Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 44 of 91
Found at i:9367260 original size:19 final size:20
Alignment explanation
Indices: 9367231--9367280 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
9367221 TTTAAAGAAA
9367231 TTTTAACATAAAATAAA-TAT
1 TTTTAA-ATAAAATAAAGTAT
9367251 TTTTAAATAAAATAAAGTAT
1 TTTTAAATAAAATAAAGTAT
9367271 TTTTAAATAA
1 TTTTAAATAA
9367281 GTTAATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTTAAATAAAATAAAGTAT
Found at i:9367292 original size:26 final size:25
Alignment explanation
Indices: 9367261--9367335 Score: 93
Period size: 25 Copynumber: 3.0 Consensus size: 25
9367251 TTTTAAATAA
*
9367261 AATAAAGTATTTTTAAATAAGTTAAT
1 AATAAAATATTTTT-AATAAGTTAAT
*
9367287 AATAAAATATATTTAATAAGTTAAT
1 AATAAAATATTTTTAATAAGTTAAT
9367312 -ATAAAAATATTTTT--TAAGTTAAT
1 AAT-AAAATATTTTTAATAAGTTAAT
9367335 A
1 A
9367336 TATATATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
23 9 0.20
24 2 0.05
25 21 0.48
26 12 0.27
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (25 bp):
AATAAAATATTTTTAATAAGTTAAT
Found at i:9367329 original size:23 final size:24
Alignment explanation
Indices: 9367262--9367352 Score: 94
Period size: 23 Copynumber: 3.7 Consensus size: 24
9367252 TTTAAATAAA
* *
9367262 ATAAAGTATTTTTAAATAAGTTAAT
1 ATAAAATATATTT-AATAAGTTAAT
9367287 AATAAAATATATTTAATAAGTTAAT
1 -ATAAAATATATTTAATAAGTTAAT
**
9367312 ATAAAA-ATATTTTTTAAGTTAAT
1 ATAAAATATATTTAATAAGTTAAT
* *
9367335 ATATATATATATATAATA
1 ATA-AAATATATTTAATA
9367353 TTCTAAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
23 18 0.33
24 8 0.15
25 18 0.33
26 11 0.20
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
ATAAAATATATTTAATAAGTTAAT
Found at i:9368794 original size:2 final size:2
Alignment explanation
Indices: 9368787--9368816 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9368777 TATTTATTCT
9368787 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9368817 TTTGAAGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9369052 original size:38 final size:36
Alignment explanation
Indices: 9368825--9369050 Score: 253
Period size: 38 Copynumber: 6.2 Consensus size: 36
9368815 ATTTTGAAGT
*
9368825 CATTTTG-AAAATTATATAATATATGGTTTTTAAAAAA
1 CATTTTGAAAAATTATATAATATATAG-TTTT-AAAAA
*
9368862 CATTTTG-AAAA-TATATAATATATGGTTTT-AAAA
1 CATTTTGAAAAATTATATAATATATAGTTTTAAAAA
* * *
9368895 CATTTTGAAAACTTATATAATATATAGTTTTGAAAT
1 CATTTTGAAAAATTATATAATATATAGTTTTAAAAA
* * *
9368931 CATTTTGAAAATAAATATATAGTATATAGTTTTTTAAAA
1 CATTTTG-AAA-AATTATATAATATATAG-TTTTAAAAA
**
9368970 CATTTTGAAAAACTTACGTAATATATAGTTTTAAAAA
1 CATTTTGAAAAA-TTATATAATATATAGTTTTAAAAA
*
9369007 CATTTTTTGAAAAATTATATAATATATAATTTTAAAAA
1 CA--TTTTGAAAAATTATATAATATATAGTTTTAAAAA
9369045 CATTTT
1 CATTTT
9369051 TTAAATCATT
Statistics
Matches: 164, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
33 11 0.07
34 3 0.02
35 21 0.13
36 28 0.17
37 26 0.16
38 51 0.31
39 24 0.15
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (36 bp):
CATTTTGAAAAATTATATAATATATAGTTTTAAAAA
Found at i:9370091 original size:3 final size:3
Alignment explanation
Indices: 9370083--9370156 Score: 139
Period size: 3 Copynumber: 24.3 Consensus size: 3
9370073 AAATTAGCCC
9370083 TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9370129 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9370157 ACACATATAC
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 67 0.96
4 3 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9370167 original size:8 final size:8
Alignment explanation
Indices: 9370154--9370180 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9370144 TTATTATTAT
9370154 TATACACA
1 TATACACA
9370162 TATACACA
1 TATACACA
9370170 TATACACA
1 TATACACA
9370178 TAT
1 TAT
9370181 TTGTTTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (8 bp):
TATACACA
Found at i:9370210 original size:6 final size:6
Alignment explanation
Indices: 9370201--9370265 Score: 62
Period size: 6 Copynumber: 10.2 Consensus size: 6
9370191 TTTATTTTCA
9370201 TTATTT TTATTT TTATTT TTATTTT TTACCTTT TATATTT ATTATTGT
1 TTATTT TTATTT TTATTT TTA-TTT TTA--TTT T-TATTT -TTATT-T
9370249 TTA-TT TTA-TT TTATTT T
1 TTATTT TTATTT TTATTT T
9370266 ATCCTAATGT
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
5 9 0.17
6 19 0.37
7 16 0.31
8 6 0.12
9 2 0.04
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:9370214 original size:7 final size:7
Alignment explanation
Indices: 9370178--9370255 Score: 54
Period size: 7 Copynumber: 10.9 Consensus size: 7
9370168 CATATACACA
9370178 TATTTGTT
1 TATTT-TT
*
9370186 TATGTTT
1 TATTTTT
9370193 TATTTTCAT
1 TATTTT--T
9370202 TA-TTTT
1 TATTTTT
9370208 TA-TTTT
1 TATTTTT
9370214 TA-TTTT
1 TATTTTT
9370220 TATTTTT
1 TATTTTT
*
9370227 TACCTTTTA
1 TA--TTTTT
*
9370236 TATTTAT
1 TATTTTT
*
9370243 TATTGTT
1 TATTTTT
9370250 TATTTT
1 TATTTT
9370256 ATTTTATTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
6 15 0.26
7 26 0.46
8 7 0.12
9 9 0.16
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (7 bp):
TATTTTT
Found at i:9370260 original size:26 final size:26
Alignment explanation
Indices: 9370201--9370267 Score: 70
Period size: 28 Copynumber: 2.6 Consensus size: 26
9370191 TTTATTTTCA
9370201 TTATTTT-TATTT-TTATTTTTATTTT
1 TTATTTTATATTTATTATTTTTA-TTT
9370226 TTACCTTTTATATTTATTATTGTTTA-TT
1 TTA--TTTTATATTTATTATT-TTTATTT
9370254 TTATTTTAT-TTTAT
1 TTATTTTATATTTAT
9370268 CCTAATGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
25 8 0.22
26 6 0.16
27 4 0.11
28 10 0.27
29 5 0.14
30 4 0.11
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (26 bp):
TTATTTTATATTTATTATTTTTATTT
Found at i:9370378 original size:11 final size:11
Alignment explanation
Indices: 9370348--9370412 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
9370338 CTTTTTTTTC
*
9370348 TTTATTTTTTA
1 TTTATTTTATA
**
9370359 TTTCCTTTATA
1 TTTATTTTATA
9370370 TTTATTTTATA
1 TTTATTTTATA
9370381 TACTTATTTT-TA
1 T--TTATTTTATA
*
9370393 CTTTATTCTTGTA
1 -TTTATT-TTATA
9370406 TTTATTT
1 TTTATTT
9370413 ATTGTATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
11 24 0.55
12 10 0.23
13 10 0.23
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.71
Consensus pattern (11 bp):
TTTATTTTATA
Found at i:9370482 original size:70 final size:69
Alignment explanation
Indices: 9370406--9370537 Score: 178
Period size: 70 Copynumber: 1.9 Consensus size: 69
9370396 TATTCTTGTA
* *
9370406 TTTATTTATTGTATATA-TTATTATTATTATTTAT-TTTTTTCTTTACTCTTTTTGTTTTTATTT
1 TTTATTTATTCTATATACTT-TTATTATTATTTATGTTTTTTCTTTA-TCTTTTT-TTTCTATTT
9370469 CTTTCAT
63 CTTTCAT
* * *
9370476 TTTATTTATTCTATTTACTTTTTTTATTATTTTTGTTTTTTCTTTATCTTTTTTTTCTATTT
1 TTTATTTATTCTATATACTTTTATTATTATTTATGTTTTTTCTTTATCTTTTTTTTCTATTT
9370538 TAATTTTCTT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
69 8 0.15
70 34 0.62
71 13 0.24
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (69 bp):
TTTATTTATTCTATATACTTTTATTATTATTTATGTTTTTTCTTTATCTTTTTTTTCTATTTCTT
TCAT
Found at i:9370506 original size:107 final size:112
Alignment explanation
Indices: 9370304--9370511 Score: 248
Period size: 113 Copynumber: 1.9 Consensus size: 112
9370294 TATATATATA
* * * *
9370304 TATATATTACTATTATTCTTTTTCTTTTATTTAACTTTTTTTTCTTTATTTTTTATTTCCTTTAT
1 TATATATTACTATTATTATTTTTCTTTTATTTAACTTCTTTTTCTTTATTATTTATTTCATTTAT
*
9370369 ATTTATTTTATATACTTATTTTTACTTTATTCTTGTATTTATTTATTG
66 ATTTATTCTATATACTTATTTTTAC-TTATTCTTGTATTTATTTATTG
* * * * *
9370417 TATATATTATTATTATTATTTATTTTTTTCTTT-AC-TCTTTTTGTTT-TTATTTCTTTCATTT-
1 TATATATTACTATTATTATTT-TTCTTTTATTTAACTTCTTTTTCTTTATTATTTATTTCATTTA
* *
9370478 TATTTATTCTATTTACTT-TTTTTA-TTATTTTTGT
65 TATTTATTCTATATACTTATTTTTACTTATTCTTGT
9370512 TTTTTCTTTA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
107 9 0.11
109 6 0.07
110 16 0.20
111 12 0.15
112 9 0.11
113 21 0.26
114 9 0.11
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (112 bp):
TATATATTACTATTATTATTTTTCTTTTATTTAACTTCTTTTTCTTTATTATTTATTTCATTTAT
ATTTATTCTATATACTTATTTTTACTTATTCTTGTATTTATTTATTG
Found at i:9370569 original size:28 final size:28
Alignment explanation
Indices: 9370513--9370581 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
9370503 TATTTTTGTT
*
9370513 TTTTCTTTATCTT-TTTTTTCTATTTTAA
1 TTTTCTTTAT-TTCTTTTTTCTATTCTAA
*
9370541 TTTTCTTTATTTCATTTTTT-TCTTCTAA
1 TTTTCTTTATTTC-TTTTTTCTATTCTAA
**
9370569 TTTTAGTTATTTC
1 TTTTCTTTATTTC
9370582 CGTTACCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.06
28 27 0.77
29 6 0.17
ACGTcount: A:0.14, C:0.12, G:0.01, T:0.72
Consensus pattern (28 bp):
TTTTCTTTATTTCTTTTTTCTATTCTAA
Found at i:9375511 original size:64 final size:64
Alignment explanation
Indices: 9375421--9375779 Score: 565
Period size: 64 Copynumber: 5.6 Consensus size: 64
9375411 TGCAGCTTTT
* * * * *
9375421 AGAGTCAATTTCAACTTCACAACGAAGAATATTGGACTCAACAATCAATTTTTCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * * *
9375485 ATAGTCAATTTCAACTTCATAGCGAAGGATATTGGACTCAACAAATAACTTTCCATTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* *
9375549 ATAGTCAATTTCAACTTCATAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* *
9375613 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTTAACAAACAACTTTCCAGTTTCACTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* *
9375677 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTTAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* *
9375741 AGAGTCAATTTTAGCTTCACAGCGAAGGATATTGGACTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
9375780 GAAACGACAC
Statistics
Matches: 274, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 274 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
Found at i:9375902 original size:65 final size:65
Alignment explanation
Indices: 9375793--9375966 Score: 196
Period size: 65 Copynumber: 2.8 Consensus size: 65
9375783 ACGACACAAT
* * * *
9375793 TTACTCGAGATTGGATTTCAACTTCACGATGAAGGATATTCAACTCAAAGCCAATTTGGTAAAAC
1 TTACTCAAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAACCAATTTGGTAAAAC
** * *
9375858 TTACTCAAGATTGGATTTTGACTTCACGACGAAGGATATCCAACTTAAAACCAATTTGGTGAAAC
1 TTACTCAAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAACCAATTTGGTAAAAC
* * * * *
9375923 -AAC-C---CTTGGATTTCAACTTCACAACGAATGATATCCAATTCAAA
1 TTACTCAAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAA
9375967 GCTCAACTTC
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
60 33 0.35
63 1 0.01
64 2 0.02
65 57 0.61
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (65 bp):
TTACTCAAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAACCAATTTGGTAAAAC
Found at i:9376103 original size:34 final size:34
Alignment explanation
Indices: 9376060--9376143 Score: 159
Period size: 34 Copynumber: 2.5 Consensus size: 34
9376050 AGATTGGATT
*
9376060 TCAACTTCACGACGAAGGATATCCAATTCCAAGC
1 TCAACTTCACAACGAAGGATATCCAATTCCAAGC
9376094 TCAACTTCACAACGAAGGATATCCAATTCCAAGC
1 TCAACTTCACAACGAAGGATATCCAATTCCAAGC
9376128 TCAACTTCACAACGAA
1 TCAACTTCACAACGAA
9376144 TGAGCCATCC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.38, C:0.30, G:0.12, T:0.20
Consensus pattern (34 bp):
TCAACTTCACAACGAAGGATATCCAATTCCAAGC
Found at i:9376169 original size:32 final size:32
Alignment explanation
Indices: 9376128--9376210 Score: 139
Period size: 32 Copynumber: 2.6 Consensus size: 32
9376118 AATTCCAAGC
* *
9376128 TCAACTTCACAACGAATGAGCCATCCACGATT
1 TCAACTTCACGACGAAAGAGCCATCCACGATT
9376160 TCAACTTCACGACGAAAGAGCCATCCACGATT
1 TCAACTTCACGACGAAAGAGCCATCCACGATT
*
9376192 TTAACTTCACGACGAAAGA
1 TCAACTTCACGACGAAAGA
9376211 TATCGTGCCC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.20
Consensus pattern (32 bp):
TCAACTTCACGACGAAAGAGCCATCCACGATT
Found at i:9376724 original size:85 final size:85
Alignment explanation
Indices: 9376576--9377253 Score: 836
Period size: 85 Copynumber: 8.0 Consensus size: 85
9376566 AGTGCAGTAA
* * * * *
9376576 AACTCAAGGCGAGAAAGGTTATCTGTTAACCAAGACCTTTGAGTTCGATTACACTCAGCTCAAAG
1 AACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
*
9376641 GCATATCAAATTTACAACAT
66 GCATATCAAATTTACAGCAT
* * * * *
9376661 AACTAAAGGCAAGAAGAGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAACTCAAAG
1 AACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
*
9376726 GCATATCAAATTTGCAGCAT
66 GCATATCAAATTTACAGCAT
* * *
9376746 ATCTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAG
1 AACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
*
9376811 GCATATCAAATTTGCAGCAT
66 GCATATCAAATTTACAGCAT
* ** *
9376831 AGCTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTTAAGTTCGATTGCACTCAGCTCAAAG
1 AACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
**
9376896 GCATATCAAATTTACAGTGT
66 GCATATCAAATTTACAGCAT
** * * *
9376916 AACTCAAGGTGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTAAACTCATCTCAAAG
1 AACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
* *
9376981 GCACATCAAATTTACAACAT
66 GCATATCAAATTTACAGCAT
** * *
9377001 AACTCAAGGCGGGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTTGATTACACTCAGCTCAAAG
1 AACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
* * *
9377066 GCACATCAAATTTGCAGTAT
66 GCATATCAAATTTACAGCAT
* * * * * * *
9377086 AGCTCAAGGGAAGAAGGGCTATCTGTCAACAAAAAGACCTTCGAGGTCGATTACATTCAACTTAA
1 AACTCAAGGCAAGAAGGGTTATCTGTCAAC--AAAGACCTTCGAGTTCGATTACACTCAGCTCAA
* *
9377151 AGGCATATCCAATTTACATCAT
64 AGGCATATCAAATTTACAGCAT
* * * * * * **
9377173 AACTCAAGG-AGAGAAGGGTTATCTATGAATAAATACCTTCGAGTTCGATTCCATTCAGCTCAGG
1 AACTCAAGGCA-AGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA
*
9377237 GGCATGTCAAATTTACA
65 GGCATATCAAATTTACA
9377254 ATATAGCTTA
Statistics
Matches: 512, Mismatches: 78, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
85 444 0.87
86 1 0.00
87 67 0.13
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (85 bp):
AACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
GCATATCAAATTTACAGCAT
Found at i:9377986 original size:2 final size:2
Alignment explanation
Indices: 9377979--9378031 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
9377969 TTTATTCTTT
9377979 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9378021 TA TA TA T- TA TA
1 TA TA TA TA TA TA
9378032 GTTTAAAGTC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9378129 original size:38 final size:35
Alignment explanation
Indices: 9378041--9378318 Score: 207
Period size: 36 Copynumber: 7.8 Consensus size: 35
9378031 AGTTTAAAGT
* *
9378041 CATTTTGAAAA-T-TATAATATATGGTTTTAAAAAAAA
1 CATTTTGAAAATTATATAATATATAGTTTT---TAAAA
*
9378077 CATTTTGAAAA-TATATAATATATGGTTTTTAAAA
1 CATTTTGAAAATTATATAATATATAGTTTTTAAAA
9378111 CATTTTGAAAACTTATATAATATATAG-TTTTAAAA
1 CATTTTGAAAA-TTATATAATATATAGTTTTTAAAA
9378146 TCATTTTGAAAATAAATATATAATATATAGTATTTTAAAA
1 -CATTTTGAAAAT---TATATAATATATAGT-TTTTAAAA
*
9378186 CATTTTGAAAAACTTATATAATATATAGTTTTAAAAA
1 CATTTTG-AAAA-TTATATAATATATAGTTTTTAAAA
* * * *
9378223 TATTTTTTTTAAAAACT-TAT-ATA-ATA-TTTTTAAAT
1 CA----TTTTGAAAATTATATAATATATAGTTTTTAAAA
* ** * *
9378258 CATTTTTTAAAGCTATATAGTATATAGTTTTGAAAA
1 CA-TTTTGAAAATTATATAATATATAGTTTTTAAAA
* *
9378294 CTTTTTTAAAA--ATATAATATATAGT
1 CATTTTGAAAATTATATAATATATAGT
9378319 AAAAATTATT
Statistics
Matches: 206, Mismatches: 17, Indels: 41
0.78 0.06 0.16
Matches are distributed among these distances:
32 10 0.05
33 16 0.08
34 17 0.08
35 28 0.14
36 47 0.23
37 27 0.13
38 32 0.16
39 8 0.04
40 16 0.08
41 5 0.02
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (35 bp):
CATTTTGAAAATTATATAATATATAGTTTTTAAAA
Found at i:9378300 original size:36 final size:36
Alignment explanation
Indices: 9378073--9378318 Score: 208
Period size: 38 Copynumber: 6.9 Consensus size: 36
9378063 GGTTTTAAAA
* *
9378073 AAAACA-TTTTGAAAA-TATATAATATATGGTTTTT
1 AAAACATTTTTTAAAACTATATAATATATAGTTTTT
*
9378107 AAAACA-TTTTGAAAACTTATATAATATATAG-TTTT
1 AAAACATTTTTTAAAAC-TATATAATATATAGTTTTT
** *
9378142 AAAATCATTTTGAAAATAAATATATAATATATAGTATTTT
1 AAAA-CATTTT-TTAA-AACTATATAATATATAGT-TTTT
** *
9378182 AAAACATTTTGAAAAACTTATATAATATATAGTTTTA
1 AAAACATTTTTTAAAAC-TATATAATATATAGTTTTT
*
9378219 AAAATATTTTTTTTAAAAACT-TAT-ATA-ATA-TTTTT
1 AAAACA--TTTTTT-AAAACTATATAATATATAGTTTTT
* * * *
9378254 AAATCATTTTTTAAAGCTATATAGTATATAGTTTTG
1 AAAACATTTTTTAAAACTATATAATATATAGTTTTT
9378290 AAAAC-TTTTTTAAAA--ATATAATATATAGT
1 AAAACATTTTTTAAAACTATATAATATATAGT
9378319 AAAAATTATT
Statistics
Matches: 177, Mismatches: 19, Indels: 33
0.77 0.08 0.14
Matches are distributed among these distances:
32 5 0.03
33 22 0.12
34 17 0.10
35 28 0.16
36 26 0.15
37 16 0.09
38 37 0.21
39 13 0.07
40 13 0.07
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
AAAACATTTTTTAAAACTATATAATATATAGTTTTT
Found at i:9378315 original size:71 final size:74
Alignment explanation
Indices: 9378016--9378316 Score: 227
Period size: 71 Copynumber: 4.2 Consensus size: 74
9378006 ATATATATAT
* * * * * *
9378016 ATATATATATATTATAGTTTAAAGTCATTTTG-AAAA--T-TATAATATATGGTTTTAAAAAAAA
1 ATATA-ATATATAATATTTTAAA-ACATTTTGAAAAACTTATATAATATATAGTTTTAAAAATAT
* *
9378077 CATTTTGAAAA
64 CTTTTTTAAAA
**
9378088 TATATAATATATGGT-TTTTAAAACATTTTG-AAAACTTATATAATATATAGTTTT-AAAATCAT
1 -ATATAATATATAATATTTTAAAACATTTTGAAAAACTTATATAATATATAGTTTTAAAAAT-AT
** *
9378150 -TTTGAAAATAAAT
64 CTTT---TTTAAAA
* *
9378163 ATATAATATATAGTATTTTAAAACATTTTGAAAAACTTATATAATATATAGTTTTAAAAATATTT
1 ATATAATATATAATATTTTAAAACATTTTGAAAAACTTATATAATATATAGTTTTAAAAATATCT
9378228 TTTTTAAAA
66 TTTTTAAAA
* * ** * * *
9378237 A-CT--TATATAATATTTTTAAATCATTTTTTAAAGC-TATATAGTATATAGTTTT-GAAA-A-C
1 ATATAATATATAATA-TTTTAAAACATTTTGAAAAACTTATATAATATATAGTTTTAAAAATATC
9378295 TTTTTTAAAA
65 TTTTTTAAAA
9378305 ATATAATATATA
1 ATATAATATATA
9378317 GTAAAAATTA
Statistics
Matches: 187, Mismatches: 26, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
68 11 0.06
69 2 0.01
70 14 0.07
71 37 0.20
72 31 0.17
73 22 0.12
74 18 0.10
75 18 0.10
76 26 0.14
77 8 0.04
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (74 bp):
ATATAATATATAATATTTTAAAACATTTTGAAAAACTTATATAATATATAGTTTTAAAAATATCT
TTTTTAAAA
Found at i:9378369 original size:3 final size:3
Alignment explanation
Indices: 9378356--9378403 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
9378346 ATATAGTTTA
*
9378356 TAT TA- TAT TAT TAT TAA TA- TAT TAT TAT TAT TAT TAT T-T TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9378400 TAT T
1 TAT T
9378404 CATTTTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
2 8 0.20
3 32 0.80
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9378376 original size:14 final size:13
Alignment explanation
Indices: 9378342--9378397 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 13
9378332 GAAATATATA
*
9378342 TATTATATAGT-T
1 TATTATATATTAT
9378354 TA-TATTATATTAT
1 TATTA-TATATTAT
9378367 TATTAATATATTAT
1 TATT-ATATATTAT
9378381 TATTAT-TATTAT
1 TATTATATATTAT
9378393 T-TTAT
1 TATTAT
9378398 TTTATTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
11 6 0.15
12 14 0.36
13 5 0.13
14 13 0.33
15 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TATTATATATTAT
Found at i:9378381 original size:17 final size:18
Alignment explanation
Indices: 9378334--9378388 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
9378324 TTATTTTTGA
9378334 AATATATATATTATATAGTT
1 AATATATATATTAT-TA-TT
*
9378354 TATAT-TATATTATTATT
1 AATATATATATTATTATT
9378371 AATATAT-TATTATTATT
1 AATATATATATTATTATT
9378388 A
1 A
9378389 TTATTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 17 0.53
18 3 0.09
19 8 0.25
20 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AATATATATATTATTATT
Found at i:9378398 original size:14 final size:14
Alignment explanation
Indices: 9378356--9378418 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 14
9378346 ATATAGTTTA
*
9378356 TATTATATTATTAT
1 TATTATTTTATTAT
9378370 TAATATATTATTATTAT
1 T-AT-TATT-TTATTAT
9378387 TATTATTTTATT-T
1 TATTATTTTATTAT
9378400 TATTCATTTT-TTAT
1 TATT-ATTTTATTAT
9378414 T-TTAT
1 TATTAT
9378419 GTTTCTTTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
12 2 0.05
13 9 0.21
14 13 0.30
15 6 0.14
16 5 0.12
17 8 0.19
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATTTTATTAT
Found at i:9378411 original size:16 final size:16
Alignment explanation
Indices: 9378356--9378418 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 16
9378346 ATATAGTTTA
* *
9378356 TATTATATTATTATTAA
1 TATTTTATT-TTATTAT
*
9378373 TATATTATTATTATTAT
1 TATTTTATT-TTATTAT
9378390 TATTTTATTTTATTCAT
1 TATTTTATTTTATT-AT
9378407 T-TTTTATTTTAT
1 TATTTTATTTTAT
9378419 GTTTCTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
16 16 0.39
17 25 0.61
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTATTTTATTAT
Found at i:9379535 original size:23 final size:20
Alignment explanation
Indices: 9379485--9379536 Score: 50
Period size: 23 Copynumber: 2.4 Consensus size: 20
9379475 TATATATACA
9379485 TATATTTTTATGTTTTATTT
1 TATATTTTTATGTTTTATTT
*
9379505 TCATTATTTTTAATTTTTTACCTTT
1 T-A-TATTTTT-ATGTTTTA--TTT
9379530 TATATTT
1 TATATTT
9379537 ATTTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 7 0.27
23 12 0.46
24 1 0.04
25 4 0.15
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (20 bp):
TATATTTTTATGTTTTATTT
Found at i:9379569 original size:25 final size:26
Alignment explanation
Indices: 9379528--9379576 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
9379518 TTTTTTACCT
*
9379528 TTTATATTTATTTTTTATTTATTTAA
1 TTTATATTTATTGTTTATTTATTTAA
9379554 TTTAT-TTTATTGTTTATTTATTT
1 TTTATATTTATTGTTTATTTATTT
9379577 TTTCCCAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTATATTTATTGTTTATTTATTTAA
Found at i:9379576 original size:20 final size:19
Alignment explanation
Indices: 9379532--9379710 Score: 66
Period size: 19 Copynumber: 9.0 Consensus size: 19
9379522 TTACCTTTTA
9379532 TATTTATTTTTTATTTATT
1 TATTTATTTTTTATTTATT
*
9379551 TAATTTATTTTATTGTTTATT
1 T-ATTTATTTT-TTATTTATT
*
9379572 TATTT-TTTCCCAATGT-TTTATT
1 TATTTATTT-----TTTATTTATT
**
9379594 TATACATTTTATTATATATATAT
1 TATTTATTTT-TTAT-T-TAT-T
*
9379617 TACTATTATTCTTTT-TCT-TT
1 TA-T-TTATT-TTTTATTTATT
* *
9379637 TATTTATATTTATATTTTTT
1 TATTTAT-TTTTTATTTATT
*
9379657 TA-TT-TTCTTTATTT-TT
1 TATTTATTTTTTATTTATT
** *
9379673 TATTTCCTTTATATTTATT
1 TATTTATTTTTTATTTATT
*
9379692 TATTTATTTTTAATTTATT
1 TATTTATTTTTTATTTATT
9379711 CTTGTTTTTA
Statistics
Matches: 119, Mismatches: 19, Indels: 44
0.65 0.10 0.24
Matches are distributed among these distances:
16 4 0.03
17 9 0.08
18 16 0.13
19 28 0.24
20 21 0.18
21 11 0.09
22 13 0.11
23 7 0.06
24 3 0.03
25 5 0.04
26 2 0.02
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (19 bp):
TATTTATTTTTTATTTATT
Found at i:9379632 original size:29 final size:25
Alignment explanation
Indices: 9379600--9379660 Score: 59
Period size: 29 Copynumber: 2.3 Consensus size: 25
9379590 TATTTATACA
9379600 TTTTATTATATATATATTACTATTATTCT
1 TTTTATTATATATATATT--TA-TATT-T
* * *
9379629 TTTTCTTTTATTTATATTTATATTT
1 TTTTATTATATATATATTTATATTT
9379654 TTTTATT
1 TTTTATT
9379661 TTCTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 7 0.25
26 4 0.14
27 2 0.07
29 15 0.54
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTATTATATATATATTTATATTT
Found at i:9379669 original size:9 final size:9
Alignment explanation
Indices: 9379629--9379815 Score: 58
Period size: 10 Copynumber: 19.2 Consensus size: 9
9379619 CTATTATTCT
9379629 TTTTCTTTTA
1 TTTTC-TTTA
*
9379639 TTTATATTTA
1 TTT-TCTTTA
*
9379649 TATTTTTTTA
1 T-TTTCTTTA
9379659 TTTTCTTTA
1 TTTTCTTTA
9379668 -TTT-TTTA
1 TTTTCTTTA
*
9379675 TTTCCTTTA
1 TTTTCTTTA
*
9379684 TATTTATTTA
1 T-TTTCTTTA
*
9379694 TTTATTTTTAA
1 TTT-TCTTT-A
9379705 TTTATTCTTGT-
1 -TT-TTCTT-TA
*
9379716 TTTTATTTA
1 TTTTCTTTA
*
9379725 TTTTATATATA
1 TTTTCT-T-TA
*
9379736 TTATTATTATTA
1 TT-TT-CT-TTA
9379748 TTTTCTTTA
1 TTTTCTTTA
* *
9379757 TTTTTGTTTC
1 -TTTTCTTTA
* *
9379767 TTTACGTTTT
1 TTTTC-TTTA
9379777 TATTTCTTTCA
1 T-TTTCTTT-A
9379788 TTTTCTTTA
1 TTTTCTTTA
* *
9379797 TTCTGTTTA
1 TTTTCTTTA
9379806 TTTT-TTTA
1 TTTTCTTTA
9379814 TT
1 TT
9379816 AATTTTGTTT
Statistics
Matches: 137, Mismatches: 21, Indels: 40
0.69 0.11 0.20
Matches are distributed among these distances:
7 4 0.03
8 12 0.09
9 41 0.30
10 50 0.36
11 14 0.10
12 11 0.08
13 5 0.04
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTCTTTA
Found at i:9379673 original size:41 final size:42
Alignment explanation
Indices: 9379628--9379761 Score: 121
Period size: 45 Copynumber: 3.1 Consensus size: 42
9379618 ACTATTATTC
*
9379628 TTTTTCTTTTATTTATATTTA-TATT-TTTTTATTTTCTTTA
1 TTTTTTTTTTATTTATATTTATTATTATTTTTATTTTCTTTA
** * *
9379668 TTTTTTATTTCCTTTATATTTATTTATTTATTTTTAATTTATTCT-
1 TTTTTT-TTTTATTTATATTTA-TTA-TTATTTTTATTTTCTT-TA
* * *
9379713 TGTTTTTATTTATTTTATATATATTATTATTATTATTTTCTTTA
1 T-TTTTTTTTTA-TTTATATTTATTATTATTTTTATTTTCTTTA
9379757 TTTTT
1 TTTTT
9379762 GTTTCTTTAC
Statistics
Matches: 73, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
40 5 0.07
41 13 0.18
43 7 0.10
44 16 0.22
45 17 0.23
46 15 0.21
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (42 bp):
TTTTTTTTTTATTTATATTTATTATTATTTTTATTTTCTTTA
Found at i:9379707 original size:19 final size:19
Alignment explanation
Indices: 9379635--9379710 Score: 70
Period size: 19 Copynumber: 4.1 Consensus size: 19
9379625 TTCTTTTTCT
* *
9379635 TTTATTTATATTTATATTTT
1 TTTATTT-TCTTTATATTTA
9379655 TTTATTTTC-TT-TATTT-
1 TTTATTTTCTTTATATTTA
*
9379671 TTTATTTCCTTTATATTTA
1 TTTATTTTCTTTATATTTA
*
9379690 TTTATTTATTTTTA-ATTTA
1 TTTATTT-TCTTTATATTTA
9379709 TT
1 TT
9379711 CTTGTTTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
16 8 0.17
17 7 0.15
18 7 0.15
19 15 0.31
20 11 0.23
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTCTTTATATTTA
Found at i:9379782 original size:16 final size:14
Alignment explanation
Indices: 9379630--9379791 Score: 80
Period size: 15 Copynumber: 10.9 Consensus size: 14
9379620 TATTATTCTT
*
9379630 TTTCTTTTATTTATA
1 TTTC-TTTATTTTTA
*
9379645 TTTATATT-TTTTTA
1 TTTCT-TTATTTTTA
9379659 TTTTCTTTATTTTTTA
1 -TTTCTTTA-TTTTTA
*
9379675 TTTCCTTTATATTTA
1 TTT-CTTTATTTTTA
*
9379690 TTTATTTATTTTTAA
1 TTTCTTTATTTTT-A
* * *
9379705 TTT-ATTCTTGTT-
1 TTTCTTTATTTTTA
*
9379717 TTTATTTATTTTATA
1 TTTCTTTATTTT-TA
*
9379732 TATAT-TATTATTATTA
1 T-T-TCT-TTATTTTTA
*
9379748 TTTTCTTTATTTTTG
1 -TTTCTTTATTTTTA
9379763 TTTCTTTACGTTTTTA
1 TTTCTTTA--TTTTTA
9379779 TTTCTTTCATTTT
1 TTTCTTT-ATTTT
9379792 CTTTATTCTG
Statistics
Matches: 114, Mismatches: 16, Indels: 34
0.70 0.10 0.21
Matches are distributed among these distances:
12 3 0.03
13 5 0.04
14 31 0.27
15 37 0.32
16 29 0.25
17 9 0.08
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTCTTTATTTTTA
Found at i:9379848 original size:9 final size:8
Alignment explanation
Indices: 9379622--9379872 Score: 87
Period size: 9 Copynumber: 29.2 Consensus size: 8
9379612 TATATTACTA
9379622 TTATTCTTT
1 TTATT-TTT
*
9379631 TTCTTTTAT
1 TTATTTT-T
*
9379640 TTATATTT
1 TTATTTTT
*
9379648 ATATTTTT
1 TTATTTTT
9379656 TTATTTTCT
1 TTATTTT-T
9379665 TTA-TTTT
1 TTATTTTT
9379672 TTATTTCCTT
1 TTATTT--TT
*
9379682 TATATTTAT
1 T-TATTTTT
9379691 TTATTTATTT
1 TTA-TT-TTT
* *
9379701 TTAATTTA
1 TTATTTTT
*
9379709 TTCTTGTTT
1 TTATT-TTT
9379718 TTATTTATT
1 TTATTT-TT
* *
9379727 TTATATATA
1 TTAT-TTTT
*
9379736 TTATTATTA
1 TTATT-TTT
9379745 TTATTTTCT
1 TTATTTT-T
9379754 TTA--TTT
1 TTATTTTT
* *
9379760 TTGTTTCT
1 TTATTTTT
**
9379768 TTACGTTT
1 TTATTTTT
9379776 TTATTTCTT
1 TTATTT-TT
*
9379785 TCATTTTCT
1 TTATTTT-T
*
9379794 TTATTCTGT
1 TTATT-TTT
9379803 TTATTTTT
1 TTATTTTT
*
9379811 TTATTAATT
1 TTATT-TTT
*
9379820 TT-GTTTT
1 TTATTTTT
**
9379827 TTACCTTT
1 TTATTTTT
9379835 TTATTTTT
1 TTATTTTT
9379843 TCTATTTCATT
1 T-TATTT--TT
*
9379854 TTCTTTATT
1 TTATTT-TT
*
9379863 TCATTTTT
1 TTATTTTT
9379871 TT
1 TT
9379873 TTCTAATTTT
Statistics
Matches: 178, Mismatches: 41, Indels: 47
0.67 0.15 0.18
Matches are distributed among these distances:
6 3 0.02
7 10 0.06
8 63 0.35
9 80 0.45
10 14 0.08
11 8 0.04
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.74
Consensus pattern (8 bp):
TTATTTTT
Found at i:9379854 original size:14 final size:13
Alignment explanation
Indices: 9379837--9379872 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
9379827 TTACCTTTTT
9379837 ATTTTTTCTATTTC
1 ATTTTTT-TATTTC
9379851 ATTTTCTTTATTTC
1 ATTTT-TTTATTTC
9379865 ATTTTTTT
1 ATTTTTTT
9379873 TTCTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 16 0.76
15 2 0.10
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (13 bp):
ATTTTTTTATTTC
Found at i:9390432 original size:22 final size:22
Alignment explanation
Indices: 9390405--9390479 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
9390395 ACCCCCCACC
* *
9390405 ATGGTATCGCTACTACTATATT
1 ATGGTATCGATACTACTATACT
9390427 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATACT
*
9390449 ATGGTATCAATACT-CTAT--T
1 ATGGTATCGATACTACTATACT
*
9390468 ATGGTACCGATA
1 ATGGTATCGATA
9390480 TCATTTAGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.23
21 4 0.08
22 33 0.69
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (22 bp):
ATGGTATCGATACTACTATACT
Found at i:9390526 original size:20 final size:20
Alignment explanation
Indices: 9390501--9390554 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
9390491 TCTGTGCTCA
*
9390501 ATGGTATCGATAC-CATCTTC
1 ATGGTATCGATACTC-CCTTC
9390521 ATGGTATCGATACTCCCTTC
1 ATGGTATCGATACTCCCTTC
*
9390541 TTGGTATCGATACT
1 ATGGTATCGATACT
9390555 ACTTAACAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (20 bp):
ATGGTATCGATACTCCCTTC
Found at i:9394296 original size:46 final size:46
Alignment explanation
Indices: 9394246--9394341 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 46
9394236 CACCCATATG
* **
9394246 CATTTAAATTATGGCATCCTTTCATGCCCTTTTATACGTTATTATA
1 CATTTAAATTATGGCATCCTTTCATGCCCTTCTATACACTATTATA
* * *
9394292 CATTTCATTTATGGCATCCTTTCATGCCCTTCTATTCACTATTATA
1 CATTTAAATTATGGCATCCTTTCATGCCCTTCTATACACTATTATA
9394338 CATT
1 CATT
9394342 GTCACATATC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.07, T:0.46
Consensus pattern (46 bp):
CATTTAAATTATGGCATCCTTTCATGCCCTTCTATACACTATTATA
Found at i:9394830 original size:54 final size:54
Alignment explanation
Indices: 9394785--9395677 Score: 1160
Period size: 54 Copynumber: 16.6 Consensus size: 54
9394775 ATCATCTCAT
* * * * *
9394785 GATGAATTTCGTGAATTACACACTTAGTGCCGAAACAGTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* * * ***
9394839 GATGAATTCC-TGAAATGCAAACTTAGTGTCGAAACGGCTATTCATCCATACAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* * ***
9394892 GATAAATTCCGTGAAATGCACACTTAGTGCTGAAAAAATTATTCATCCACGTAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* * *
9394946 GATGAATTCCGTGAAATGCACACTTAGTACCAAAACGGTTATTAATCCACGTAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
** * **
9395000 GATGAATTCCGTGAAATGCACACTCGGTGCCGAAATGGTTATTCATCCATATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* * * *
9395054 AATAAATTCCGTGAAATGCACACTCAGTGTCGAAACGGTTATTCATCCACGTAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* * *
9395108 GATGAATTTCGT-AAATGCACACTTAGTGTCGAAACGGTTATTCATCCACGTAT
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* * *
9395161 GAAGAATTCCGTGAAATGCACACTTAGTGCCGAAATGGTTATTCATCCAAGTAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* * * *
9395215 GATGAATTCCGTGAAATGCATACTTAGTTCTGAAACGGTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
*
9395269 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACAGTTATTCATCCACGTAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* * * * * ** * *
9395323 GATGAAGTCTGTGTAATGTAAACTTAGTATCGAAACAGTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* * *
9395377 GTTGAATTCCGTGAAATACACACTTAGAGCCGAAACGGTTATTCATCCACGTAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
*
9395431 GATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTATTCATCCACGTAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* * * * *
9395485 GATAAATTCCGTGAAATGTACACTTAGTGCCAAAACGGTTATTCATCCACATAT
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* *
9395539 GATAAATTCCGTGAAATGCACACTTAGTACCGAAACGGTTATTCATCCACGTAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* * * ** *
9395593 GATGAATTCCGTGAAAGGTACACTTAGTGCCAAAACGAATATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
* * *
9395647 GATGAAATCCGTGAAATGCACCCTTAATGCC
1 GATGAATTCCGTGAAATGCACACTTAGTGCC
9395678 TATTTGGTAA
Statistics
Matches: 723, Mismatches: 114, Indels: 4
0.86 0.14 0.00
Matches are distributed among these distances:
53 93 0.13
54 630 0.87
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (54 bp):
GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACGTAG
Found at i:9397195 original size:32 final size:32
Alignment explanation
Indices: 9397158--9397222 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
9397148 AGAAACAAAG
* *
9397158 ATTAA-GATAATAAAACAAGGTTAATGAAAACA
1 ATTAAGGAAAATAAAACAAGGATAA-GAAAACA
**
9397190 ATTAAGGAAAATAGGACAAGGATAAGAAAACA
1 ATTAAGGAAAATAAAACAAGGATAAGAAAACA
9397222 A
1 A
9397223 CTAAAAGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (32 bp):
ATTAAGGAAAATAAAACAAGGATAAGAAAACA
Found at i:9403883 original size:23 final size:23
Alignment explanation
Indices: 9403851--9403901 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
9403841 GTTAGAATAG
* *
9403851 GTTAGTTGTTAAGAAA-GTTAGTT
1 GTTAGCTGTT-AGAAATGTTAGAT
9403874 GTTAGCTGTTAGAAATGTTAGAT
1 GTTAGCTGTTAGAAATGTTAGAT
9403897 GTTAG
1 GTTAG
9403902 AAACGTTAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.41
Consensus pattern (23 bp):
GTTAGCTGTTAGAAATGTTAGAT
Found at i:9403892 original size:16 final size:16
Alignment explanation
Indices: 9403873--9403917 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
9403863 GAAAGTTAGT
9403873 TGTTAGCTGTTAGAAA
1 TGTTAGCTGTTAGAAA
*
9403889 TGTTAGATGTTAGAAA
1 TGTTAGCTGTTAGAAA
* *
9403905 CGTTAGCGGTTAG
1 TGTTAGCTGTTAG
9403918 CAGAGTTCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (16 bp):
TGTTAGCTGTTAGAAA
Found at i:9405999 original size:138 final size:138
Alignment explanation
Indices: 9405673--9406269 Score: 599
Period size: 138 Copynumber: 4.3 Consensus size: 138
9405663 TGGTTAATCT
** * * * * *
9405673 GGATAATTTAAAGATAACATGGTTCTTTCGTGTTGAGGAAGTCT-AGTTATCTGAGGATGAAACT
1 GGATAATTTGGAGACAACATGGTTCCTTCGTGTTGAGGAAGTCTGA-TTGTCTAAGGATGACACT
* *** * * * * * **
9405737 GCTCATTCGTGTTGAGGAGATCTGGTCGGTGGACGATATTATT-ATTTAGTGTTCATTACGTCTA
65 GCTCCTTCACATTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTCA-TGTTGAGGACGTCTA
* *
9405801 GCCATCTTT-
129 GTCGTCTTTA
*** *
9405810 GGATATAATTTGGAGACAACATGGTTCCTTCACATTGAGGAAGTCTAATTGTCTAAGGATGACAC
1 GG--ATAATTTGGAGACAACATGGTTCCTTCGTGTTGAGGAAGTCTGATTGTCTAAGGATGACAC
* * * ** ** *
9405875 TGCTCCTTCGCGTTAAGGAGATCTGGTCAATGGATTACATTGTTCCTTCATGTTGAGGACTTCTA
64 TGCTCCTTCACATTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTCATGTTGAGGACGTCTA
9405940 GTCGTCTTTA
129 GTCGTCTTTA
* *
9405950 GGATAATTTGGAGACAACATGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTAAGGATGACACTA
1 GGATAATTTGGAGACAACATGGTTCCTTCGTGTTGAGGAAGTCTGATTGTCTAAGGATGACACTG
* * * * * *
9406015 CTCCTTTACATTGAGGATATCTAGTTGGTGGACTACATTGTTCCTTCTTGTTGAGGACGTCTAG-
66 CTCCTTCACATTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTCATGTTGAGGACGTCTAGT
9406079 CTGTCTTTA
131 C-GTCTTTA
* * * * * * * *
9406088 GGATAATTTGAAGACAACACGGTTCCTTTGTATTAAAGAAGTCTGGTTGTCTAAGGATAACACTG
1 GGATAATTTGGAGACAACATGGTTCCTTCGTGTTGAGGAAGTCTGATTGTCTAAGGATGACACTG
* * * * *
9406153 CTCCTTCACATTGAGGAGTTCTGGCCGGTGGACGACATTGTTCCTTCGTGTTGAGGACGTATACT
66 CTCCTTCACATTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTCATGTTGAGGACGTCTAGT
*
9406218 TGTCTTTA
131 CGTCTTTA
* * **
9406226 GGATAATTTGGAGATAGCACAGTTCCTTCGTGTTGAGGAAGTCT
1 GGATAATTTGGAGACAACATGGTTCCTTCGTGTTGAGGAAGTCT
9406270 AGTTTTCTGG
Statistics
Matches: 381, Mismatches: 72, Indels: 13
0.82 0.15 0.03
Matches are distributed among these distances:
137 3 0.01
138 270 0.71
139 102 0.27
140 6 0.02
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (138 bp):
GGATAATTTGGAGACAACATGGTTCCTTCGTGTTGAGGAAGTCTGATTGTCTAAGGATGACACTG
CTCCTTCACATTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTCATGTTGAGGACGTCTAGT
CGTCTTTA
Found at i:9406766 original size:96 final size:96
Alignment explanation
Indices: 9406632--9406805 Score: 294
Period size: 96 Copynumber: 1.8 Consensus size: 96
9406622 TGTTTTGAGA
* * * *
9406632 GAAACAATCTCAAGTGAGATCAGTTTTGTTTGAAGTGAAACAAATTCAAAATTTGTGCTTCGAAT
1 GAAACAATCTCAAGTGAGATCAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTGCTTCAAAG
*
9406697 GAGAATTATCTCAAGTGAGATGAAATATTGG
66 GAGAAATATCTCAAGTGAGATGAAATATTGG
*
9406728 GAAACAATCTCAAGTGAGATCAATTTTGTTTCAGGTGAAACAAATTCAAAATTTGTGCTTCAAAG
1 GAAACAATCTCAAGTGAGATCAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTGCTTCAAAG
9406793 GAGAAATATCTCA
66 GAGAAATATCTCA
9406806 TGCGAGACGA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (96 bp):
GAAACAATCTCAAGTGAGATCAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTGCTTCAAAG
GAGAAATATCTCAAGTGAGATGAAATATTGG
Found at i:9407009 original size:168 final size:169
Alignment explanation
Indices: 9406729--9407077 Score: 424
Period size: 168 Copynumber: 2.1 Consensus size: 169
9406719 AAATATTGGG
* *
9406729 AAACAATCTCAAGTGAGATCAATTTTGTTTCAGGTGAAACAAATTCAAAATTTGTGCTTCAAAGG
1 AAACAATCTCAAGTGAGATCAACTTTGTTTCAAGTGAAACAAATTCAAAATTTGTGCTTCAAAGG
* * **** *
9406794 AGAAATATCTCATGCGAGACGAAATTTTTTTTTTGGGAAAAAATCTCAAATG-TTCATGTCTT-A
66 AGAAATATCTCAAGCGAGACGAAATTTGTTTTGACAGAAAAAATCTCAAAGGCTT-ATGT-TTCA
* * * *
9406857 AG-GAAGACTTTCTCAAGTGAGACAAAA-TTTGTTTTGAGAA
129 AGAGAA-AATGTCTCAAGCGAGACAAAATTTTGTTTGGAGAA
* *
9406897 AAACAATCTCAAGTGAGATCAACTTTGTTTCAAGTGAAACAAATTC-AAATTT-TGCATGTGAAG
1 AAACAATCTCAAGTGAGATCAACTTTGTTTCAAGTGAAACAAATTCAAAATTTGTGC-T-TCAAA
* *
9406960 GGA-AAACTGTCTCAAGCGAGACGAAATTTGTTTTGACAGAAACAATCTCAAAGGCTTATGTTTC
64 GGAGAAA-TATCTCAAGCGAGACGAAATTTGTTTTGACAGAAAAAATCTCAAAGGCTTATGTTTC
*
9407024 AAGAGAAAATGTCTCAAGCGAGACAAAATTTTGTTTGGAGAG
128 AAGAGAAAATGTCTCAAGCGAGACAAAATTTTGTTTGGAGAA
*
9407066 AACCAATCTCAA
1 AAACAATCTCAA
9407078 AGGTTTGTGT
Statistics
Matches: 155, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
166 3 0.02
167 12 0.08
168 113 0.73
169 27 0.17
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (169 bp):
AAACAATCTCAAGTGAGATCAACTTTGTTTCAAGTGAAACAAATTCAAAATTTGTGCTTCAAAGG
AGAAATATCTCAAGCGAGACGAAATTTGTTTTGACAGAAAAAATCTCAAAGGCTTATGTTTCAAG
AGAAAATGTCTCAAGCGAGACAAAATTTTGTTTGGAGAA
Found at i:9407077 original size:67 final size:67
Alignment explanation
Indices: 9406961--9407141 Score: 278
Period size: 67 Copynumber: 2.7 Consensus size: 67
9406951 CATGTGAAGG
* *
9406961 GAAAACTGTCTCAAGCGAGACGAAA-TTTGTTTTGACAGAAACAATCTCAAAGGCTTATGTTTCA
1 GAAAA-TGTCTCAAGCGAGACGAAATTTTGTTTGGAGAGAAACAATCTCAAAGGCTTATGTTTCA
9407025 AGA
65 AGA
* * * *
9407028 GAAAATGTCTCAAGCGAGACAAAATTTTGTTTGGAGAGAACCAATCTCAAAGGTTTGTGTTTCAA
1 GAAAATGTCTCAAGCGAGACGAAATTTTGTTTGGAGAGAAACAATCTCAAAGGCTTATGTTTCAA
9407093 GA
66 GA
9407095 GAAAATGTCTCAAGCGAGACGAAATTTTGTTTGG-GA-AAACAATCTCA
1 GAAAATGTCTCAAGCGAGACGAAATTTTGTTTGGAGAGAAACAATCTCA
9407142 CGTGAGATAA
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
65 10 0.10
66 20 0.19
67 75 0.71
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (67 bp):
GAAAATGTCTCAAGCGAGACGAAATTTTGTTTGGAGAGAAACAATCTCAAAGGCTTATGTTTCAA
GA
Found at i:9409448 original size:25 final size:25
Alignment explanation
Indices: 9409420--9409468 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9409410 TTATTTTCAA
*
9409420 AATTTTGAAAAATATCAATTAAAAG
1 AATTTTGAAAAATATCAATCAAAAG
*
9409445 AATTTTGAAAAATATTAATCAAAA
1 AATTTTGAAAAATATCAATCAAAA
9409469 AGATTGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
AATTTTGAAAAATATCAATCAAAAG
Found at i:9413116 original size:27 final size:27
Alignment explanation
Indices: 9413086--9413151 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
9413076 TTATGACTAT
9413086 ATTTGAAAATTTGGTGATTTCGAATTA
1 ATTTGAAAATTTGGTGATTTCGAATTA
9413113 ATTTGAAAATTTGGTGATTTCGAATTA
1 ATTTGAAAATTTGGTGATTTCGAATTA
9413140 ATTTGAAAATTT
1 ATTTGAAAATTT
9413152 TTTGAATTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (27 bp):
ATTTGAAAATTTGGTGATTTCGAATTA
Found at i:9413956 original size:13 final size:13
Alignment explanation
Indices: 9413935--9413966 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9413925 CCAAGGTTAT
*
9413935 GTCGTCATCGTTC
1 GTCGCCATCGTTC
9413948 GTCGCCATCGTTC
1 GTCGCCATCGTTC
9413961 GTCGCC
1 GTCGCC
9413967 GTGCGTAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.38, G:0.25, T:0.31
Consensus pattern (13 bp):
GTCGCCATCGTTC
Found at i:9414284 original size:29 final size:29
Alignment explanation
Indices: 9414217--9414313 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 29
9414207 TCCAGTCACC
* * **
9414217 GAGTCAACTAAGTTTGAGTCAACCCGTCC
1 GAGTCAACTCAGTTTGAGTTAACCCGTAT
*
9414246 GATTCAACTCAGTTTGAGTTAACCCGTAT
1 GAGTCAACTCAGTTTGAGTTAACCCGTAT
* * * *
9414275 GAGTCAACTCGGTCTGAGTTAACCTGTTT
1 GAGTCAACTCAGTTTGAGTTAACCCGTAT
*
9414304 GAGTTAACTC
1 GAGTCAACTC
9414314 GTTGACTTTG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (29 bp):
GAGTCAACTCAGTTTGAGTTAACCCGTAT
Found at i:9414308 original size:14 final size:14
Alignment explanation
Indices: 9414257--9414316 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
9414247 ATTCAACTCA
9414257 GTTTGAGTTAACCC
1 GTTTGAGTTAACCC
* * *
9414271 GTATGAGTCAACTCG
1 GTTTGAGTTAAC-CC
* *
9414286 GTCTGAGTTAACCT
1 GTTTGAGTTAACCC
*
9414300 GTTTGAGTTAACTC
1 GTTTGAGTTAACCC
9414314 GTT
1 GTT
9414317 GACTTTGACC
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
14 25 0.69
15 11 0.31
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (14 bp):
GTTTGAGTTAACCC
Found at i:9414329 original size:13 final size:13
Alignment explanation
Indices: 9414313--9414339 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9414303 TGAGTTAACT
9414313 CGTTGACTTTGAC
1 CGTTGACTTTGAC
9414326 CGTTGACTTTGAC
1 CGTTGACTTTGAC
9414339 C
1 C
9414340 AAAAAGTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (13 bp):
CGTTGACTTTGAC
Found at i:9418354 original size:59 final size:58
Alignment explanation
Indices: 9418291--9418849 Score: 370
Period size: 59 Copynumber: 9.7 Consensus size: 58
9418281 ATGGCACTTT
* * *
9418291 GTGTGCAAAAATGATAAGGAAATCATACTGAGTGTATAGATTTTCATATGGAGCACTGA
1 GTGTGC-AAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGA
* * ** * * *
9418350 GTGTGCTAAATGATAAGGAAATCATATTGAAAAATATGGATTTCCAGATAGG-GCATTTTA
1 GTGTGCAAAATGATAAGGAAATCATACTG-AATGTATGGATTTCCATAT-GGAGCA-CTGA
* *
9418410 -TGTGCTAAAATGATAA-G----------GAA-GTATAGATTTCCATATGGAGCACAGA
1 GTGTGC-AAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGA
* * ** * *
9418456 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCATATAGGA-CATTTTA
1 GTGTGCAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-GGAGCA-CTGA
* * * * *
9418515 -TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATAGATTTCCATATGGAGCACAGA
1 GTGTGC-AAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGA
* * ** * *
9418573 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCATATAGGA-CATTTTA
1 GTGTGCAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-GGAGCA-CTGA
* * * *
9418632 -TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGC-AAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGA
* * ** * * *
9418690 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGG-GCATTTTA
1 GTGTGCAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-GGAGCA-CTGA
* * * * ** *
9418749 -TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCACTAA
1 GTGTGC-AAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGA
* *
9418807 GGGTGCGACAAA-GATAAGAAAATCATACT-AATGGTATGGATTT
1 GTGTGC-A-AAATGATAAGGAAATCATACTGAAT-GTATGGATTT
9418850 TCACATAGGG
Statistics
Matches: 382, Mismatches: 83, Indels: 70
0.71 0.16 0.13
Matches are distributed among these distances:
46 12 0.03
47 22 0.06
48 2 0.01
49 1 0.00
57 3 0.01
58 137 0.36
59 189 0.49
60 16 0.04
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (58 bp):
GTGTGCAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGA
Found at i:9418636 original size:117 final size:117
Alignment explanation
Indices: 9418430--9418882 Score: 712
Period size: 117 Copynumber: 3.9 Consensus size: 117
9418420 TGATAAGGAA
9418430 GTATAGATTTCCATATGGAGCACAGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGA
1 GTATAGATTTCCATATGGAGCACAGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGA
9418495 TTTCCATATAGGACATTTTATGTGCTAAAATGGTAAGGGAATCATACTGAGT
66 TTTCCATATAGGACATTTTATGTGCTAAAATGGTAAGGGAATCATACTGAGT
9418547 GTATAGATTTCCATATGGAGCACAGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGA
1 GTATAGATTTCCATATGGAGCACAGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGA
9418612 TTTCCATATAGGACATTTTATGTGCTAAAATGGTAAGGGAATCATACTGAGT
66 TTTCCATATAGGACATTTTATGTGCTAAAATGGTAAGGGAATCATACTGAGT
*
9418664 GTATAGATTTCCATATGGAGCACTGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGA
1 GTATAGATTTCCATATGGAGCACAGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGA
* *
9418729 TTTCCAGATAGGGCATTTTATGTGCTAAAATGGTAAGGGAATCATACTGAGT
66 TTTCCATATAGGACATTTTATGTGCTAAAATGGTAAGGGAATCATACTGAGT
* * ** * * * * * **
9418781 GTATGGATTTCCAGATAAAGCACTA-AGGGTGCGACAAAGATAAGAAAATCATACT-AATGGTAT
1 GTATAGATTTCCATATGGAGCAC-AGAGTGTGCTA-AATGATAAGGAAATCATATTGAA-AATAT
* * *
9418844 GGATTTTCACATAGGGCATTTTATGTGCTAAAATGGTAA
63 GGATTTCCATATAGGACATTTTATGTGCTAAAATGGTAA
9418883 CAAAATCATA
Statistics
Matches: 316, Mismatches: 17, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
117 259 0.82
118 57 0.18
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (117 bp):
GTATAGATTTCCATATGGAGCACAGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGA
TTTCCATATAGGACATTTTATGTGCTAAAATGGTAAGGGAATCATACTGAGT
Found at i:9418888 original size:59 final size:58
Alignment explanation
Indices: 9418457--9418908 Score: 310
Period size: 59 Copynumber: 7.7 Consensus size: 58
9418447 GAGCACAGAG
* * ** * *
9418457 TGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCATATAGGACATTTTA
1 TGTGCTAAAATGGTAAGGAAATCATACT-AAGGTATGGATTTCCACATAGGGCATTTTA
* * * * ***
9418515 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATAGATTTCCATAT-GGAGCA-CAGA
1 TGTGCTAAAATGGTAAGGAAATCATACTAAG-GTATGGATTTCCACATAGG-GCATTTTA
* * ** * *
9418573 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCATATAGGACATTTTA
1 -TGTGCTAAAATGGTAAGGAAATCATACT-AAGGTATGGATTTCCACATAGGGCATTTTA
* * * * * *
9418632 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATAGATTTCCATAT-GGAGCA-CTGA
1 TGTGCTAAAATGGTAAGGAAATCATACTAAG-GTATGGATTTCCACATAGG-GCATTTTA
* * ** *
9418690 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
1 -TGTGCTAAAATGGTAAGGAAATCATACT-AAGGTATGGATTTCCACATAGGGCATTTTA
* * * ** * *
9418749 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCA-CTAA
1 TGTGCTAAAATGGTAAGGAAATCATACTAAG-GTATGGATTTCCACATAGGGCATTTTA
* * * * *
9418807 GGGTGCGACAAA-GATAAGAAAATCATACTAATGGTATGGATTTTCACATAGGGCATTTTA
1 -TGTGCTA-AAATGGTAAGGAAATCATACTAA-GGTATGGATTTCCACATAGGGCATTTTA
** *
9418867 TGTGCTAAAATGGTAACAAAATCATACTAATGGTATGAATTT
1 TGTGCTAAAATGGTAAGGAAATCATACTAA-GGTATGGATTT
9418909 TTTAATAGGG
Statistics
Matches: 304, Mismatches: 69, Indels: 41
0.73 0.17 0.10
Matches are distributed among these distances:
58 101 0.33
59 197 0.65
60 6 0.02
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (58 bp):
TGTGCTAAAATGGTAAGGAAATCATACTAAGGTATGGATTTCCACATAGGGCATTTTA
Found at i:9418917 original size:59 final size:59
Alignment explanation
Indices: 9418825--9418937 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 59
9418815 CAAAGATAAG
* * *
9418825 AAAATCATACTAATGGTATGGATTTTCACATAGGGCATTTTATGTGCTAAAATGGTAAC
1 AAAATCATACTAATGGTATGAATTTTCACATAGGGCACTTCATGTGCTAAAATGGTAAC
* *
9418884 AAAATCATACTAATGGTATGAATTTTTTA-ATAGGGCACTTCGTGTGCTAAAATG
1 AAAATCATACTAATGGTATGAA-TTTTCACATAGGGCACTTCATGTGCTAAAATG
9418938 AAAGGGGAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 43 0.90
60 5 0.10
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (59 bp):
AAAATCATACTAATGGTATGAATTTTCACATAGGGCACTTCATGTGCTAAAATGGTAAC
Found at i:9419160 original size:21 final size:21
Alignment explanation
Indices: 9419091--9419160 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
9419081 ATATTGGTAA
9419091 AATAAGCTTACGAGCTTATGG
1 AATAAGCTTACGAGCTTATGG
* *
9419112 AATAA--TGACAAG-TATATTGG
1 AATAAGCTTACGAGCT-TA-TGG
9419132 TAAAATAAGCTTACGAGCTTATGG
1 ---AATAAGCTTACGAGCTTATGG
9419156 AATAA
1 AATAA
9419161 TGGTAAGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
18 1 0.03
19 7 0.19
20 3 0.08
21 10 0.27
23 5 0.14
24 3 0.08
25 7 0.19
26 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (21 bp):
AATAAGCTTACGAGCTTATGG
Found at i:9419223 original size:45 final size:44
Alignment explanation
Indices: 9419070--9419256 Score: 284
Period size: 44 Copynumber: 4.2 Consensus size: 44
9419060 TAAATGAGGT
*
9419070 TAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
**
9419114 TAATGACAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
* *
9419158 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTGTGTAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
* * *
9419202 TAAATGGTAAGTATGTCGGTAAAATAAGCTTACGAGCTTATGGGA
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
9419247 TAAATGGTAA
1 T-AATGGTAA
9419257 ATTTATTGAT
Statistics
Matches: 132, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
44 84 0.64
45 48 0.36
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (44 bp):
TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
Found at i:9419673 original size:82 final size:82
Alignment explanation
Indices: 9419535--9419687 Score: 288
Period size: 82 Copynumber: 1.9 Consensus size: 82
9419525 AATTTGACTT
*
9419535 AGATAGTGGCATGTAATTATAAATGTTAAATTTGGTTTGTTGGATTATTTTCAAAACAAAATGGT
1 AGATAGTGGCATGTAATTATAAATGTTAAATTTGGTTTGTTGAATTATTTTCAAAACAAAATGGT
9419600 AAAAGTATAGTGATGAA
66 AAAAGTATAGTGATGAA
*
9419617 AGATAGTGGCATGTAATTATAAATGTTAAATTTGGTTTGTTGAATTATTTTGAAAACAAAATGGT
1 AGATAGTGGCATGTAATTATAAATGTTAAATTTGGTTTGTTGAATTATTTTCAAAACAAAATGGT
9419682 AAAAGT
66 AAAAGT
9419688 GCATTGATAC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.37
Consensus pattern (82 bp):
AGATAGTGGCATGTAATTATAAATGTTAAATTTGGTTTGTTGAATTATTTTCAAAACAAAATGGT
AAAAGTATAGTGATGAA
Found at i:9422137 original size:131 final size:131
Alignment explanation
Indices: 9421902--9422140 Score: 284
Period size: 131 Copynumber: 1.8 Consensus size: 131
9421892 ATAAATTGTG
** * * * **
9421902 GTAACATTTTAGGTGCAACCAAGTTTATTACACAAAATGTTAATATTTCATATTGCAACCTACTT
1 GTAACATTTTAGGCACAACCAAGTTTATTACACAAAATATTAACAATTCATATCACAACCTACTT
* * * * * *
9421967 TCTTAGTGATCGATTACATTCTTCGGCGTAACCTTATTTCTTAAGGCCCCGTCAACTTAAAATCT
66 TCTTAGTCACCGATAACATTCTTCGGCGCAACATGATTTCTTAAGGCCCCGTCAACTTAAAATCT
9422032 T
131 T
9422033 GTAACATTTTAGGCACAACCGAA-TTTATTACACATAAA-ATTAACAATTCATATCACAACCTAC
1 GTAACATTTTAGGCACAACC-AAGTTTATTACACA-AAATATTAACAATTCATATCACAACCTAC
* * * * *
9422096 TTTTTTATTCACCGATAATATTCTTGGGTGCAACATGATTTCTTA
64 TTTCTTAGTCACCGATAACATTCTTCGGCGCAACATGATTTCTTA
9422141 TATTCATAAT
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
131 83 0.94
132 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (131 bp):
GTAACATTTTAGGCACAACCAAGTTTATTACACAAAATATTAACAATTCATATCACAACCTACTT
TCTTAGTCACCGATAACATTCTTCGGCGCAACATGATTTCTTAAGGCCCCGTCAACTTAAAATCT
T
Found at i:9422414 original size:187 final size:188
Alignment explanation
Indices: 9422120--9422600 Score: 528
Period size: 187 Copynumber: 2.6 Consensus size: 188
9422110 ATAATATTCT
*
9422120 TGGGTGCAACATG-ATTTCTTAT----ATTCATAATATTTTTAGATTTGAACTTATTTTGTTATC
1 TGGGTGCAAC-TGAATTTCTTATAGACATTCATAATATTTTTAGATTTTAACTTATTTTGTTATC
* * * * * ***
9422180 GTGAGAATTTCT-A-GAGCTTCATCAGCTTTAA-TTCTGGTAACATTTTAGGTGCAATTGGTTTT
65 GTGAGAATATCTAAGGA-C-CCATCAGCTTAAACTTCTGATAACATTTTAGGCGCAATCAATTTT
9422242 ATTACAAAGAAAATTAACATTCCAGATCGC-AACGTACTTTCATAGTGAATGATAACATTTA
128 ATTACAAAGAAAATTAACATTCCAGATCGCAAAC-TACTTTCATAGTGAATGATAACATTTA
* * * *
9422303 TGGGTGCGACTGAATTTCTTATAGGCATTCATAACATTTTTAGTTTTTAACTTATTTTGTTA-CA
1 TGGGTGCAACTGAATTTCTTATAGACATTCATAATATTTTTAGATTTTAACTTATTTTGTTATC-
* *
9422367 GTGAGAATGTCTAAGGACCCATCAGCTTAAACTT-TGATAATATTTTAGGCGCAATCAATTTTAT
65 GTGAGAATATCTAAGGACCCATCAGCTTAAACTTCTGATAACATTTTAGGCGCAATCAATTTTAT
* * * * *
9422431 TACAAAGAAAATTAACATTCTAGATCGCAAACTATTTTCTTAGTTAATGATAACATTTT
130 TACAAAGAAAATTAACATTCCAGATCGCAAACTACTTTCATAGTGAATGATAACATTTA
* * * * * *
9422490 TTGGTGCAACTGGATTTCTTATTGATATTCATAATTTTTTTTA-ACTTTTAACTTATTTTCTTAT
1 TGGGTGCAACTGAATTTCTTATAGACATTCATAA-TATTTTTAGA-TTTTAACTTATTTTGTTAT
* *
9422554 CGTGAGAATATCTAAGGCCCCATCAAC-TAAAC-TC---TAACATTTTAGGC
64 CGTGAGAATATCTAAGGACCCATCAGCTTAAACTTCTGATAACATTTTAGGC
9422601 CCACCCTAAT
Statistics
Matches: 252, Mismatches: 32, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
182 2 0.01
183 18 0.07
184 12 0.05
186 2 0.01
187 162 0.64
188 53 0.21
189 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (188 bp):
TGGGTGCAACTGAATTTCTTATAGACATTCATAATATTTTTAGATTTTAACTTATTTTGTTATCG
TGAGAATATCTAAGGACCCATCAGCTTAAACTTCTGATAACATTTTAGGCGCAATCAATTTTATT
ACAAAGAAAATTAACATTCCAGATCGCAAACTACTTTCATAGTGAATGATAACATTTA
Found at i:9423056 original size:9 final size:9
Alignment explanation
Indices: 9423023--9423085 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
9423013 TCTTAAAATC
9423023 AAATTAATT
1 AAATTAATT
9423032 AATATT--TT
1 AA-ATTAATT
9423040 AATTATTAATT
1 AA--ATTAATT
9423051 AAATTAATT
1 AAATTAATT
**
9423060 ATTTTAATT
1 AAATTAATT
9423069 --ATTAATT
1 AAATTAATT
9423076 AAATTAATT
1 AAATTAATT
9423085 A
1 A
9423086 TTTTAGAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
7 6 0.13
8 4 0.09
9 28 0.62
10 3 0.07
11 4 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
AAATTAATT
Found at i:9423068 original size:25 final size:25
Alignment explanation
Indices: 9423024--9423090 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
9423014 CTTAAAATCA
9423024 AATT-AATTAA-TATTTTAATTATT
1 AATTAAATTAATTATTTTAATTATT
9423047 AATTAAATTAATTATTTTAATTATT
1 AATTAAATTAATTATTTTAATTATT
9423072 AATTAAATTAATTATTTTA
1 AATTAAATTAATTATTTTA
9423091 GAAATTATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 4 0.10
24 6 0.14
25 32 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
AATTAAATTAATTATTTTAATTATT
Found at i:9423087 original size:16 final size:15
Alignment explanation
Indices: 9423024--9423087 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 15
9423014 CTTAAAATCA
*
9423024 AATTAATTAATATTTT
1 AATTAATTAAT-TATT
9423040 AATT-ATTAATTAAATT
1 AATTAATTAATT--ATT
*
9423056 AATTATTTTAATTATT
1 AATTA-ATTAATTATT
9423072 AATTAAATTAATTATT
1 AATT-AATTAATTATT
9423088 TTAGAAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 1 0.03
15 6 0.15
16 26 0.65
17 1 0.03
18 6 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTAATTAATTATT
Found at i:9424139 original size:2 final size:2
Alignment explanation
Indices: 9424134--9424167 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9424124 TAGGTTATGA
9424134 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9424168 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9427251 original size:218 final size:218
Alignment explanation
Indices: 9426873--9427313 Score: 873
Period size: 218 Copynumber: 2.0 Consensus size: 218
9426863 AGAAAACAGA
9426873 GACCCTCAATTATGGGTGCCAATGTTATCTCAACCATTTGATCATTTCATAGCACCATCATTCTA
1 GACCCTCAATTATGGGTGCCAATGTTATCTCAACCATTTGATCATTTCATAGCACCATCATTCTA
9426938 AATAGTAGATATCAAAAAGTACAACATTGTTTTCTATTTGTTGTATTTACACAGTCTAATCAAAT
66 AATAGTAGATATCAAAAAGTACAACATTGTTTTCTATTTGTTGTATTTACACAGTCTAATCAAAT
9427003 AGAATGCTAGCTTCCTCCCATATAAGACATTCAGACCTGCAAATGCAGCAGAAGTATAGGACTAA
131 AGAATGCTAGCTTCCTCCCATATAAGACATTCAGACCTGCAAATGCAGCAGAAGTATAGGACTAA
9427068 TATAAAGTGCAAGCTAAATTACT
196 TATAAAGTGCAAGCTAAATTACT
*
9427091 GACCCTCAATTATGGGTGTCAATGTTATCTCAACCATTTGATCATTTCATAGCACCATCATTCTA
1 GACCCTCAATTATGGGTGCCAATGTTATCTCAACCATTTGATCATTTCATAGCACCATCATTCTA
9427156 AATAGTAGATATCAAAAAGTACAACATTGTTTTCTATTTGTTGTATTTACACAGTCTAATCAAAT
66 AATAGTAGATATCAAAAAGTACAACATTGTTTTCTATTTGTTGTATTTACACAGTCTAATCAAAT
9427221 AGAATGCTAGCTTCCTCCCATATAAGACATTCAGACCTGCAAATGCAGCAGAAGTATAGGACTAA
131 AGAATGCTAGCTTCCTCCCATATAAGACATTCAGACCTGCAAATGCAGCAGAAGTATAGGACTAA
9427286 TATAAAGTGCAAGCTAAATTACT
196 TATAAAGTGCAAGCTAAATTACT
9427309 GACCC
1 GACCC
9427314 CCTTCTGGTC
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
218 222 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (218 bp):
GACCCTCAATTATGGGTGCCAATGTTATCTCAACCATTTGATCATTTCATAGCACCATCATTCTA
AATAGTAGATATCAAAAAGTACAACATTGTTTTCTATTTGTTGTATTTACACAGTCTAATCAAAT
AGAATGCTAGCTTCCTCCCATATAAGACATTCAGACCTGCAAATGCAGCAGAAGTATAGGACTAA
TATAAAGTGCAAGCTAAATTACT
Found at i:9429371 original size:24 final size:24
Alignment explanation
Indices: 9429343--9429407 Score: 121
Period size: 24 Copynumber: 2.7 Consensus size: 24
9429333 TTTAATAAAT
9429343 ATAACAGATAAACAAATAGTATAC
1 ATAACAGATAAACAAATAGTATAC
*
9429367 ATAACAGATAAACAAATAGTATAT
1 ATAACAGATAAACAAATAGTATAC
9429391 ATAACAGATAAACAAAT
1 ATAACAGATAAACAAAT
9429408 CGTAGTATAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.60, C:0.11, G:0.08, T:0.22
Consensus pattern (24 bp):
ATAACAGATAAACAAATAGTATAC
Found at i:9429425 original size:23 final size:24
Alignment explanation
Indices: 9429345--9429429 Score: 111
Period size: 24 Copynumber: 3.6 Consensus size: 24
9429335 TAATAAATAT
* *
9429345 AACAGATAAACAAATAGTATACAT
1 AACAGATAAACAAATAGTATATAC
*
9429369 AACAGATAAACAAATAGTATATAT
1 AACAGATAAACAAATAGTATATAC
*
9429393 AACAGATAAACAAATCGTAGTATAC
1 AACAGATAAACAAATAGTA-TATAC
9429418 AA-AG-TAAACAAA
1 AACAGATAAACAAA
9429430 ATGCAAACAA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 8 0.14
24 43 0.75
25 6 0.11
ACGTcount: A:0.59, C:0.12, G:0.09, T:0.20
Consensus pattern (24 bp):
AACAGATAAACAAATAGTATATAC
Found at i:9436070 original size:20 final size:19
Alignment explanation
Indices: 9436045--9436130 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 19
9436035 TTTTGGTGCA
*
9436045 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCC-T
*
9436065 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATACCCCC--T
*
9436086 GAAGGGGAACCGATTCCCCCT
1 G-A-GGGAACCGATACCCCCT
*
9436107 -AGGGGAATCGATACCCCCT
1 GA-GGGAACCGATACCCCCT
9436126 GAGGG
1 GAGGG
9436131 TTCTGGTTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
19 20 0.35
20 17 0.30
21 3 0.05
22 1 0.02
23 16 0.28
ACGTcount: A:0.24, C:0.30, G:0.29, T:0.16
Consensus pattern (19 bp):
GAGGGAACCGATACCCCCT
Found at i:9436112 original size:19 final size:20
Alignment explanation
Indices: 9436047--9436130 Score: 82
Period size: 20 Copynumber: 4.1 Consensus size: 20
9436037 TTGGTGCAGA
* *
9436047 GGGAATCGATACCCCCATGA-
1 GGGAACCGATTCCCCC-TGAG
9436067 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCC--TG-AG
9436090 GGGAACCGATTCCCCCT-AG
1 GGGAACCGATTCCCCCTGAG
* *
9436109 GGGAATCGATACCCCCTGAG
1 GGGAACCGATTCCCCCTGAG
9436129 GG
1 GG
9436131 TTCTGGTTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
19 17 0.31
20 18 0.33
21 3 0.05
22 1 0.02
23 16 0.29
ACGTcount: A:0.24, C:0.31, G:0.29, T:0.17
Consensus pattern (20 bp):
GGGAACCGATTCCCCCTGAG
Found at i:9438877 original size:18 final size:19
Alignment explanation
Indices: 9438854--9438892 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
9438844 GAATTTTACA
9438854 CTTAA-GGAACCGATTCCC
1 CTTAAGGGAACCGATTCCC
*
9438872 CTTAAGGGGTACCGATTCCC
1 CTTAA-GGGAACCGATTCCC
9438892 C
1 C
9438893 CCACGCTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (19 bp):
CTTAAGGGAACCGATTCCC
Found at i:9439980 original size:31 final size:31
Alignment explanation
Indices: 9439944--9440003 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
9439934 AACTTAAAAG
* *
9439944 AGTTTTTCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
9439975 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
9440004 CATACAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:9440483 original size:20 final size:20
Alignment explanation
Indices: 9440435--9440496 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
9440425 AACTTAAATC
*
9440435 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
9440455 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
9440473 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
9440492 AAAAT
1 AAAAT
9440497 TAATATCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:9440500 original size:20 final size:20
Alignment explanation
Indices: 9440469--9440519 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
9440459 TTTTAATAAT
* *
9440469 ATATAAAA-TAATTTATATG
1 ATATAAAATTAATATATATA
*
9440488 ATATAAAATTAATATCTATA
1 ATATAAAATTAATATATATA
*
9440508 ATATAATATTAA
1 ATATAAAATTAA
9440520 AAAAGTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
ATATAAAATTAATATATATA
Found at i:9440552 original size:24 final size:27
Alignment explanation
Indices: 9440492--9440566 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 27
9440482 TATATGATAT
9440492 AAAATTAATATCTATAATATAATATTAA
1 AAAATTAATAT-TATAATATAATATTAA
* *
9440520 AAAAGTAATATT-TAAT-TTAT-TTAA
1 AAAATTAATATTATAATATAATATTAA
*
9440544 AAAATTAATATTAAAAT-TAATAT
1 AAAATTAATATTATAATATAATAT
9440567 CTATAATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 15 0.38
25 9 0.22
26 5 0.12
27 1 0.03
28 10 0.25
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (27 bp):
AAAATTAATATTATAATATAATATTAA
Found at i:9440564 original size:64 final size:63
Alignment explanation
Indices: 9440491--9440617 Score: 236
Period size: 64 Copynumber: 2.0 Consensus size: 63
9440481 TTATATGATA
9440491 TAAAATTAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTT-AAAAATTAATAT
*
9440555 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAATTAATAT
9440618 CTATAATATA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
63 12 0.19
64 50 0.81
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (63 bp):
TAAAATTAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAATTAATAT
Found at i:9440619 original size:51 final size:51
Alignment explanation
Indices: 9440556--9440680 Score: 202
Period size: 51 Copynumber: 2.5 Consensus size: 51
9440546 AATTAATATT
*
9440556 AAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTT-A
1 AAAATTAATATCTATAATATAAAATT-AAAAATTAATATTTAATTTATTTAA
9440607 AAAATTAATATCTATAATATAAAATTAAAAATTAATATTTAATTTATTTAA
1 AAAATTAATATCTATAATATAAAATTAAAAATTAATATTTAATTTATTTAA
*
9440658 AAAATTAATAT-TAAAAT-TAAAAT
1 AAAATTAATATCTATAATATAAAAT
9440681 CAAATATAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
49 6 0.08
50 28 0.39
51 37 0.52
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (51 bp):
AAAATTAATATCTATAATATAAAATTAAAAATTAATATTTAATTTATTTAA
Found at i:9440642 original size:27 final size:27
Alignment explanation
Indices: 9440556--9440644 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
9440546 AATTAATATT
*
9440556 AAAATTAATATCTATAATATAATATTAA
1 AAAATTAATATCTATAATATAAAATT-A
* *
9440584 AAAATTAATAT-T-TAAT-T-TATTTA
1 AAAATTAATATCTATAATATAAAATTA
9440607 AAAATTAATATCTATAATATAAAATTA
1 AAAATTAATATCTATAATATAAAATTA
9440634 AAAATTAATAT
1 AAAATTAATAT
9440645 TTAATTTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
23 12 0.23
24 3 0.06
25 5 0.10
26 5 0.10
27 16 0.31
28 11 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
AAAATTAATATCTATAATATAAAATTA
Found at i:9440643 original size:64 final size:64
Alignment explanation
Indices: 9440491--9440645 Score: 208
Period size: 64 Copynumber: 2.4 Consensus size: 64
9440481 TTATATGATA
* *
9440491 TAAAATTAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAAAATCTAAAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
* * *
9440555 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTT-AAAAATTAATAT
1 TAAAATTAAAATCTAAAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
*
9440618 CTATAATATAAAAT-TAAAA-ATTAATATT
1 -TAAAAT-TAAAATCTAAAATA-TAATATT
9440646 TAATTTATTT
Statistics
Matches: 84, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
63 13 0.15
64 66 0.79
65 5 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.43
Consensus pattern (64 bp):
TAAAATTAAAATCTAAAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:9440643 original size:114 final size:112
Alignment explanation
Indices: 9440492--9440696 Score: 349
Period size: 114 Copynumber: 1.8 Consensus size: 112
9440482 TATATGATAT
*
9440492 AAAATTAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATATTA
1 AAAATTAATATCTATAATATAAAATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATATTA
*
9440557 AAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTA
66 AAATTAAAATC-A-AATATAATA-TAAAAAATTAATATTTAATTTATTTA
*
9440607 AAAATTAATATCTATAATATAAAATT-AAAAATTAATATTTAATTTATTTAAAAAATTAATATTA
1 AAAATTAATATCTATAATATAAAATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATATTA
9440671 AAATTAAAATCAAATATAATATAAAA
66 AAATTAAAATCAAATATAATATAAAA
9440697 TTAAATATAA
Statistics
Matches: 87, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
111 5 0.06
112 9 0.10
113 1 0.01
114 47 0.54
115 25 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (112 bp):
AAAATTAATATCTATAATATAAAATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAATATTA
AAATTAAAATCAAATATAATATAAAAAATTAATATTTAATTTATTTA
Found at i:9440671 original size:23 final size:23
Alignment explanation
Indices: 9440578--9440669 Score: 112
Period size: 23 Copynumber: 3.8 Consensus size: 23
9440568 TATAATATAA
*
9440578 TATTAAAAAATTAATATTTAATT
1 TATTTAAAAATTAATATTTAATT
9440601 TATTTAAAAATTAATATCTATAATAT
1 TATTTAAAAATTAATAT-T-TAAT-T
* *
9440627 AAAATTAAAAATTAATATTTAATT
1 -TATTTAAAAATTAATATTTAATT
9440651 TATTTAAAAAATTAATATT
1 TATTT-AAAAATTAATATT
9440670 AAAATTAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
23 19 0.32
24 15 0.25
25 8 0.14
26 2 0.03
27 15 0.25
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (23 bp):
TATTTAAAAATTAATATTTAATT
Found at i:9440703 original size:12 final size:12
Alignment explanation
Indices: 9440658--9440708 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
9440648 ATTTATTTAA
9440658 AAAATT-AATATT
1 AAAATTAAATA-T
9440670 AAAATTAAA-AT
1 AAAATTAAATAT
*
9440681 CAAA-TATAATAT
1 AAAATTA-AATAT
9440693 AAAATTAAATAT
1 AAAATTAAATAT
9440705 AAAA
1 AAAA
9440709 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 21 0.64
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:9442918 original size:16 final size:15
Alignment explanation
Indices: 9442897--9442935 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
9442887 ATTAAATGCC
*
9442897 TTGGATTTGACGAGAT
1 TTGGATTTG-CCAGAT
9442913 TTGGATTTTGCCAGAT
1 TTGGA-TTTGCCAGAT
9442929 TTGGATT
1 TTGGATT
9442936 CGGCTCGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 15 0.71
17 4 0.19
ACGTcount: A:0.21, C:0.08, G:0.28, T:0.44
Consensus pattern (15 bp):
TTGGATTTGCCAGAT
Found at i:9443793 original size:220 final size:220
Alignment explanation
Indices: 9443357--9443800 Score: 694
Period size: 220 Copynumber: 2.0 Consensus size: 220
9443347 TTTTATTATT
* *
9443357 TCGGGTCGGGTTCGGGTTTAGAGTAAAAAAACCGGATCGACCCGAAAATATATATAATTCAGGTC
1 TCGGGTCGGGTTCGGGTTTAGAGTAAAAAAACCGAACCGACCCGAAAATATATATAATTCAGGTC
* *
9443422 GGGTCGGATTAAGTCACTGTTTTTATTAAATAAAATTTTTTTTATTACTTCGGGTCAGGTCGGGT
66 GGGTCGAATTAAGTCACTGTTTTTATTAAATAAAATATTTTTTATTACTT---GTCAGGTCGGGT
* * ** *
9443487 TGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTTGGGTCGGGTCGG
128 CGGATTTCTAATTCATATATTCGGGTCGGGTCGAATGAAACTTTATTTTGTTCAGGTCGGGTCGA
*
9443552 GTTTTTTAAGTGTGATATTCGGGTTGGG
193 GTTTTTTAAGTGTGATATTCGGGTCGGG
* * **
9443580 TCGGGTCGGGTTCGGGTTTAGGGTGAAAAAACCGAACCGACCCGAAAATATATATAATTTGGGTC
1 TCGGGTCGGGTTCGGGTTTAGAGTAAAAAAACCGAACCGACCCGAAAATATATATAATTCAGGTC
*
9443645 GGGTCGAATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTA-TT-TCGGGTCGGGTC
66 GGGTCGAATTAAGTCACTGTTTTTATTAAAT-AAAAT-ATTTTTTATTACTTGTCAGGTCGGGTC
9443708 GGATTTCTAATTCATATATTCGGGTCGGGTCGAATGAAACTTTATTTTGTTCAGGTCGGGTCGAG
129 GGATTTCTAATTCATATATTCGGGTCGGGTCGAATGAAACTTTATTTTGTTCAGGTCGGGTCGAG
9443773 TTTTTTAAGTGTGATATTCGGGTCGGG
194 TTTTTTAAGTGTGATATTCGGGTCGGG
9443800 T
1 T
9443801 TTTTTAAGTG
Statistics
Matches: 204, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
220 98 0.48
223 89 0.44
224 7 0.03
225 10 0.05
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (220 bp):
TCGGGTCGGGTTCGGGTTTAGAGTAAAAAAACCGAACCGACCCGAAAATATATATAATTCAGGTC
GGGTCGAATTAAGTCACTGTTTTTATTAAATAAAATATTTTTTATTACTTGTCAGGTCGGGTCGG
ATTTCTAATTCATATATTCGGGTCGGGTCGAATGAAACTTTATTTTGTTCAGGTCGGGTCGAGTT
TTTTAAGTGTGATATTCGGGTCGGG
Found at i:9443830 original size:30 final size:27
Alignment explanation
Indices: 9443763--9443819 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
9443753 TTTGTTCAGG
*
9443763 TCGGGTCGAGTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTAAGTGTGATAT
9443790 TCGGGTCGGGTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTAAGTGTGATAT
9443817 TCG
1 TCG
9443820 TCAGGTCGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.16, C:0.09, G:0.32, T:0.44
Consensus pattern (27 bp):
TCGGGTCGGGTTTTTTAAGTGTGATAT
Found at i:9444286 original size:19 final size:19
Alignment explanation
Indices: 9444262--9444306 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
9444252 GTAAGTTGTA
*
9444262 AAATAAACGAAAATAAAGC
1 AAATAAAAGAAAATAAAGC
*
9444281 AAATAAAATAAAATAAAGC
1 AAATAAAAGAAAATAAAGC
9444300 AAA-AAAA
1 AAATAAAA
9444307 TAAGAAGGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.11
Consensus pattern (19 bp):
AAATAAAAGAAAATAAAGC
Found at i:9444476 original size:18 final size:16
Alignment explanation
Indices: 9444433--9444478 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
9444423 TATGGAATTG
9444433 GATTCTAATTCCTACA
1 GATTCTAATTCCTACA
* *
9444449 TATTCCAATTCCTTCACA
1 GATTCTAATTCC-T-ACA
9444467 GATTCTAATTCC
1 GATTCTAATTCC
9444479 CTCATAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 10 0.42
17 1 0.04
18 13 0.54
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.39
Consensus pattern (16 bp):
GATTCTAATTCCTACA
Found at i:9445514 original size:21 final size:21
Alignment explanation
Indices: 9445463--9445515 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
9445453 ATTATTACTA
9445463 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
***
9445484 TCGTGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
9445505 TCGCAATGCGA
1 TCGCAATGCGA
9445516 ATAAGTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:9445530 original size:20 final size:21
Alignment explanation
Indices: 9445505--9445556 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
9445495 TTTTCCCAAT
*
9445505 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
9445525 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
9445546 TCGCAATGCGA
1 TCGCAATGCGA
9445557 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:9445570 original size:20 final size:20
Alignment explanation
Indices: 9445545--9445598 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
9445535 AATTTGGAAA
*
9445545 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
9445565 ATCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
9445585 TTCGCAACGAGATA
1 ATCGCAACGCGATA
9445599 ATACATAATC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:9445821 original size:22 final size:22
Alignment explanation
Indices: 9445786--9445829 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9445776 ACTCTCTCAC
9445786 CCATCTCCGACGAAATCCGTCT
1 CCATCTCCGACGAAATCCGTCT
* *
9445808 CCATCTTCGGCGAAATCCGTCT
1 CCATCTCCGACGAAATCCGTCT
9445830 ATCTCCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.39, G:0.16, T:0.25
Consensus pattern (22 bp):
CCATCTCCGACGAAATCCGTCT
Found at i:9446140 original size:20 final size:20
Alignment explanation
Indices: 9446091--9446149 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
9446081 TTTATTCTCT
* **
9446091 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
9446111 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
9446131 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
9446150 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:9446340 original size:25 final size:24
Alignment explanation
Indices: 9446286--9446340 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
9446276 TGTTTATTAT
* *
9446286 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
9446310 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
9446336 TGTTT
1 TGTTT
9446341 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:9447497 original size:18 final size:18
Alignment explanation
Indices: 9447469--9447516 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
9447459 TCCACTTCGG
9447469 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
9447487 GA-CCTATCACCTCACCCA
1 GAGCC-ATCACCTCACCCA
9447505 GAGCCATCACCT
1 GAGCCATCACCT
9447517 GATCGACCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.07
18 24 0.86
19 2 0.07
ACGTcount: A:0.27, C:0.48, G:0.10, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:9448066 original size:21 final size:20
Alignment explanation
Indices: 9448014--9448074 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
9448004 GACTCACCTG
9448014 TCATCCCTCAAGAGTCCCCT
1 TCATCCCTCAAGAGTCCCCT
* ** *
9448034 CCAATCGTTCAAGAGGCCCCT
1 TC-ATCCCTCAAGAGTCCCCT
9448055 ATCATCCCTCAAGAGTCCCC
1 -TCATCCCTCAAGAGTCCCC
9448075 CCACCGTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.23, C:0.43, G:0.13, T:0.21
Consensus pattern (20 bp):
TCATCCCTCAAGAGTCCCCT
Found at i:9448100 original size:40 final size:42
Alignment explanation
Indices: 9448011--9448100 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
9448001 CCTGACTCAC
* *
9448011 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
* *
9448053 CTATCATCCCTCAAGAGTCCCC-CC-ACCGTTTAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
9448093 CTGTCATC
1 CTGTCATC
9448101 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 20 0.47
41 2 0.05
42 21 0.49
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:9448109 original size:40 final size:40
Alignment explanation
Indices: 9448014--9448100 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
9448004 GACTCACCTG
* *
9448014 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CC-ACCGTTCAAGAGGCCACTA
* *
9448056 TCATCCCTCAAGAGTCCCCCCACCGTTTAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCACCGTTCAAGAGGCCACTA
9448096 TCATC
1 TCATC
9448101 GTTGAAGAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 20 0.49
41 2 0.05
42 19 0.46
ACGTcount: A:0.23, C:0.40, G:0.15, T:0.22
Consensus pattern (40 bp):
TCATCCCTCAAGAGTCCCCCCACCGTTCAAGAGGCCACTA
Found at i:9449543 original size:14 final size:14
Alignment explanation
Indices: 9449509--9449547 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
9449499 TTGATTGTTT
9449509 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
9449523 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
9449537 TGTTGATTTGT
1 AATTGATTTGT
9449548 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:9449713 original size:19 final size:19
Alignment explanation
Indices: 9449689--9449788 Score: 94
Period size: 19 Copynumber: 5.6 Consensus size: 19
9449679 AACGAGAGAT
9449689 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
9449708 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
9449727 TCGCAA--CG--A-GAAAA
1 TCGCAATGCGAAATGAAAA
9449741 TCGCAATGCGATTGAAATGAAAA
1 TCGCAATGC----GAAATGAAAA
9449764 TCGCAA--CG--A-GAAAA
1 TCGCAATGCGAAATGAAAA
9449778 TCGCAATGCGA
1 TCGCAATGCGA
9449789 TTTTCATTTC
Statistics
Matches: 69, Mismatches: 0, Indels: 26
0.73 0.00 0.27
Matches are distributed among these distances:
14 22 0.32
15 2 0.03
16 3 0.04
17 3 0.04
19 25 0.36
20 1 0.01
21 1 0.01
22 1 0.01
23 11 0.16
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:9449767 original size:37 final size:37
Alignment explanation
Indices: 9449703--9449790 Score: 148
Period size: 37 Copynumber: 2.5 Consensus size: 37
9449693 AATGCGAAAT
9449703 GAAAATCGCAATGC----GAAATGAAAATCGCAACGA
1 GAAAATCGCAATGCGATTGAAATGAAAATCGCAACGA
9449736 GAAAATCGCAATGCGATTGAAATGAAAATCGCAACGA
1 GAAAATCGCAATGCGATTGAAATGAAAATCGCAACGA
9449773 GAAAATCGCAATGCGATT
1 GAAAATCGCAATGCGATT
9449791 TTCATTTCGC
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
33 14 0.27
37 37 0.73
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (37 bp):
GAAAATCGCAATGCGATTGAAATGAAAATCGCAACGA
Found at i:9449820 original size:20 final size:20
Alignment explanation
Indices: 9449795--9449848 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
9449785 GCGATTTTCA
9449795 TTTCGCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
9449815 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGCCAT
9449835 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
9449849 TTCCCCGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.13, C:0.22, G:0.26, T:0.39
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:9450089 original size:21 final size:21
Alignment explanation
Indices: 9450042--9450090 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
9450032 TTACTATCGT
9450042 AATGCGATTTTCCAATTTCGC
1 AATGCGATTTTCCAATTTCGC
** *
9450063 GTTGCGGTTTTCCCAATTT-GC
1 AATGCGATTTT-CCAATTTCGC
9450084 AATGCGA
1 AATGCGA
9450091 ATAAGTAAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (21 bp):
AATGCGATTTTCCAATTTCGC
Found at i:9450107 original size:20 final size:21
Alignment explanation
Indices: 9450082--9450193 Score: 79
Period size: 21 Copynumber: 5.4 Consensus size: 21
9450072 TTCCCAATTT
*
9450082 GCAATGCGAA-TAAGTAAATC
1 GCAATGCGAATTAAGAAAATC
**
9450102 GCAATGCGAATTTGGAAAATC
1 GCAATGCGAATTAAGAAAATC
* **
9450123 GCAATGCG-A-TACTGACTATC
1 GCAATGCGAATTA-AGAAAATC
* * *
9450143 GCAACGCG-ATAATACAAAATC
1 GCAATGCGAATTA-AGAAAATC
**
9450164 GCAATGCGAATTTGGAAAATC
1 GCAATGCGAATTAAGAAAATC
9450185 GCAATGCGA
1 GCAATGCGA
9450194 TACTGACTAT
Statistics
Matches: 69, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
19 1 0.01
20 24 0.35
21 42 0.61
22 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (21 bp):
GCAATGCGAATTAAGAAAATC
Found at i:9450123 original size:21 final size:22
Alignment explanation
Indices: 9450097--9450193 Score: 96
Period size: 21 Copynumber: 4.6 Consensus size: 22
9450087 GCGAATAAGT
9450097 AAATCGCAATGCGAAT-TTGGA
1 AAATCGCAATGCGAATATTGGA
*
9450118 AAATCGCAATGCG-ATACT-GA
1 AAATCGCAATGCGAATATTGGA
** * * **
9450138 CTATCGCAACGCG-ATAATACA
1 AAATCGCAATGCGAATATTGGA
9450159 AAATCGCAATGCGAAT-TTGGA
1 AAATCGCAATGCGAATATTGGA
9450180 AAATCGCAATGCGA
1 AAATCGCAATGCGA
9450194 TACTGACTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
20 18 0.30
21 41 0.67
22 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (22 bp):
AAATCGCAATGCGAATATTGGA
Found at i:9450171 original size:62 final size:62
Alignment explanation
Indices: 9450097--9450295 Score: 267
Period size: 62 Copynumber: 3.2 Consensus size: 62
9450087 GCGAATAAGT
9450097 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
1 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
*
9450159 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATGCA
1 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
* * *** * * * **
9450221 AAATCGCAACGCG-ATACT-GACTTTCACAACGCGATACTGACTTTCGCAATACGATAATACA
1 AAATCGCAATGCGAAT-TTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
*
9450282 GAATCGCAATGCGA
1 AAATCGCAATGCGA
9450296 TTTTCAAAGT
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
61 47 0.39
62 74 0.61
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (62 bp):
AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
Found at i:9450206 original size:41 final size:41
Alignment explanation
Indices: 9450179--9450256 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
9450169 GCGAATTTGG
*
9450179 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATGC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATGC
* *
9450220 AAAATCGCAACGCGATACTGACTTTCACAACGCGATA
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATA
9450257 CTGACTTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATGC
Found at i:9450207 original size:20 final size:20
Alignment explanation
Indices: 9450182--9450269 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
9450172 AATTTGGAAA
*
9450182 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* **
9450202 ATCGCAACGCGATAATGCAAA
1 ATCGCAACGCGATACTG-ACT
9450223 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
9450243 TTCACAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
9450263 TTCGCAA
1 ATCGCAA
9450270 TACGATAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 40 0.70
21 17 0.30
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:9450228 original size:21 final size:20
Alignment explanation
Indices: 9450116--9450236 Score: 100
Period size: 21 Copynumber: 5.9 Consensus size: 20
9450106 TGCGAATTTG
* *
9450116 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGCGATAAT
**
9450136 GACTATCGCAACGCGATAAT
1 GAAAATCGCAACGCGATAAT
* * *
9450156 ACAAAATCGCAATGCGA-ATTT
1 -GAAAATCGCAACGCGATA-AT
* *
9450177 GGAAAATCGCAATGCGATACT
1 -GAAAATCGCAACGCGATAAT
**
9450198 GACTATCGCAACGCGATAAT
1 GAAAATCGCAACGCGATAAT
9450218 GCAAAATCGCAACGCGATA
1 G-AAAATCGCAACGCGATA
9450237 CTGACTTTCA
Statistics
Matches: 79, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
20 34 0.43
21 44 0.56
22 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (20 bp):
GAAAATCGCAACGCGATAAT
Found at i:9450275 original size:20 final size:20
Alignment explanation
Indices: 9450227--9450276 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
9450217 TGCAAAATCG
*
9450227 CAACGCGATACTGACTTTCA
1 CAACACGATACTGACTTTCA
* *
9450247 CAACGCGATACTGACTTTCG
1 CAACACGATACTGACTTTCA
*
9450267 CAATACGATA
1 CAACACGATA
9450277 ATACAGAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (20 bp):
CAACACGATACTGACTTTCA
Found at i:9451042 original size:24 final size:24
Alignment explanation
Indices: 9451015--9451068 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
9451005 GTATTCGAAA
*
9451015 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
9451039 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
9451063 TTTGAT
1 TTTGAT
9451069 GATGTTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:9453596 original size:20 final size:19
Alignment explanation
Indices: 9453568--9453622 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
9453558 CAATCATCTT
* *
9453568 AATGTCTATCGTAACGCGGA
1 AATGACTATCGCAACGC-GA
*
9453588 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
9453607 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
9453623 AGAGAATCGC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:9453610 original size:19 final size:17
Alignment explanation
Indices: 9453595--9453645 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
9453585 GGAAATGACT
9453595 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
9453614 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
9453628 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
9453645 A
1 A
9453646 AATTGCAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.30
16 5 0.19
17 7 0.26
19 7 0.26
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:9453637 original size:33 final size:33
Alignment explanation
Indices: 9453595--9453687 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
9453585 GGAAATGACT
9453595 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
9453628 ATCGCAATGCGAAATGAAAATTGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
9453661 ATCGCAAAGCGAAATGAAAATCGCAAC
1 ATCGCAATGCGAAATGAAAATCGCAAC
9453688 ACGAATTTAG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:9453684 original size:19 final size:19
Alignment explanation
Indices: 9453595--9453686 Score: 60
Period size: 19 Copynumber: 5.4 Consensus size: 19
9453585 GGAAATGACT
*
9453595 ATCGCAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
*
9453614 ATCGC-AA-CG--A-GAGA
1 ATCGCAAAGCGAAATGAAA
*
9453628 ATCGCAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
* **
9453647 ATTGC-AA-CG--A-GGGA
1 ATCGCAAAGCGAAATGAAA
9453661 ATCGCAAAGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
9453680 ATCGCAA
1 ATCGCAA
9453687 CACGAATTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 20
0.63 0.13 0.24
Matches are distributed among these distances:
14 14 0.27
15 5 0.10
16 4 0.08
17 4 0.08
18 4 0.08
19 21 0.40
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (19 bp):
ATCGCAAAGCGAAATGAAA
Found at i:9455308 original size:21 final size:21
Alignment explanation
Indices: 9455242--9455308 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
9455232 GTGAATCGGG
*
9455242 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
9455262 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
9455284 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
9455305 CTCT
1 CTCT
9455309 CGAGGAAAGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:9457574 original size:20 final size:20
Alignment explanation
Indices: 9457549--9457630 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
9457539 TTTTGGTTGA
9457549 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
* *
9457569 AATGAAAATTGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
9457588 AAATGACTATCGCAAC-ACGA-
1 -AATGAAAATCGCAACGA-GAG
9457608 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
9457628 AAT
1 AAT
9457631 CGTAACGCGA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.33
20 33 0.67
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:9457591 original size:40 final size:39
Alignment explanation
Indices: 9457547--9457623 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
9457537 TCTTTTGGTT
*
9457547 GAAATGAAAATCGCAACGA-GAGAATGAAAATTGCAACGCG
1 GAAATGAAAATCGCAAC-ACGA-AATGAAAATCGCAACGCG
**
9457587 GAAATGACTATCGCAACACGAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACACGAAATGAAAATCGCAACG
9457624 AGAGAATCGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 16 0.48
40 17 0.52
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (39 bp):
GAAATGAAAATCGCAACACGAAATGAAAATCGCAACGCG
Done.