAAAATTCTTAATAAT-CAAT-ATTCTTATATGAATTTACTTAAATCAT
*
48034393 AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTTAAATCAT
48034454 AATATATGAT
1 AATATATGAT
48034464 ACTATAAAAT
Statistics
Matches: 187, Mismatches: 43, Indels: 40
0.69 0.16 0.15
Matches are distributed among these distances:
58 4 0.02
59 67 0.36
60 36 0.19
61 76 0.41
62 4 0.02
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (61 bp):
AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTTAAATCAT
Found at i:48034279 original size:18 final size:17
Alignment explanation
Indices: 48034258--48034292 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48034248 TTATTATTAA
*
48034258 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
48034276 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48034293 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48034399 original size:18 final size:17
Alignment explanation
Indices: 48034376--48034412 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
48034366 AATTATTATT
48034376 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
48034392 AAATATATGATTTAATA
1 AAATATATGATTTAATA
48034409 AAAT
1 AAAT
48034413 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:48034519 original size:18 final size:17
Alignment explanation
Indices: 48034496--48034532 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
48034486 AATTATTATT
48034496 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
48034512 AAATATATGATTTAATA
1 AAATATATGATTTAATA
48034529 AAAT
1 AAAT
48034533 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:48034532 original size:17 final size:16
Alignment explanation
Indices: 48034479--48034532 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
48034469 AAAATATAAT
48034479 TTAAAATA-ATTATT-A
1 TTAAAATATATT-TTAA
48034494 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
48034509 TTAAAATATATGATTTAA
1 TTAAAATATAT--TTTAA
48034527 -TAAAAT
1 TTAAAAT
48034533 TTAAAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.21
15 8 0.24
16 8 0.24
17 6 0.18
18 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:48034535 original size:28 final size:29
Alignment explanation
Indices: 48034454--48034536 Score: 71
Period size: 28 Copynumber: 2.8 Consensus size: 29
48034444 CTAAAATCAT
* *
48034454 AATATATGATACT-ATAAAATATAATTTAA
1 AATATATGAT-TTAATAAAATTTAATTTAA
* * * *
48034483 AATAATTATTATTAAATATATTTTAA-TTAA
1 AAT-A-TATGATTTAATAAAATTTAATTTAA
48034513 AATATATGATTTAATAAAATTTAA
1 AATATATGATTTAATAAAATTTAA
48034537 AATAATTATT
Statistics
Matches: 41, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
28 16 0.39
29 4 0.10
30 8 0.20
31 13 0.32
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (29 bp):
AATATATGATTTAATAAAATTTAATTTAA
Found at i:48034542 original size:120 final size:120
Alignment explanation
Indices: 48034130--48034533 Score: 745
Period size: 120 Copynumber: 3.4 Consensus size: 120
48034120 TTTTAACATA
48034130 ATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTAT
1 ATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTAT
* * *
48034195 ATGAATTTACTCAAATCATAATATATGATATTATAAAATATAATTTAACATAATT
66 ATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAAAATAATT
48034250 ATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTAT
1 ATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTAT
* *
48034315 ATGAATTTACTACAATCATAATATATGATACTATAAAATATAATTTGAAATAATT
66 ATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAAAATAATT
*
48034370 ATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTCTTAT
1 ATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTAT
48034435 ATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAAAATAATT
66 ATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAAAATAATT
*
48034490 ATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
48034534 TAAAATAATT
Statistics
Matches: 276, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 276 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTAT
ATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAAAATAATT
Found at i:48034624 original size:44 final size:43
Alignment explanation
Indices: 48034574--48034716 Score: 126
Period size: 44 Copynumber: 3.2 Consensus size: 43
48034564 TATGAATTTG
48034574 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * ** ** *
48034618 TATAATTTCATAA-AATTCTTGATAATAAATTTTCTTATAGGAATTTA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAATT-TAATAATATA
* *
48034665 TATAATTTAAAATAATTAATATTAAATATAATTTAATACTGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
48034709 TATAATTT
1 TATAATTT
48034717 CATAAAATTC
Statistics
Matches: 74, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
43 4 0.05
44 32 0.43
45 5 0.07
46 5 0.07
47 23 0.31
48 5 0.07
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:48034632 original size:47 final size:45
Alignment explanation
Indices: 48034581--48034724 Score: 123
Period size: 47 Copynumber: 3.1 Consensus size: 45
48034571 TTGTATAATT
48034581 TAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTA-TATTAAATATAATTTAATAAT-ATATATAATTTCA
** * * ** ** *
48034628 TAAAATTCTTGATAATAAATTTTCTTATAGGAATTTATATAA-TT--
1 TAAAATAATT-ATATTAAATATAATT-TAATAATATATATAATTTCA
*
48034672 TAAAATAATTAATATTAAATATAATTTAATACTGATATATAATTTCA
1 TAAAATAATT-ATATTAAATATAATTTAATAAT-ATATATAATTTCA
48034719 TAAAAT
1 TAAAAT
48034725 TCTTAATAAT
Statistics
Matches: 71, Mismatches: 20, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
43 4 0.06
44 26 0.37
45 2 0.03
46 2 0.03
47 31 0.44
48 6 0.08
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (45 bp):
TAAAATAATTATATTAAATATAATTTAATAATATATATAATTTCA
Found at i:48034645 original size:91 final size:91
Alignment explanation
Indices: 48034540--48034755 Score: 351
Period size: 91 Copynumber: 2.4 Consensus size: 91
48034530 AATTTAAAAT
* * * *
48034540 AATTATTACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
48034605 TTTAATAATAATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
* *
48034631 AATTCTTGATAATAAATTTTCTTATAGGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
* *
48034696 TTTAATACTGATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
48034722 AATTCTTAATAATAAATATTCTTATATGAATTTA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTA
48034756 CTAAAATCAT
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 114 1.00
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
TTTAATAATAATATATAATTTCATAA
Found at i:48034738 original size:47 final size:46
Alignment explanation
Indices: 48034596--48034740 Score: 143
Period size: 47 Copynumber: 3.2 Consensus size: 46
48034586 TAATTATTAT
*
48034596 TAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTAATAA
* ** ** * ** *
48034643 TAAATTTTCTTATAGGAATTTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAATT-TAATAATATATATAATTTCATAAAATTCTTAATAA
*
48034687 TAAATATAATTTAATACTGATATATAATTTCATAAAATTCTTAATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTAATAA
48034734 TAAATAT
1 TAAATAT
48034741 TCTTATATGA
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
43 4 0.05
44 26 0.36
45 2 0.03
46 2 0.03
47 34 0.47
48 5 0.07
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (46 bp):
TAAATATAATTTAATAATATATATAATTTCATAAAATTCTTAATAA
Found at i:48039734 original size:15 final size:15
Alignment explanation
Indices: 48039706--48039740 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
48039696 ATACTCTGAT
*
48039706 AATATAAATTATATA
1 AATATAAATAATATA
*
48039721 AATATCAATAATATA
1 AATATAAATAATATA
48039736 AATAT
1 AATAT
48039741 TTAACCTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATAAATAATATA
Found at i:48043645 original size:156 final size:156
Alignment explanation
Indices: 48043356--48043650 Score: 387
Period size: 156 Copynumber: 1.9 Consensus size: 156
48043346 GTAGGATTGG
* * * * *
48043356 TTTCAAATGGTTGCAATTAGGGGGTTAGTTGTACAGGCTCTTGCTTAATGGGCACTACTTACTCT
1 TTTCAAATGGTTGCAATAAAGGGGTTACTTCTACAGGCTCTTGCTTAATGGGCACTACCTACTCT
* * * * * *
48043421 AAATATTCATATAGAGGTTCTAATTCAAAGTTTTAAAGTTTATTCGATTCAGTCTAGTTTTCATG
66 AAATATTCACATAGAGGCTCCAATTCAAAGTTTTAAAGTATATTCGATTCAGTCTAATTTTCACG
48043486 ATTTAGTCTAGTTTTAAAATTAAAAT
131 ATTTAGTCTAGTTTTAAAATTAAAAT
* * *
48043512 TTTCAAATGGTTG-AAGTAAAGGGGTTACTTCTATAGGCTCTTGGTTAGTGGGCATCT-CCTACT
1 TTTCAAATGGTTGCAA-TAAAGGGGTTACTTCTACAGGCTCTTGCTTAATGGGCA-CTACCTACT
* * * * *
48043575 CTAAATATTCACCTAGAGGCTCCAATTCTAAGTTTTGAAGTATATTCGATTTAGTCTAATTTTTA
64 CTAAATATTCACATAGAGGCTCCAATTCAAAGTTTTAAAGTATATTCGATTCAGTCTAATTTTCA
48043640 CGATTTAGTCT
129 CGATTTAGTCT
48043651 CTATACCAAA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
155 2 0.02
156 114 0.97
157 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (156 bp):
TTTCAAATGGTTGCAATAAAGGGGTTACTTCTACAGGCTCTTGCTTAATGGGCACTACCTACTCT
AAATATTCACATAGAGGCTCCAATTCAAAGTTTTAAAGTATATTCGATTCAGTCTAATTTTCACG
ATTTAGTCTAGTTTTAAAATTAAAAT
Found at i:48049324 original size:30 final size:30
Alignment explanation
Indices: 48049290--48049348 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
48049280 ATGGACTGGC
* *
48049290 ACATGGGCATGTGTCTAGCCTGTGTGGCTT
1 ACATGGGCATGTGTCCAGCCCGTGTGGCTT
*
48049320 ACATGGGCGTGTGTCCAGCCCGTGTGGCT
1 ACATGGGCATGTGTCCAGCCCGTGTGGCT
48049349 CCTGAAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.24, G:0.36, T:0.29
Consensus pattern (30 bp):
ACATGGGCATGTGTCCAGCCCGTGTGGCTT
Found at i:48059270 original size:5 final size:6
Alignment explanation
Indices: 48059254--48059279 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48059244 ATTGCAATAT
48059254 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
48059280 TGTATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:48061375 original size:89 final size:88
Alignment explanation
Indices: 48061253--48061768 Score: 387
Period size: 89 Copynumber: 5.8 Consensus size: 88
48061243 TCAGAGAGAT
* * * * *
48061253 AAGATCTGTGTCTTCGATCTATTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCT
1 AAGATCTGTATCTTCGATCTACTTCA-TACCAATATAGGAAGACAAGATCTGCTATCTTCGATCT
* * **
48061318 ACTTCACTGCTAGTACGAGAAGGT
65 ACTTCACTACCAGTACGAGAAGAC
* * * * * *
48061342 AAGATCTGTTATCCTT-GATCTACTTCATGCCAATACATGAAGACAAGATTTACTTTCTTCGATC
1 AAGATCTG-TAT-CTTCGATCTACTTCATACCAATATAGGAAGACAAGATCTGCTATCTTCGATC
* * * * *
48061406 TACTTCGCCACCAGTATGGGAAGAT
64 TACTTCACTACCAGTACGAGAAGAC
* * * * * * *
48061431 AAGATCTGCATCTTCGATCCACTTCGCTACTAATGTAGGAAGACAGGATTTGCTATCTTCGATCT
1 AAGATCTGTATCTTCGATCTACTTC-ATACCAATATAGGAAGACAAGATCTGCTATCTTCGATCT
* *
48061496 ACTTCA-TGCCAATAC-ATGAAGAC
65 ACTTCACTACCAGTACGA-GAAGAC
* * * * * * * *
48061519 AAGATCTACTTTCTTTGATCTACTTCACCACTAGTATGGGAAGACAAGATCTTCATAT-TT-GAT
1 AAGATCT-GTATCTTCGATCTACTTCA-TACCAATATAGGAAGACAAGATCTGC-TATCTTCGAT
* * * *
48061582 CCACTTCGCTACCAATA-TAGGAAGAC
63 CTACTTCACTACCAGTACGA-GAAGAC
* ** * * * * *
48061608 AGGATCTGCTATCTTCGATCTACTTCATGTCAAAACATGAAGACAAGATCTACTTTCTTCGATCT
1 AAGATCTG-TATCTTCGATCTACTTCATACCAATATAGGAAGACAAGATCTGCTATCTTCGATCT
* * * *
48061673 ACTTCGCCACCAGTATGGGAAGAC
65 ACTTCACTACCAGTACGAGAAGAC
* * *
48061697 AAGATCTGTATCTTCGATCCACTTCACTACCAATATAGGAAGACATGATCTGTTATCTTCGATCT
1 AAGATCTGTATCTTCGATCTACTTCA-TACCAATATAGGAAGACAAGATCTGCTATCTTCGATCT
48061762 ACTTCAC
65 ACTTCAC
48061769 GCCGATGCAT
Statistics
Matches: 327, Mismatches: 85, Indels: 30
0.74 0.19 0.07
Matches are distributed among these distances:
87 5 0.02
88 72 0.22
89 232 0.71
90 15 0.05
91 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (88 bp):
AAGATCTGTATCTTCGATCTACTTCATACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTA
CTTCACTACCAGTACGAGAAGAC
Found at i:48061511 original size:133 final size:133
Alignment explanation
Indices: 48061263--48061791 Score: 711
Period size: 133 Copynumber: 4.0 Consensus size: 133
48061253 AAGATCTGTG
* * * * *
48061263 TCTTCGATCTATTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTGC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCACTAC
* * * ** * *
48061328 TAGTA-CGAGAAGGTAAGATCTGTTATCCTT-GATCTACTTCATGCCAATACATGAAGACAAGAT
65 CAATATAG-GAAGACAGGATCTGCTAT-CTTCGATCTACTTCATGCCAATACATGAAGACAAGAT
*
48061391 TTACTT
128 CTACTT
* * * *
48061397 TCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCCACTTCGCTACT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACC
* *
48061462 AATGTAGGAAGACAGGATTTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTA
66 AATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTA
48061527 CTT
131 CTT
* * * * * *
48061530 TCTTTGATCTACTTCACCACTAGTATGGGAAGACAAGATCTTCATATTTGATCCACTTCGCTACC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACC
* *
48061595 AATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCATGTCAAAACATGAAGACAAGATCTA
66 AATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTA
48061660 CTT
131 CTT
* *
48061663 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTATCTTCGATCCACTTCACTACC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACC
* * * * *
48061728 AATATAGGAAGACATGATCTGTTATCTTCGATCTACTTCACGCCGATGCATGAAGACAAGATCT
66 AATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCT
48061792 GCTATTTTTT
Statistics
Matches: 349, Mismatches: 44, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
132 3 0.01
133 306 0.88
134 40 0.11
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (133 bp):
TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACC
AATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTA
CTT
Found at i:48061783 original size:44 final size:44
Alignment explanation
Indices: 48061253--48061792 Score: 324
Period size: 44 Copynumber: 12.2 Consensus size: 44
48061243 TCAGAGAGAT
* * **
48061253 AAGATCTG-TGTCTTCGATCTATTTCACCACCAATATGGGAAGAC
1 AAGATCTGTTATCTTCGATCTACTTCA-CACCAATACAGGAAGAC
* * * * * **
48061297 AAGATCTGCTATCTTTGATCTACTTCACTGCTAGTAC-GAGAAGGT
1 AAGATCTGTTATCTTCGATCTACTTCAC-ACCAATACAG-GAAGAC
** *
48061342 AAGATCTGTTATCCTT-GATCTACTTCATGCCAATACATGAAGAC
1 AAGATCTGTTAT-CTTCGATCTACTTCACACCAATACAGGAAGAC
* * * * ** *
48061386 AAGATTTACTT-TCTTCGATCTACTTCGCCACCAGTATGGGAAGAT
1 AAGATCT-GTTATCTTCGATCTACTTC-ACACCAATACAGGAAGAC
* * * * **
48061431 AAGATCTG-CATCTTCGATCCACTTCGCTACTAATGTAGGAAGAC
1 AAGATCTGTTATCTTCGATCTACTTCAC-ACCAATACAGGAAGAC
* * * ** *
48061475 AGGATTTGCTATCTTCGATCTACTTCATGCCAATACATGAAGAC
1 AAGATCTGTTATCTTCGATCTACTTCACACCAATACAGGAAGAC
* * * * **
48061519 AAGATCTACTT-TCTTTGATCTACTTCACCACTAGTATGGGAAGAC
1 AAGATCT-GTTATCTTCGATCTACTTCA-CACCAATACAGGAAGAC
* * * * * *
48061564 AAGATCT-TCATATTTGATCCACTTCGCTACCAATATAGGAAGAC
1 AAGATCTGTTATCTTCGATCTACTTCAC-ACCAATACAGGAAGAC
* * *** * *
48061608 AGGATCTGCTATCTTCGATCTACTTCATGTCAAAACATGAAGAC
1 AAGATCTGTTATCTTCGATCTACTTCACACCAATACAGGAAGAC
* * * **
48061652 AAGATCTACTT-TCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCT-GTTATCTTCGATCTACTTC-ACACCAATACAGGAAGAC
* *
48061697 AAGATCTG-TATCTTCGATCCACTTCACTACCAATATAGGAAGAC
1 AAGATCTGTTATCTTCGATCTACTTCAC-ACCAATACAGGAAGAC
* * * * *
48061741 ATGATCTGTTATCTTCGATCTACTTCACGCCGATGCATGAAGAC
1 AAGATCTGTTATCTTCGATCTACTTCACACCAATACAGGAAGAC
48061785 AAGATCTG
1 AAGATCTG
48061793 CTATTTTTTA
Statistics
Matches: 371, Mismatches: 104, Indels: 42
0.72 0.20 0.08
Matches are distributed among these distances:
43 8 0.02
44 216 0.58
45 144 0.39
46 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
AAGATCTGTTATCTTCGATCTACTTCACACCAATACAGGAAGAC
Found at i:48074993 original size:15 final size:15
Alignment explanation
Indices: 48074964--48075011 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
48074954 AGTACACAAG
*
48074964 AAAAAATAAAGAAAAC
1 AAAAACTAAA-AAAAC
*
48074980 AAAATCTAAAAAAAC
1 AAAAACTAAAAAAAC
48074995 AAAAAC-AAAAACAAC
1 AAAAACTAAAAA-AAC
48075010 AA
1 AA
48075012 TTCGAGATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 5 0.18
15 15 0.54
16 8 0.29
ACGTcount: A:0.79, C:0.12, G:0.02, T:0.06
Consensus pattern (15 bp):
AAAAACTAAAAAAAC
Found at i:48080189 original size:12 final size:12
Alignment explanation
Indices: 48080172--48080196 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48080162 TTGTGAGTAA
48080172 ATTAAACTTGTG
1 ATTAAACTTGTG
48080184 ATTAAACTTGTG
1 ATTAAACTTGTG
48080196 A
1 A
48080197 AAGTGAGGTC
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTAAACTTGTG
Found at i:48082020 original size:23 final size:23
Alignment explanation
Indices: 48081992--48082036 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
48081982 ATTCAAAATT
*
48081992 TTAAAATAAACAATATATATGAG
1 TTAAAACAAACAATATATATGAG
*
48082015 TTAAAACAAATAATATATATGA
1 TTAAAACAAACAATATATATGA
48082037 ATGTACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAACAAACAATATATATGAG
Found at i:48082245 original size:67 final size:66
Alignment explanation
Indices: 48082133--48082376 Score: 169
Period size: 70 Copynumber: 3.6 Consensus size: 66
48082123 AATACATATA
* * * *
48082133 AAATTTAAAAATTTTGATGAT-AATTCT-AGAATAATCATACGTGATAAATACAAAATAATAGTA
1 AAATTTAAAAATATTAATGATAAATT-TGA-AATAATAATACATGATAAAT-CAAAATAATAGTA
48082196 TAAT
63 TAAT
* *
48082200 AAATTTAAAAATATTAATGATAAATTTGAAATAGAT-ATACATGATAAATTTAAAAT-ATTGTTA
1 AAATTTAAAAATATTAATGATAAATTTGAAATA-ATAATACATGATAAA-TCAAAATAATAG-T-
*
48082263 ACAAT
62 ATAAT
* * * * *
48082268 GAATTTAAAATAATAATATTGATAAA-TTGAAAATAATAAAACATGATAAATCTAAAATAATAAT
1 AAATTT-AAA-AATATTAATGATAAATTTG-AAATAATAATACATGATAAATC-AAAATAATAGT
48082332 ATACAAT
62 AT--AAT
* * * *
48082339 ACACTTAGATAATATTAATGATTAATTT--AATAATAATA
1 AAATTTA-AAAATATTAATGATAAATTTGAAATAATAATA
48082377 AGTATAAACA
Statistics
Matches: 139, Mismatches: 22, Indels: 31
0.72 0.11 0.16
Matches are distributed among these distances:
66 3 0.02
67 41 0.29
68 26 0.19
69 10 0.07
70 48 0.35
71 11 0.08
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.35
Consensus pattern (66 bp):
AAATTTAAAAATATTAATGATAAATTTGAAATAATAATACATGATAAATCAAAATAATAGTATAA
T
Found at i:48082255 original size:24 final size:23
Alignment explanation
Indices: 48082095--48082329 Score: 111
Period size: 24 Copynumber: 10.3 Consensus size: 23
48082085 AATTTACAAT
* *
48082095 AAATAATAT--ATAATAAATTTG
1 AAATAATATACATGATAAATTTA
48082116 AAATAATAATACAT-ATAAAATTT-
1 AAATAAT-ATACATGAT-AAATTTA
* **
48082139 AAA-AATTTTGATGAT-AATTCTA
1 AAATAATATACATGATAAATT-TA
* * **
48082161 GAATAATCATACGTGATAAATACA
1 AAATAAT-ATACATGATAAATTTA
*
48082185 AAATAATAGT--ATAATAAATTT-
1 AAATAATA-TACATGATAAATTTA
*
48082206 AAA-AATATTA-ATGATAAATTTG
1 AAATAATA-TACATGATAAATTTA
48082228 AAATAGATATACATGATAAATTTA
1 AAATA-ATATACATGATAAATTTA
* * *
48082252 AAATATTGTTAACA--ATGAATTTA
1 AAATAAT-AT-ACATGATAAATTTA
* *
48082275 AAATAATAATA-TTGATAAATTGA
1 AAATAAT-ATACATGATAAATTTA
* *
48082298 AAATAATAAAACATGATAAATCTA
1 AAATAAT-ATACATGATAAATTTA
48082322 AAATAATA
1 AAATAATA
48082330 ATATACAATA
Statistics
Matches: 162, Mismatches: 31, Indels: 40
0.70 0.13 0.17
Matches are distributed among these distances:
20 9 0.06
21 24 0.15
22 20 0.12
23 46 0.28
24 57 0.35
25 6 0.04
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (23 bp):
AAATAATATACATGATAAATTTA
Found at i:48082742 original size:27 final size:26
Alignment explanation
Indices: 48082691--48082742 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
48082681 ACATAATATT
* *
48082691 AAAAAAATAAAGTATATAATTAATGG
1 AAAAAAATAAAGAATATAATGAATGG
48082717 AAAAAAATAAAAGAATGATAA-GAATG
1 AAAAAAAT-AAAGAAT-ATAATGAATG
48082743 ATTAAATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 8 0.36
27 10 0.45
28 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.21
Consensus pattern (26 bp):
AAAAAAATAAAGAATATAATGAATGG
Found at i:48083916 original size:22 final size:21
Alignment explanation
Indices: 48083892--48083951 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
48083882 TCCATTCATT
48083892 TTTTTTATTTTTTAAATTATA
1 TTTTTTATTTTTTAAATTATA
*
48083913 TTTTTTATTTTTATGAA-TATA
1 TTTTTTATTTTT-TAAATTATA
*
48083934 ATTTTTATTTTTTAAATT
1 TTTTTTATTTTTTAAATT
48083952 TAAAAATTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.09
21 28 0.82
22 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTTATTTTTTAAATTATA
Found at i:48086757 original size:24 final size:25
Alignment explanation
Indices: 48086721--48086778 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 25
48086711 AATCTGTTGA
*
48086721 ATTTTTCAATTGAAAATGGTTTCTGT
1 ATTTTTC-ATTGAAAATGGATTCTGT
48086747 ATTTTTC-TTGAAAATGGATTCTGT
1 ATTTTTCATTGAAAATGGATTCTGT
*
48086771 AGTTTTCA
1 ATTTTTCA
48086779 ATTTGTGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 22 0.76
26 7 0.24
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.50
Consensus pattern (25 bp):
ATTTTTCATTGAAAATGGATTCTGT
Found at i:48088274 original size:47 final size:48
Alignment explanation
Indices: 48088223--48088326 Score: 106
Period size: 47 Copynumber: 2.2 Consensus size: 48
48088213 TTTTAGTAAA
*
48088223 TTTATATAAGA-ATATTTAATATTAAGAATTTT-ATTAAATTATATATT
1 TTTATATAA-ATATATTTAATAATAAGAATTTTAATTAAATTATATATT
** * *
48088270 TTTAT-TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATT
1 TTTATATAAA-TATATTTAATAATAAGAATTTT-AATTAAATTATATATT
*
48088319 ATTATATA
1 TTTATATA
48088327 TTATGATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
45 1 0.02
46 3 0.07
47 23 0.50
49 17 0.37
50 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (48 bp):
TTTATATAAATATATTTAATAATAAGAATTTTAATTAAATTATATATT
Found at i:48088281 original size:120 final size:120
Alignment explanation
Indices: 48088121--48088376 Score: 485
Period size: 120 Copynumber: 2.1 Consensus size: 120
48088111 ATCTAGTTTT
48088121 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
1 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
*
48088186 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTA
66 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTA
48088241 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
1 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
* *
48088306 TATATTTTATATTATTATATATTATGATTTTAGTTAATTCATATAAGAATATTTA
66 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTA
48088361 ATATTAAGAATTTTAT
1 ATATTAAGAATTTTAT
48088377 ATTTTTATTA
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 133 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (120 bp):
ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTA
Found at i:48088377 original size:61 final size:61
Alignment explanation
Indices: 48088189--48088384 Score: 215
Period size: 61 Copynumber: 3.2 Consensus size: 61
48088179 TTTAAATTAT
* *
48088189 ATTTTATAGTATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTAATATTAAGA
1 ATTTTATATTATTATATATTATGATTTTAGTTAATTTATATAAGAATATTTAATATTAAGA
* * * * * * *
48088250 ATTTTAT-TAAATTATATATTTTTA-TTAAATTATATTTA-ATAATAATTATTTTAA-ATT-A-T
1 ATTTTATAT-TATTATATATTATGATTTTAGTTA-ATTTATATAAGAA-TA-TTTAATATTAAGA
*
48088309 ATTTTATATTATTATATATTATGATTTTAGTTAATTCATATAAGAATATTTAATATTAAGA
1 ATTTTATATTATTATATATTATGATTTTAGTTAATTTATATAAGAATATTTAATATTAAGA
*
48088370 ATTTTATATTTTTAT
1 ATTTTATATTATTAT
48088385 TAAATTATAA
Statistics
Matches: 107, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
58 5 0.05
59 28 0.26
60 26 0.24
61 43 0.40
62 5 0.05
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.54
Consensus pattern (61 bp):
ATTTTATATTATTATATATTATGATTTTAGTTAATTTATATAAGAATATTTAATATTAAGA
Found at i:48101704 original size:44 final size:44
Alignment explanation
Indices: 48101600--48102026 Score: 449
Period size: 44 Copynumber: 9.6 Consensus size: 44
48101590 TCTAGAGAAC
*** * * *
48101600 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGT
1 AGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGT
* *
48101645 AGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
1 AGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
*** * * *
48101689 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGT
1 AGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGT
* * *
48101734 AGGTCAAAGATAACAGATCTTGTCTTCATGTATTGGCGTAAAGT
1 AGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
* * *** * * *
48101778 AGATCAAAGATAACAGATTTTGTCTTCCCATACTGGTGGCGAAGT
1 AGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGT
*
48101823 AGATCAAAGATAGCAAATCTTGTCTTCATGTATTGGCGTGAAGT
1 AGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
*** * * * *
48101867 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAAT
1 AGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGT
* * * *
48101912 AGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAAT
1 AGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
* *
48101956 AAATCAAAGATAGCCGATCTTGTCTTCATGTATTGGCGTGAAGT
1 AGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
* *
48102000 AAATCGAAGATAGCAGATCTTGTCTTC
1 AGATCAAAGATAGCAGATCTTGTCTTC
48102027 CCATACTGGT
Statistics
Matches: 311, Mismatches: 68, Indels: 7
0.81 0.18 0.02
Matches are distributed among these distances:
44 176 0.57
45 135 0.43
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (44 bp):
AGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
Found at i:48101751 original size:89 final size:89
Alignment explanation
Indices: 48101600--48102026 Score: 633
Period size: 89 Copynumber: 4.8 Consensus size: 89
48101590 TCTAGAGAAC
*
48101600 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCT
1 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCT
48101665 TGTCTTCATGTATTGGCGTGAAGT
66 TGTCTTCATGTATTGGCGTGAAGT
*
48101689 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGGTCAAAGATAA-CAGATC
1 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGA-AAGCAGATC
*
48101753 TTGTCTTCATGTATTGGCGTAAAGT
65 TTGTCTTCATGTATTGGCGTGAAGT
* * * *
48101778 AGATCAAAGATAACAGATTTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGATAGCAAATCT
1 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCT
48101843 TGTCTTCATGTATTGGCGTGAAGT
66 TGTCTTCATGTATTGGCGTGAAGT
* *
48101867 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAGCAGATCT
1 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCT
* *
48101932 TGTCTTCATGTATTGGCATGAAAT
66 TGTCTTCATGTATTGGCGTGAAGT
* * *** * * * * * *
48101956 AAATCAAAGATAGCCGATCTTGTCTTCATGTATTGG-CGTGAAGTAAATCGAAGATAGCAGATCT
1 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCT
48102020 TGTCTTC
66 TGTCTTC
48102027 CCATACTGGT
Statistics
Matches: 308, Mismatches: 28, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
88 31 0.10
89 275 0.89
90 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (89 bp):
AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCT
TGTCTTCATGTATTGGCGTGAAGT
Found at i:48102164 original size:42 final size:41
Alignment explanation
Indices: 48102103--48102182 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 41
48102093 TGAAGAAAAT
* *
48102103 GATCCTATCTCATTGAAGTTGCAGTGGAGCGGGTTAAAATCA
1 GATCCTATCTCATTAAAGTTGCAGT-GAGCGGATTAAAATCA
48102145 GATCCTATCTC-TCTAAAGTTGCAGTGAGCGGATTAAAA
1 GATCCTATCTCAT-TAAAGTTGCAGTGAGCGGATTAAAA
48102183 AACCACAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 13 0.37
42 22 0.63
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (41 bp):
GATCCTATCTCATTAAAGTTGCAGTGAGCGGATTAAAATCA
Found at i:48103442 original size:3 final size:3
Alignment explanation
Indices: 48103423--48103460 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
48103413 ATTTTTAATT
*
48103423 TTA TT- TTA TTAA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT
48103461 TCAATGCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:48104347 original size:227 final size:227
Alignment explanation
Indices: 48103932--48104527 Score: 862
Period size: 227 Copynumber: 2.6 Consensus size: 227
48103922 CTTGAAGAAC
* *
48103932 TAGTGGCGTTTCT-AAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
* *
48103995 AAAATACCTTAACCAAAACGCAGCG-TTGGTTCAATTGTATATTAGAATTCGTGGCGTTTTTTAT
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGAATTAGTGGCGTTTTCTAT
48104059 AAAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGA
131 --AAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGA
** *
48104124 AAACGTACCATTTTATCTTGAGGTAGATTAATAT
194 AAACACACCATTTCATCTTGAGGTAGATTAATAT
* * *
48104158 TAGTGGCTTTTTTAAAAAAATGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
48104223 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGACATT-GTGGCGTTTTCTA
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGA-ATTAGTGGCGTTTTCTA
* * ** *
48104287 TAAAACACCGCAAAAGAATAGTATTAGCGGCGTTT-TCGGTAAAGCGCCGCAAATATCTTAATGA
130 TAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAAC-AAAAAGCGCCGCAAATATCTTAAGGA
* * *
48104351 AAACACACCGTTTCGTCTTGAGGTAGATTAGTAT
194 AAACACACCATTTCATCTTGAGGTAGATTAATAT
* *
48104385 TAGTGGCGTTTTTAGAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
** ** * * *
48104450 AAAATACCTTAACCAAAACGCAGAATTTGGTTTTGA-GGTATATTAGAATTAGTGGCGTTTACGA
66 AAAATACCTTAACCAAAACGCAGCGTTTGG-TTCAATTGTATATTAGAATTAGTGGCGTTTTCTA
48104514 TAAAACGCCGCAAA
130 TAAAACGCCGCAAA
48104528 TATCTTAACG
Statistics
Matches: 333, Mismatches: 30, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
226 15 0.05
227 242 0.73
228 39 0.12
229 34 0.10
230 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (227 bp):
TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAATTGTATATTAGAATTAGTGGCGTTTTCTAT
AAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGAAA
ACACACCATTTCATCTTGAGGTAGATTAATAT
Found at i:48104509 original size:114 final size:113
Alignment explanation
Indices: 48103927--48104509 Score: 495
Period size: 114 Copynumber: 5.1 Consensus size: 113
48103917 TAAAACTTGA
* * *
48103927 AGAACTAGTGGCGTTTCTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGCG
1 AGAATTAGTGGCGTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAGCG
* ** *
48103991 CCGCAAAATACCTTAACCAAAACGCAGC-GTTGG-TTCAATTGTATATT
66 CCGCAAAATACCTTAACCAAAACGCAGCATTTGGTTTTGA-GGTATATT
* * * * ****
48104038 AGAATTCGTGGCGTTTTTTATAAAAAACGCCGCAAAAGAATAGT-ATTAGCGGCGTTTAACAAAA
1 AGAATTAGTGGCG--TTTT-TAAAAAACGCCGTAAAAGAACA-TAATTAGTGGCGTTTATTTGAA
* ** * * ** * *
48104102 AGCGCCGC-AAATATCTTAAGGAAAACGTACCATTTTATCTTGAGGTAGATT
62 AGCGCCGCAAAATACCTTAACCAAAACGCAGCATTTGGTTTTGAGGTATATT
* * * *
48104153 A-ATATTAGTGGCTTTTTTAAAAAAATGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATG
1 AGA-ATTAGTGGCGTTTTT-AAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAG
* ** *
48104217 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGG-TTCAATTGTATATT
64 CGCCGCAAAATACCTTAACCAAAACGCAGCATTTGGTTTTGA-GGTATATT
* * * * * **
48104267 AGACATT-GTGGCGTTTTCTATAAAACACCGCAAAAGAATAGT-ATTAGCGGCGTTT-TCGGTAA
1 AGA-ATTAGTGGCGTTTT-TAAAAAACGCCGTAAAAGAACA-TAATTAGTGGCGTTTATTTG-AA
* ** * * * * * *
48104329 AGCGCCGC-AAATATCTTAATGAAAACACACCGTTTCGTCTTGAGGTAGATT
62 AGCGCCGCAAAATACCTTAACCAAAACGCAGCATTTGGTTTTGAGGTATATT
* ** *
48104380 AGTATTAGTGGCGTTTTTAGAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATGC
1 AGAATTAGTGGCGTTTTTA-AAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAGC
*
48104445 GCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATT
65 GCCGCAAAATACCTTAACCAAAACGCAGCATTTGGTTTTGAGGTATATT
48104494 AGAATTAGTGGCGTTT
1 AGAATTAGTGGCGTTT
48104510 ACGATAAAAC
Statistics
Matches: 357, Mismatches: 93, Indels: 41
0.73 0.19 0.08
Matches are distributed among these distances:
111 11 0.03
112 8 0.02
113 127 0.36
114 176 0.49
115 33 0.09
116 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (113 bp):
AGAATTAGTGGCGTTTTTAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAGCG
CCGCAAAATACCTTAACCAAAACGCAGCATTTGGTTTTGAGGTATATT
Done.