Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 62
Found at i:850747 original size:31 final size:32
Alignment explanation
Indices: 850680--850751 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
850670 ATGTGAAGTA
* *
850680 TGTCATATTATTACTTTGATACATATAGTATG
1 TGTCATATTATCACTTTGAGACATATAGTATG
*
850712 TGTCATATTATCACTTT-AGACATATGAG-ATT
1 TGTCATATTATCACTTTGAGACATAT-AGTATG
850743 TGTCATATT
1 TGTCATATT
850752 TACGACAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 18 0.50
32 18 0.50
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (32 bp):
TGTCATATTATCACTTTGAGACATATAGTATG
Found at i:851645 original size:18 final size:17
Alignment explanation
Indices: 851622--851670 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
851612 AAATTGTCCT
*
851622 TATTATATATTTGTATAA
1 TATTATATATTT-TAAAA
*
851640 TATTATAAATTTTAAAA
1 TATTATATATTTTAAAA
851657 TATTTATATATTTT
1 TA-TTATATATTTT
851671 CTTTAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTATATATTTTAAAA
Found at i:852280 original size:3 final size:3
Alignment explanation
Indices: 852272--852296 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
852262 CCCGACCTGA
852272 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
852297 TTTTTATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:854934 original size:21 final size:21
Alignment explanation
Indices: 854908--854960 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
854898 GTTTCCAGAT
854908 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
854929 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
*
854950 TCGCAATGCGA
1 TCGCAACGCGA
854961 TTTTCCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:855050 original size:42 final size:42
Alignment explanation
Indices: 854987--855181 Score: 354
Period size: 42 Copynumber: 4.6 Consensus size: 42
854977 CGATAGTCCA
*
854987 ATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGTG
1 ATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCG
* *
855029 ATTTATTCAAAGTTCGGTGCGATAGTCGAAGTTCGCGTTGCG
1 ATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCG
*
855071 ATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCG
1 ATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCG
855113 ATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCG
1 ATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCG
855155 ATTTATTCCAAGTTCGTTGCGATAGTC
1 ATTTATTCCAAGTTCGTTGCGATAGTC
855182 CAAAATCACA
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 146 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (42 bp):
ATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCG
Found at i:855284 original size:6 final size:6
Alignment explanation
Indices: 855273--855305 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
855263 GACACGTATT
*
855273 ACCACG ACCACG ATCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
855306 CGAGACGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.33, C:0.48, G:0.15, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:856075 original size:21 final size:21
Alignment explanation
Indices: 856046--856142 Score: 101
Period size: 21 Copynumber: 4.6 Consensus size: 21
856036 TTTGGAATAA
856046 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * *
856067 ATCG-AA-ACGAA-TTTGTAAT
1 ATCGCAACGCGAACTTCG-ACT
856086 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
*
856109 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
*
856130 ATCGCAATGCGAA
1 ATCGCAACGCGAA
856143 TATGTAAATC
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
18 3 0.05
19 6 0.10
20 2 0.03
21 40 0.65
22 2 0.03
23 6 0.10
24 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:856091 original size:42 final size:42
Alignment explanation
Indices: 856032--856117 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
856022 CCAGTCGTTG
856032 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGAAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGAAA
* *
856074 CGAATTTGTAATAAATCGCAACGCGAACTTCGACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGAAA
856116 CG
1 CG
856118 CGAACTTGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (42 bp):
CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGAAA
Found at i:856134 original size:42 final size:41
Alignment explanation
Indices: 856032--856142 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 41
856022 CCAGTCGTTG
*
856032 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGAAA
1 CGAACTTGGAAT-AATCGCAACGCGAACTTCGACTATCGAAA
* * *
856074 CGAATTTGTAATAAATCGCAACGCGAACTTCGACTATCGCAACG
1 CGAACTTGGAAT-AATCGCAACGCGAACTTCGACTATCG-AA-A
* *
856118 CGAACTTGGACT-ATCGCAATGCGAA
1 CGAACTTGGAATAATCGCAACGCGAA
856143 TATGTAAATC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 50 0.82
43 2 0.03
44 9 0.15
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (41 bp):
CGAACTTGGAATAATCGCAACGCGAACTTCGACTATCGAAA
Found at i:873286 original size:21 final size:21
Alignment explanation
Indices: 873257--873297 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
873247 TACTTGAATA
*
873257 TATTATATTATGTTTAATTTT
1 TATTATATTATGTATAATTTT
* *
873278 TATTTTATTGTGTATAATTT
1 TATTATATTATGTATAATTT
873298 ACAATAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (21 bp):
TATTATATTATGTATAATTTT
Found at i:877359 original size:41 final size:41
Alignment explanation
Indices: 877302--877386 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
877292 CTTTCATACC
877302 AACCACACCGACTTGGCTTGAGAAGTGTCAAATTCCATGTT
1 AACCACACCGACTTGGCTTGAGAAGTGTCAAATTCCATGTT
* *
877343 AACCACACGGACTTGGCTTGGGAAGTGTCAAATTCCATGTT
1 AACCACACCGACTTGGCTTGAGAAGTGTCAAATTCCATGTT
877384 AAC
1 AAC
877387 TTATCAAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (41 bp):
AACCACACCGACTTGGCTTGAGAAGTGTCAAATTCCATGTT
Found at i:881978 original size:2 final size:2
Alignment explanation
Indices: 881962--882002 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
881952 AGACCTAGGT
* *
881962 TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
882003 TCATACACAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:886286 original size:31 final size:31
Alignment explanation
Indices: 886248--886320 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
886238 CTATAAAATG
*
886248 ATCCCTCGATTATATAATATTGTTTTATTGA
1 ATCCCTCGACTATATAATATTGTTTTATTGA
*
886279 ATCCCTCGACTATATAGTATTGTTTTATTGA
1 ATCCCTCGACTATATAATATTGTTTTATTGA
886310 ATCCCTCGACT
1 ATCCCTCGACT
886321 GTTAAAAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (31 bp):
ATCCCTCGACTATATAATATTGTTTTATTGA
Found at i:892990 original size:60 final size:60
Alignment explanation
Indices: 892883--893040 Score: 142
Period size: 60 Copynumber: 2.6 Consensus size: 60
892873 TTAAACTATT
* * ** * * * *
892883 ATCTTCATTCTAAATTGGTCTTTAAATTTTTGAATATT-TCAATTTCATCCCCAAAATATA
1 ATCTTCATTGTAAATTAGTCTCAAAACTTTTGAACATTCTTAA-TTCATACCCAAAATATA
* * * *
892943 A-CTT-ATTTTTAAATTGATTCTCAAAACTTTTGAACATTCTTAATTCATACTCAAACTATA
1 ATCTTCA-TTGTAAATT-AGTCTCAAAACTTTTGAACATTCTTAATTCATACCCAAAATATA
* *
893003 ATCTTCATTGTAAATTAGTCTCTAAATTTTTGAACATT
1 ATCTTCATTGTAAATTAGTCTCAAAACTTTTGAACATT
893041 TCAATAGCAT
Statistics
Matches: 78, Mismatches: 15, Indels: 10
0.76 0.15 0.10
Matches are distributed among these distances:
58 1 0.01
59 11 0.14
60 51 0.65
61 14 0.18
62 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (60 bp):
ATCTTCATTGTAAATTAGTCTCAAAACTTTTGAACATTCTTAATTCATACCCAAAATATA
Found at i:893113 original size:28 final size:28
Alignment explanation
Indices: 893062--893116 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
893052 TTCCAAAATA
*
893062 ATTCAAAAGATTAGGGATATATTTGAAC
1 ATTCAAAAGATTAGGGATAGATTTGAAC
*
893090 ATTCAAAAGTTTAGGGACT-GATTTGAA
1 ATTCAAAAGATTAGGGA-TAGATTTGAA
893117 TGAAGGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (28 bp):
ATTCAAAAGATTAGGGATAGATTTGAAC
Found at i:903883 original size:20 final size:20
Alignment explanation
Indices: 903858--903895 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
903848 TCTCAATTAG
*
903858 TAAATTTTAAATTAATAAAT
1 TAAATTATAAATTAATAAAT
*
903878 TAAATTATCAATTAATAA
1 TAAATTATAAATTAATAA
903896 TATATTTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATTATAAATTAATAAAT
Found at i:903982 original size:2 final size:2
Alignment explanation
Indices: 903975--904000 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
903965 CATATTTACA
903975 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
904001 TAATTATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:904255 original size:2 final size:2
Alignment explanation
Indices: 904248--904306 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
904238 AAATGAAATT
904248 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
904290 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
904307 CAGGTCGAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:906070 original size:2 final size:2
Alignment explanation
Indices: 906063--906108 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
906053 TACTTGATCA
906063 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
906105 AT AT
1 AT AT
906109 CACCGATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:906334 original size:21 final size:20
Alignment explanation
Indices: 906306--906345 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
906296 TATACCCTAC
906306 CCCTAACTTAAAACCCTAAA
1 CCCTAACTTAAAACCCTAAA
* *
906326 CCCTAAACTTTAAATCCTAA
1 CCCT-AACTTAAAACCCTAA
906346 TTTAGGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (20 bp):
CCCTAACTTAAAACCCTAAA
Found at i:906985 original size:17 final size:18
Alignment explanation
Indices: 906958--906992 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
906948 AACGCTCTTG
906958 TTTTGTGTTTAGTTTAGT
1 TTTTGTGTTTAGTTTAGT
*
906976 TTTTGT-TTTATTTTAGT
1 TTTTGTGTTTAGTTTAGT
906993 ACCCATTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.11, C:0.00, G:0.17, T:0.71
Consensus pattern (18 bp):
TTTTGTGTTTAGTTTAGT
Found at i:912261 original size:27 final size:26
Alignment explanation
Indices: 912231--912292 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
912221 TCTTTTATTT
912231 TATATTTTTTTTAT-TAAATTTGAATCA
1 TATATTTTTTTTATGTAAATTT-AAT-A
** *
912258 TATA-TTCATTTATGTAACTTTAATA
1 TATATTTTTTTTATGTAAATTTAATA
912283 TATATTTTTT
1 TATATTTTTT
912293 AAACAAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
25 5 0.18
26 13 0.46
27 10 0.36
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (26 bp):
TATATTTTTTTTATGTAAATTTAATA
Found at i:912287 original size:25 final size:26
Alignment explanation
Indices: 912240--912288 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
912230 TTATATTTTT
912240 TTTATTAAATTTGAATCATATATTCA
1 TTTATTAAATTTGAATCATATATTCA
*
912266 TTTATGTAACTTT-AAT-ATATATT
1 TTTAT-TAAATTTGAATCATATATT
912289 TTTTAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 8 0.38
27 6 0.29
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (26 bp):
TTTATTAAATTTGAATCATATATTCA
Found at i:912773 original size:37 final size:34
Alignment explanation
Indices: 912720--912994 Score: 133
Period size: 37 Copynumber: 7.8 Consensus size: 34
912710 AAAAAAAATA
912720 TTTTTTG-AAATATATATTATATAGTTTTTTAAAAC
1 TTTTTTGAAAAT-TATATTATATAG-TTTTTAAAAC
912755 GTTTTTTGAAAACTTATATACAATATATAAG-TTTTAAAAC
1 -TTTTTTGAAAA-TTATAT----TATAT-AGTTTTTAAAAC
* * * *
912795 -ATTTTGAAAATTATATTGTATATAATTTTGAAATC
1 TTTTTTGAAAATTATA-T-TATATAGTTTTTAAAAC
* * *
912830 -ATTTTGAAAA-TATAATATATAGTTTTAAAAAAAAC
1 TTTTTTGAAAATTATATTATATAGTTTT---TAAAAC
*
912865 ATTTTTTGAAAATTTATATAATATATAG-TTTAAAAAC
1 -TTTTTTGAAAA-TTATAT--TATATAGTTTTTAAAAC
* *
912902 ATTTTGGAAAACTTATA-TA-ATA-TTTTTAAAATC
1 TTTTTTGAAAA-TTATATTATATAGTTTTTAAAA-C
* * *
912935 ATTTTTGAAAACTATATAATATATAGTTTTGAAAAC
1 TTTTTTGAAAA-T-TATATTATATAGTTTTTAAAAC
* *
912971 GTTTTT--AAA-TATAATATATAGTTT
1 TTTTTTGAAAATTATATTATATAGTTT
912995 AAAAAATATA
Statistics
Matches: 197, Mismatches: 18, Indels: 53
0.74 0.07 0.20
Matches are distributed among these distances:
31 15 0.08
32 20 0.10
33 15 0.08
34 12 0.06
35 28 0.14
36 30 0.15
37 36 0.18
38 11 0.06
39 4 0.02
40 12 0.06
41 12 0.06
42 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (34 bp):
TTTTTTGAAAATTATATTATATAGTTTTTAAAAC
Found at i:912956 original size:32 final size:34
Alignment explanation
Indices: 912721--912999 Score: 134
Period size: 36 Copynumber: 7.9 Consensus size: 34
912711 AAAAAAATAT
* * * *
912721 TTTTTGAAATA-TATATTATATAGTTTTTTAAAACGT
1 TTTTTGAAA-ACTATATAATATA-TATTTAAAAAC-A
*
912757 TTTTTGAAAACTTATATACAATATATAAGTTTTAAAACA
1 TTTTTGAAAAC-TATAT--AATATAT-A-TTTAAAAACA
* ** * *
912796 -TTTTGAAAATTATATTGTATATAATTTTGAAATCA
1 TTTTTGAAAACTATATAATATAT-A-TTTAAAAACA
912831 -TTTTG-AAA--ATATAATATATAGTTTTAAAAAAAACA
1 TTTTTGAAAACTATATAATATATA--TTT---AAAAACA
*
912866 TTTTTTGAAAATTTATATAATATATAGTTTAAAAACA
1 -TTTTTGAAAA-CTATATAATATATA-TTTAAAAACA
* *
912903 TTTTGGAAAACTTATATAATAT-T-TTTAAAATCA
1 TTTTTGAAAAC-TATATAATATATATTTAAAAACA
* *
912936 TTTTTGAAAACTATATAATATATAGTTTTGAAAACG
1 TTTTTGAAAACTATATAATATATA--TTTAAAAACA
912972 TTTTT---AA--ATATAATATATAGTTTAAAAA
1 TTTTTGAAAACTATATAATATATA-TTTAAAAA
913000 ATATATTTTT
Statistics
Matches: 199, Mismatches: 23, Indels: 48
0.74 0.09 0.18
Matches are distributed among these distances:
30 7 0.04
31 13 0.07
32 23 0.12
33 22 0.11
34 3 0.02
35 27 0.14
36 40 0.20
37 22 0.11
38 13 0.07
39 5 0.03
40 12 0.06
41 12 0.06
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (34 bp):
TTTTTGAAAACTATATAATATATATTTAAAAACA
Found at i:912982 original size:24 final size:23
Alignment explanation
Indices: 912924--912983 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
912914 TTATATAATA
*
912924 TTTTTAAA-ATCATTTTTGAAAAC
1 TTTTTAAATAT-AGTTTTGAAAAC
* *
912947 TATATAATATATAGTTTTGAAAAC
1 TTTTTAA-ATATAGTTTTGAAAAC
912971 GTTTTTAAATATA
1 -TTTTTAAATATA
912984 ATATATAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 5 0.17
24 17 0.59
25 7 0.24
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (23 bp):
TTTTTAAATATAGTTTTGAAAAC
Found at i:913021 original size:70 final size:71
Alignment explanation
Indices: 912796--913027 Score: 237
Period size: 68 Copynumber: 3.3 Consensus size: 71
912786 TTTTAAAACA
** * *
912796 TTTTGAAAATTATATTGTATATAATTTTGAAATCATTTTGAAAATATAATATATAGTTTTAAAAA
1 TTTTGAAAATTATATAATATATAGTTTTGAAAACATTTTGAAAATATAATATATAG-TTTAAAAA
*
912861 AAACATT
65 ATACATT
* **
912868 TTTTGAAAATTTATATAATATATAG-TTTAAAAACATTTTGGAAAACT-T-ATATAATA-TTTTT
1 TTTTGAAAA-TTATATAATATATAGTTTTGAAAACATTTT-GAAAA-TATAATAT-ATAGTTTAA
912929 AAAAT-CA-T
62 AAAATACATT
* * *
912937 TTTTGAAAACTATATAATATATAGTTTTGAAAACGTTTT-TAAATATAATATATAGTTTAAAAAA
1 TTTTGAAAATTATATAATATATAGTTTTGAAAACATTTTGAAAATATAATATATAGTTTAAAAAA
*
913001 TATATT
66 TACATT
*
913007 TTTTGAAACA-TATATTATATA
1 TTTTGAAA-ATTATATAATATA
913028 ATCTATATTA
Statistics
Matches: 133, Mismatches: 16, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
66 1 0.01
67 7 0.05
68 26 0.20
69 23 0.17
70 21 0.16
71 8 0.06
72 25 0.19
73 21 0.16
74 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (71 bp):
TTTTGAAAATTATATAATATATAGTTTTGAAAACATTTTGAAAATATAATATATAGTTTAAAAAA
TACATT
Found at i:913057 original size:5 final size:5
Alignment explanation
Indices: 913047--913077 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
913037 ATTACTAATA
*
913047 TTTAT TTTAT TTTAT TTTAT TTCAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
913078 AATCTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:919863 original size:24 final size:27
Alignment explanation
Indices: 919808--919886 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 27
919798 CCTTGATAAG
919808 AAAAATAACTTTAAATACTTATTTTAACTA
1 AAAAATAACTTTAAATACTTA---TAACTA
919838 AAAAATAA-TTTAAATACTTA-AA-TAA
1 AAAAATAACTTTAAATACTTATAACT-A
*
919863 AAAATATATACTTTAAATAATTAT
1 AAAA-ATA-ACTTTAAATACTTAT
919887 CTATAATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
24 1 0.02
25 7 0.16
26 3 0.07
27 1 0.02
28 11 0.26
29 12 0.28
30 8 0.19
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (27 bp):
AAAAATAACTTTAAATACTTATAACTA
Found at i:925031 original size:2 final size:2
Alignment explanation
Indices: 925024--925058 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
925014 CATAGGTTTG
* *
925024 CT CT CT CT CT CC CT CT CC CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
925059 GCATGCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (2 bp):
CT
Found at i:926124 original size:20 final size:21
Alignment explanation
Indices: 926082--926131 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
926072 ATTAAAAAAT
*
926082 TAAAATTATAAATACTCAACA
1 TAAAATTATAAATACTAAACA
* *
926103 TATAATTATAAA-CCTAAACA
1 TAAAATTATAAATACTAAACA
926123 TAAAATTAT
1 TAAAATTAT
926132 TTAAAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAATTATAAATACTAAACA
Found at i:928675 original size:37 final size:37
Alignment explanation
Indices: 928602--928676 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
928592 GTTGGAAAAT
*
928602 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
* *
928639 ATTTATATAATTTT-TTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
928676 A
1 A
928677 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:933307 original size:21 final size:21
Alignment explanation
Indices: 933263--933307 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
933253 AAATTACGCA
*
933263 TTTAGTACCTAAACTATCAGT
1 TTTAGTACCTAAACTATCAAT
* *
933284 TTTAGTACCTAAACTTTTAAT
1 TTTAGTACCTAAACTATCAAT
933305 TTT
1 TTT
933308 TTTTCAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.47
Consensus pattern (21 bp):
TTTAGTACCTAAACTATCAAT
Found at i:936086 original size:18 final size:17
Alignment explanation
Indices: 936051--936089 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
936041 TTATTAATAA
936051 AAAATACATAAAAATTT
1 AAAATACATAAAAATTT
* *
936068 AAAATATATAATAATTT
1 AAAATACATAAAAATTT
*
936085 TAAAT
1 AAAAT
936090 TTTCAGGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATACATAAAAATTT
Found at i:940802 original size:32 final size:32
Alignment explanation
Indices: 940728--940807 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
940718 TATTATAATC
* *
940728 AATGTGGTACATGTCATGTCATCATCTCGAAT
1 AATGTGGTATATGTCATGTCATCATCTAGAAT
* * *
940760 GATATTGTATATGTCATGTCATCATCTTAG-AT
1 AATGTGGTATATGTCATGTCATCATC-TAGAAT
940792 AATGTGGTATATGTCA
1 AATGTGGTATATGTCA
940808 AAGCATTACT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 37 0.95
33 2 0.05
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.39
Consensus pattern (32 bp):
AATGTGGTATATGTCATGTCATCATCTAGAAT
Found at i:942472 original size:18 final size:19
Alignment explanation
Indices: 942431--942472 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
942421 AAAAAATAGA
*
942431 TAATTTTTATTTATCACAC
1 TAATTTTCATTTATCACAC
* *
942450 AAATTTTCATTTTTCA-AC
1 TAATTTTCATTTATCACAC
942468 TAATT
1 TAATT
942473 AATTTATGTC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATTTTCATTTATCACAC
Found at i:942991 original size:3 final size:3
Alignment explanation
Indices: 942985--943014 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
942975 TGTCTCGTCG
*
942985 TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
943015 CGATTGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:958962 original size:15 final size:15
Alignment explanation
Indices: 958932--958972 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
958922 GAATCTAAAG
958932 CAACCCGAATCAAAAA
1 CAACCCGAA-CAAAAA
*
958948 TAACCCGAACAAAAA
1 CAACCCGAACAAAAA
958963 CAACCCGAAC
1 CAACCCGAAC
958973 TTAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.54, C:0.34, G:0.07, T:0.05
Consensus pattern (15 bp):
CAACCCGAACAAAAA
Found at i:963519 original size:2 final size:2
Alignment explanation
Indices: 963512--963546 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
963502 ATATGATGTT
963512 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
963547 TAAACGATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:965137 original size:72 final size:71
Alignment explanation
Indices: 965055--965199 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 71
965045 ATGATTGTTT
*
965055 TATAATATTCAAATTATGATTATTTTATATTATTTTGAAAAAAATTAATGATGTTGTATAATTTT
1 TATAATATTCAAATTATGATTATTTTATATTATTTTG-AAAAAATTAATGATGATGTATAATTTT
965120 TAAAACC
65 TAAAACC
965127 TATAATATTCAAATTATGATTATTTTATATTATTTTGAAAAAATTAATGATGATGTATAATTTTT
1 TATAATATTCAAATTATGATTATTTTATATTATTTTGAAAAAATTAATGATGATGTATAATTTTT
965192 AAAACC
66 AAAACC
965198 TA
1 TA
965200 GTGACTAAAA
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
71 35 0.49
72 37 0.51
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (71 bp):
TATAATATTCAAATTATGATTATTTTATATTATTTTGAAAAAATTAATGATGATGTATAATTTTT
AAAACC
Found at i:966906 original size:21 final size:21
Alignment explanation
Indices: 966873--966913 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
966863 CTGTGGTTGA
966873 GACCTATCCTTAACCGTATAG
1 GACCTATCCTTAACCGTATAG
* *
966894 GACCTTTCTTTAACCGTATA
1 GACCTATCCTTAACCGTATA
966914 TTAAGGTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (21 bp):
GACCTATCCTTAACCGTATAG
Found at i:968921 original size:16 final size:17
Alignment explanation
Indices: 968898--968936 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
968888 TTTTAATAGA
*
968898 AAATATATAAAAATTATT
1 AAATATATAATAATT-TT
968916 AAATATATAATAATTTT
1 AAATATATAATAATTTT
968933 AAAT
1 AAAT
968937 TTTCAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATAATTTT
Found at i:971942 original size:2 final size:2
Alignment explanation
Indices: 971935--971960 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
971925 AGTGTATGAG
971935 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
971961 ATACACACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:973211 original size:21 final size:20
Alignment explanation
Indices: 973185--973226 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
973175 AAATGTAATA
*
973185 AATAATATTATTTATTAAAAT
1 AATAATAATATTT-TTAAAAT
*
973206 AATAATAATATTTTTCAAAT
1 AATAATAATATTTTTAAAAT
973226 A
1 A
973227 TTAGAATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAATAATATTTTTAAAAT
Found at i:973263 original size:15 final size:15
Alignment explanation
Indices: 973243--973279 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
973233 TCATTTATCT
973243 AATATTATTTA-TATA
1 AATATTATTTATTA-A
973258 AATATTA-TTATTAA
1 AATATTATTTATTAA
973272 AATATTAT
1 AATATTAT
973280 ATCTACAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AATATTATTTATTAA
Found at i:973381 original size:34 final size:34
Alignment explanation
Indices: 973288--973382 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 34
973278 ATATCTACAA
*
973288 TTTT-AAAT-AAAAATAAAAATATTATT--ATATT
1 TTTTAAAATAAAAAAT-AATATATTATTAAATATT
973319 TTATTAAAATAAAAAAT-ATA-ATTGTATTAAATATT
1 TT-TTAAAATAAAAAATAATATA-T-TATTAAATATT
973354 TTTTAAAATAAAAAATAATATATTATTAA
1 TTTTAAAATAAAAAATAATATATTATTAA
973383 GTATATTAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 15
0.77 0.01 0.21
Matches are distributed among these distances:
31 3 0.06
32 5 0.09
33 8 0.15
34 26 0.48
35 11 0.20
36 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (34 bp):
TTTTAAAATAAAAAATAATATATTATTAAATATT
Found at i:973415 original size:17 final size:17
Alignment explanation
Indices: 973365--973420 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
973355 TTTAAAATAA
973365 AAAATAAT-ATATTATT
1 AAAATAATAATATTATT
* *
973381 AAGTATATTAATTAATTATT
1 AA-AATAATAA-T-ATTATT
973401 AAAATAATAATATTATT
1 AAAATAATAATATTATT
973418 AAA
1 AAA
973421 CAATTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
16 2 0.06
17 13 0.41
18 2 0.06
19 7 0.22
20 8 0.25
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
AAAATAATAATATTATT
Found at i:973418 original size:20 final size:20
Alignment explanation
Indices: 973362--973418 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
973352 TTTTTTAAAA
973362 TAAAA-AATAATA-TATTAT
1 TAAAATAATAATATTATTAT
* * *
973380 TAAGTATATTAAT-TAATTAT
1 TAA-AATAATAATATTATTAT
973400 TAAAATAATAATATTATTA
1 TAAAATAATAATATTATTA
973419 AACAATTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
18 3 0.10
19 8 0.28
20 18 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAAATAATAATATTATTAT
Found at i:973736 original size:2 final size:2
Alignment explanation
Indices: 973731--973755 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
973721 TTAATATTAA
973731 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
973756 ATGTTTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:975994 original size:42 final size:42
Alignment explanation
Indices: 975934--976023 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
975924 ATCTCGATTG
* * * *
975934 TAAATAAATTATTGTTCTTTAAAGCTTTAAATTCGAACATCA
1 TAAATAAATTATTATTCTTTAAAACTTTAAATCCAAACATCA
* *
975976 TAAATAAATTGTTATTCTTTAAAATTTTAAATCCAAACATCA
1 TAAATAAATTATTATTCTTTAAAACTTTAAATCCAAACATCA
976018 TAAATA
1 TAAATA
976024 TTAAAATATG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (42 bp):
TAAATAAATTATTATTCTTTAAAACTTTAAATCCAAACATCA
Found at i:977686 original size:29 final size:29
Alignment explanation
Indices: 977635--977692 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
977625 GTGTTGGCCG
* ** *
977635 TAGGTCGCCATGCCTTCTGGGCGACCTAC
1 TAGGTCGCCATACCTTCCCGGCGAACTAC
*
977664 TAGGTCGCCATATCTTCCCGGCGAACTAC
1 TAGGTCGCCATACCTTCCCGGCGAACTAC
977693 AAGAGATTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.17, C:0.34, G:0.24, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATACCTTCCCGGCGAACTAC
Found at i:977745 original size:10 final size:10
Alignment explanation
Indices: 977732--977802 Score: 61
Period size: 10 Copynumber: 6.7 Consensus size: 10
977722 ACACGCTGGG
977732 CATCCGAGAC
1 CATCCGAGAC
977742 CATCCGACCGAGGC
1 CATCCGA--GA--C
*
977756 CATCCGAGAG
1 CATCCGAGAC
**
977766 CATCCGAGGT
1 CATCCGAGAC
*
977776 CATCCGAGAG
1 CATCCGAGAC
*
977786 CATCCGAGGC
1 CATCCGAGAC
977796 CATCCGA
1 CATCCGA
977803 ACGAGCTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
10 38 0.76
12 4 0.08
14 8 0.16
ACGTcount: A:0.25, C:0.37, G:0.27, T:0.11
Consensus pattern (10 bp):
CATCCGAGAC
Found at i:977774 original size:20 final size:20
Alignment explanation
Indices: 977749--977836 Score: 104
Period size: 20 Copynumber: 4.2 Consensus size: 20
977739 GACCATCCGA
977749 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
*
977769 CCGAGGTCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
977789 CCGAGGCCATCCGAACGAGCTAT
1 CCGAGGCCATCCG-A-GAGC-AT
* * * *
977812 GCGAGGGCATCCGAGGGCAA
1 CCGAGGCCATCCGAGAGCAT
977832 CCGAG
1 CCGAG
977837 CAAGCTATGC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
20 36 0.62
21 4 0.07
22 5 0.09
23 13 0.22
ACGTcount: A:0.25, C:0.32, G:0.33, T:0.10
Consensus pattern (20 bp):
CCGAGGCCATCCGAGAGCAT
Found at i:977828 original size:10 final size:10
Alignment explanation
Indices: 977749--977869 Score: 80
Period size: 10 Copynumber: 11.5 Consensus size: 10
977739 GACCATCCGA
*
977749 CCGAGGCCAT
1 CCGAGGGCAT
*
977759 CCGAGAGCAT
1 CCGAGGGCAT
*
977769 CCGAGGTCAT
1 CCGAGGGCAT
*
977779 CCGAGAGCAT
1 CCGAGGGCAT
*
977789 CCGAGGCCAT
1 CCGAGGGCAT
*
977799 CCGAACGAGCTAT
1 CCG-A-GGGC-AT
*
977812 GCGAGGGCAT
1 CCGAGGGCAT
*
977822 CCGAGGGCAA
1 CCGAGGGCAT
*
977832 CCGAGCAAGCTAT
1 CCGAG--GGC-AT
* *
977845 GCGAGGGAAT
1 CCGAGGGCAT
*
977855 CCGAGGGCAA
1 CCGAGGGCAT
977865 CCGAG
1 CCGAG
977870 CGAGGGTAGG
Statistics
Matches: 83, Mismatches: 22, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
10 64 0.77
11 5 0.06
12 5 0.06
13 9 0.11
ACGTcount: A:0.26, C:0.30, G:0.34, T:0.10
Consensus pattern (10 bp):
CCGAGGGCAT
Found at i:977869 original size:33 final size:33
Alignment explanation
Indices: 977787--977870 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 33
977777 ATCCGAGAGC
* * * * *
977787 ATCCGAGGCCATCCGAACGAGCTATGCGAGGGC
1 ATCCGAGGGCAACCGAGCAAGCTATGCGAGGGA
977820 ATCCGAGGGCAACCGAGCAAGCTATGCGAGGGA
1 ATCCGAGGGCAACCGAGCAAGCTATGCGAGGGA
977853 ATCCGAGGGCAACCGAGC
1 ATCCGAGGGCAACCGAGC
977871 GAGGGTAGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.27, C:0.29, G:0.35, T:0.10
Consensus pattern (33 bp):
ATCCGAGGGCAACCGAGCAAGCTATGCGAGGGA
Found at i:977910 original size:29 final size:29
Alignment explanation
Indices: 977877--977932 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
977867 GAGCGAGGGT
977877 AGGTCACCCGG-AGTGCATGGCGACCTACA
1 AGGTCACCCGGAAG-GCATGGCGACCTACA
*
977906 AGGTCGCCCGGAAGGCATGGCGACCTA
1 AGGTCACCCGGAAGGCATGGCGACCTA
977933 TGTGTTGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.23, C:0.30, G:0.34, T:0.12
Consensus pattern (29 bp):
AGGTCACCCGGAAGGCATGGCGACCTACA
Found at i:978037 original size:29 final size:29
Alignment explanation
Indices: 977991--978056 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
977981 GAGCAATGGT
977991 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
*
978020 AGGTCGCCCGGAAG-GCATTGCGACCTACA
1 AGGTCGCCCGG-AGTGCATGGCGACCTACA
978049 AGGTCGCC
1 AGGTCGCC
978057 TTCCTAAGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 33 0.94
30 2 0.06
ACGTcount: A:0.21, C:0.32, G:0.33, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:979426 original size:2 final size:2
Alignment explanation
Indices: 979419--979447 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
979409 AAAACAACAC
979419 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
979448 TTTCGCGCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:994181 original size:42 final size:42
Alignment explanation
Indices: 994122--994241 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
994112 TTTTCCCGAA
* *
994122 TTCCCGTGTTTATTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
994164 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
*
994206 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
994242 TGTAATTCAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:994478 original size:22 final size:23
Alignment explanation
Indices: 994431--994491 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
994421 TAATTATTAA
* *
994431 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
994452 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
994475 -ATATTTTTAATATTATA
1 AATATTTATAATAATATA
994492 TATAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.32
22 19 0.56
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:994487 original size:31 final size:30
Alignment explanation
Indices: 994442--994592 Score: 97
Period size: 31 Copynumber: 5.1 Consensus size: 30
994432 ATATTTAAAA
994442 TATATTTATTAATATTTATAATAATATAATAT
1 TATATTT-TTAATATTTATAAT-ATATAATAT
994474 TATATTTTTAATA-TTAT-ATATA-AA-AT
1 TATATTTTTAATATTTATAATATATAATAT
* * * * *
994500 AATCAATTATATTA-TAATAATATA-AGATAT
1 TAT-ATTTTTAATATTTATAATATATA-ATAT
994530 TATATTTTT-AT-TTTAATAATATATAATA-
1 TATATTTTTAATATTT-ATAATATATAATAT
* *
994558 AATTTTTTTATATATTTAATAATGA-ATAATAT
1 TATATTTTTA-ATATTT-ATAAT-ATATAATAT
994590 TAT
1 TAT
994593 TTATATATTT
Statistics
Matches: 94, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
26 4 0.04
27 12 0.13
28 18 0.19
29 18 0.19
30 11 0.12
31 21 0.22
32 10 0.11
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (30 bp):
TATATTTTTAATATTTATAATATATAATAT
Found at i:994569 original size:54 final size:54
Alignment explanation
Indices: 994456--994569 Score: 137
Period size: 54 Copynumber: 2.1 Consensus size: 54
994446 TTTATTAATA
*
994456 TTTATAATAATATAATATTATATTTTTAATATTATATATAAAATAATCAATTAT
1 TTTATAATAATATAATATTATATTTTTAATATTATATATAAAATAATAAATTAT
* *
994510 ATTATAATAATATAAGATATTATATTTTT-AT-TT-TA-ATAATATATAATAAATTTT
1 TTTATAATAATAT-A-ATATTATATTTTTAATATTATATATAA-A-ATAATAAATTAT
994564 TTTATA
1 TTTATA
994570 TATTTAATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
52 4 0.08
53 3 0.06
54 29 0.56
55 3 0.06
56 13 0.25
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (54 bp):
TTTATAATAATATAATATTATATTTTTAATATTATATATAAAATAATAAATTAT
Found at i:994855 original size:20 final size:20
Alignment explanation
Indices: 994777--994846 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
994767 TTTCCAGATG
994777 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
994797 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
994817 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
994837 TTTTCCAGAA
1 TTTTCCAGAA
994847 TTCAAATTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:994855 original size:40 final size:40
Alignment explanation
Indices: 994777--994855 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
994767 TTTCCAGATG
* **
994777 TTTTCCAGAAATGTAATTCATTTTCCAGAAATGTAATTCA
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
*
994817 TTTTACAGAAATGTAATTCATTTTCCAGAATTCAAATTC
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
994856 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (40 bp):
TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
Found at i:994865 original size:15 final size:15
Alignment explanation
Indices: 994829--994910 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
994819 TTACAGAAAT
**
994829 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
994844 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
** *
994858 GTAATTCATTTTCTA
1 GTAATTCAAATTCCA
994873 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
994888 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
994903 GTAATTCA
1 GTAATTCA
994911 TTTTCTGGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
14 12 0.21
15 46 0.79
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.39
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:994881 original size:30 final size:30
Alignment explanation
Indices: 994829--994910 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
994819 TTACAGAAAT
994829 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
*
994858 GTAATTCATTTTCTAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
**
994888 GTAATTCAAATTCCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
994911 TTTTCTGGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 15 0.31
30 33 0.69
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.39
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:994903 original size:45 final size:44
Alignment explanation
Indices: 994829--994916 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 44
994819 TTACAGAAAT
**
994829 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCTA
1 GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCTA
994873 GTAATTCAAATTCCAGTAATTCAAATTCCAGTAATTCATTTTCT
1 GTAATTCAAATTCCAG-AATTCAAATTCCAGTAATTCATTTTCT
994917 GGAAAACCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.34
45 27 0.66
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCTA
Found at i:1000457 original size:60 final size:59
Alignment explanation
Indices: 1000358--1000538 Score: 210
Period size: 60 Copynumber: 3.1 Consensus size: 59
1000348 TACATCATAT
*
1000358 ATCCCTAAACTATAACTC-TTT-TAAATTGATCATTAAACTTTTAAATATTCCAATTTC
1 ATCCCTAAACTATAACTCTTTTCTAAATTGATCCTTAAACTTTTAAATATTCCAATTTC
* * * *
1000415 ATCCCCAAACAATAACTCTTATTCTAAATTTATCCTTAAACTTTTAAATATAT-TAATTTC
1 ATCCCTAAACTATAACTCTT-TTCTAAATTGATCCTTAAACTTTTAAATAT-TCCAATTTC
* * * *
1000475 ATCCTTAAACTATGACAT-TTTTCTAAATTGGTCCCTAAACTTTTGAAAT-TTCCAATTTC
1 ATCCCTAAACTATAAC-TCTTTTCTAAATTGATCCTTAAACTTTT-AAATATTCCAATTTC
1000534 ATCCC
1 ATCCC
1000539 AAATGCATCC
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
57 16 0.16
58 2 0.02
59 34 0.33
60 49 0.48
61 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (59 bp):
ATCCCTAAACTATAACTCTTTTCTAAATTGATCCTTAAACTTTTAAATATTCCAATTTC
Found at i:1001127 original size:25 final size:25
Alignment explanation
Indices: 1001099--1001169 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 25
1001089 GGGTACTGAA
1001099 ATGAAATAAAAAATAAACTTTAAGT
1 ATGAAATAAAAAATAAACTTTAAGT
* *
1001124 ATGATTTAAAAAAAAATAAAAGTTTAAGT
1 ATGA---AATAAAAAAT-AAACTTTAAGT
*
1001153 ATTAAAATAAAAAATAA
1 A-TGAAATAAAAAATAA
1001170 CTAATAGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
25 4 0.11
26 2 0.05
27 9 0.24
28 9 0.24
29 11 0.30
30 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.28
Consensus pattern (25 bp):
ATGAAATAAAAAATAAACTTTAAGT
Found at i:1001179 original size:31 final size:30
Alignment explanation
Indices: 1001091--1001189 Score: 85
Period size: 31 Copynumber: 3.3 Consensus size: 30
1001081 TTGAACGAGG
* *
1001091 GTACTGAAATGAAATAAAAAAT-AAACTTTAA
1 GTACTAAAAT-AAA-AAAAAATAAAAGTTTAA
* **
1001122 GTA-TGATTTAAAAAAAAATAAAAGTTTAA
1 GTACTAAAATAAAAAAAAATAAAAGTTTAA
* * *
1001151 GTATTAAAATAAAAAATAACTAATAGTTTAA
1 GTACTAAAATAAAAAA-AAATAAAAGTTTAA
1001182 GTACTAAA
1 GTACTAAA
1001190 TCCATAATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 7 0.12
29 14 0.25
30 13 0.23
31 22 0.39
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (30 bp):
GTACTAAAATAAAAAAAAATAAAAGTTTAA
Found at i:1002227 original size:35 final size:35
Alignment explanation
Indices: 1002181--1002250 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
1002171 GAAAGATCCC
1002181 AAACATTACATGTAATCTTGTAACATTCATCACAT
1 AAACATTACATGTAATCTTGTAACATTCATCACAT
*
1002216 AAACATTACATGTAATCTTGTAGCATTCATCACAT
1 AAACATTACATGTAATCTTGTAACATTCATCACAT
1002251 TTGAAGAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (35 bp):
AAACATTACATGTAATCTTGTAACATTCATCACAT
Found at i:1007408 original size:30 final size:30
Alignment explanation
Indices: 1007366--1007441 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
1007356 ACTAAACCCG
**
1007366 TCCCGTCCCCGTTTAACATAAAC-GGTTTT
1 TCCCGTCCCCGTTTAACATAAACAATTTTT
* *
1007395 TCTCCGTCTCCGTTTAGCATAAACAATTTTT
1 TC-CCGTCCCCGTTTAACATAAACAATTTTT
1007426 TCCCGTCCCCGTTTAA
1 TCCCGTCCCCGTTTAA
1007442 TTCGATTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 2 0.05
30 31 0.79
31 6 0.15
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.37
Consensus pattern (30 bp):
TCCCGTCCCCGTTTAACATAAACAATTTTT
Found at i:1013314 original size:242 final size:242
Alignment explanation
Indices: 1012889--1013372 Score: 914
Period size: 242 Copynumber: 2.0 Consensus size: 242
1012879 AACTAAACAA
*
1012889 CTGTTGCAAAGTGAAACCAAAGCATTCAAGGGAATCCAAAGAACACGAAAGGACAAATGTCAGCA
1 CTGTTGCAAAGTGAAACCAAAGCATTCAAGGAAATCCAAAGAACACGAAAGGACAAATGTCAGCA
*
1012954 ACATCTCCATGAAACACCTTGTGCAAGAGCATTAACATGTCTCAATAACACAAATCTGATTAGGA
66 ACATCTCCATGAAACACCTTGAGCAAGAGCATTAACATGTCTCAATAACACAAATCTGATTAGGA
* *
1013019 ACAAATGTCGGATTGCAACACAGCAAAGGGGATTTTCATTCACTGTTATCCGAACAATTCAATTC
131 ACAAATGTCAGATTGCAACACAGCAAAGGGGATTTTCATTCAATGTTATCCGAACAATTCAATTC
1013084 AGAAACTCCAAAATATAAAACTTCAAAGCTTGTAACTTTAGACATGC
196 AGAAACTCCAAAATATAAAACTTCAAAGCTTGTAACTTTAGACATGC
1013131 CTGTTGCAAAGTGAAACCAAAGCATTCAAGGAAATCCAAAGAACACGAAAGGACAAATGTCAGCA
1 CTGTTGCAAAGTGAAACCAAAGCATTCAAGGAAATCCAAAGAACACGAAAGGACAAATGTCAGCA
*
1013196 ACATCTGCATGAAACACCTTGAGCAAGAGCATTAACATGTCTCAATAACACAAATCTGATTAGGA
66 ACATCTCCATGAAACACCTTGAGCAAGAGCATTAACATGTCTCAATAACACAAATCTGATTAGGA
*
1013261 ACACATGTCAGATTGCAACACAGCAAAGGGGATTTTCATTCAATGTTATCCGAACAATTCAATTC
131 ACAAATGTCAGATTGCAACACAGCAAAGGGGATTTTCATTCAATGTTATCCGAACAATTCAATTC
1013326 AGAAACTCCAAAATATAAAACTTCAAAGCTTGTAACTTTAGACATGC
196 AGAAACTCCAAAATATAAAACTTCAAAGCTTGTAACTTTAGACATGC
1013373 AGCACAAAAC
Statistics
Matches: 236, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
242 236 1.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.23
Consensus pattern (242 bp):
CTGTTGCAAAGTGAAACCAAAGCATTCAAGGAAATCCAAAGAACACGAAAGGACAAATGTCAGCA
ACATCTCCATGAAACACCTTGAGCAAGAGCATTAACATGTCTCAATAACACAAATCTGATTAGGA
ACAAATGTCAGATTGCAACACAGCAAAGGGGATTTTCATTCAATGTTATCCGAACAATTCAATTC
AGAAACTCCAAAATATAAAACTTCAAAGCTTGTAACTTTAGACATGC
Found at i:1014152 original size:21 final size:21
Alignment explanation
Indices: 1014122--1014370 Score: 203
Period size: 21 Copynumber: 12.0 Consensus size: 21
1014112 GATTTACATA
*
1014122 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
**
1014143 TTCGCGTTGCGATAGTTGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
1014164 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
1014185 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
1014204 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
1014227 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
1014246 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
1014269 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
1014288 TTCGTGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
1014311 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
1014330 TTCGCGTTACGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
1014353 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
1014371 AATCGCAACG
Statistics
Matches: 180, Mismatches: 32, Indels: 34
0.73 0.13 0.14
Matches are distributed among these distances:
19 49 0.27
21 96 0.53
23 35 0.19
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:1014174 original size:42 final size:41
Alignment explanation
Indices: 1014122--1014367 Score: 343
Period size: 42 Copynumber: 5.9 Consensus size: 41
1014112 GATTTACATA
* * *
1014122 TTCGCATTGCGA-TAGTCCAAGTTCGCGTTGCGATAGTTGAAG
1 TTCGCGTTGCGATTATTCCAAGTT--CGTTGCGATAGTCGAAG
*
1014164 TTCGCGTTGCGATT-TTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTATTCCAAGTTCGTTGCGATAGTCGAAG
* *
1014204 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTCGAAG
1014246 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTCGAAG
*
1014288 TTCGTGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTCGAAG
* *
1014330 TTCGCGTTACGATTTATTCCAAATTCGTTGCGATAGTC
1 TTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTC
1014368 CAAAATCGCA
Statistics
Matches: 190, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
40 28 0.15
41 2 0.01
42 159 0.84
43 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (41 bp):
TTCGCGTTGCGATTATTCCAAGTTCGTTGCGATAGTCGAAG
Found at i:1014345 original size:126 final size:125
Alignment explanation
Indices: 1014137--1014370 Score: 398
Period size: 126 Copynumber: 1.9 Consensus size: 125
1014127 ATTGCGATAG
*
1014137 TCCAAGTTCGCGTTGCGATAGTTGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGA
1 TCCAAGTTC-CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGA
*
1014202 AGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
65 AGTTCGCGTTACGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
* *
1014263 TCCAAGTT-CGTTGCGATAGTCGAAGTTCGTGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
1 TCCAAGTTCCGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTCG
1014327 AAGTTCGCGTTACGATTTATTCCAAATTCGTTGCGATAGTCCAA
64 AAGTTCGCGTTACGATTTATTCCAAATTCGTTGCGATAGTCCAA
1014371 AATCGCAACG
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
124 27 0.26
125 2 0.02
126 73 0.72
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (125 bp):
TCCAAGTTCCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAA
GTTCGCGTTACGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
Found at i:1014863 original size:12 final size:12
Alignment explanation
Indices: 1014846--1014871 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1014836 GTAATGCTCA
1014846 ATCCCACATAGT
1 ATCCCACATAGT
1014858 ATCCCACATAGT
1 ATCCCACATAGT
1014870 AT
1 AT
1014872 TGGAAACACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.27
Consensus pattern (12 bp):
ATCCCACATAGT
Found at i:1015248 original size:40 final size:42
Alignment explanation
Indices: 1015084--1015384 Score: 497
Period size: 42 Copynumber: 7.3 Consensus size: 42
1015074 TGCGATTTTG
*
1015084 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
1015126 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
1015168 GACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
1015210 GACTATCGCAATGAATTTGG-A-AAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1015250 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
**
1015292 GACTATCGCAACGAATTTGG-A-AAATCGCAACATGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
1015332 GACTATCGCAACGAATTT--AAAAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1015372 GACTATCGCAACG
1 GACTATCGCAACG
1015385 CGAACTTGGA
Statistics
Matches: 245, Mismatches: 10, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
39 1 0.00
40 102 0.42
41 3 0.01
42 139 0.57
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:1015290 original size:82 final size:82
Alignment explanation
Indices: 1015084--1015384 Score: 507
Period size: 82 Copynumber: 3.7 Consensus size: 82
1015074 TGCGATTTTG
*
1015084 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGG-A-
*
1015149 AAATCGCAACGCGAACTTA
64 AAATCGCAACGCGAACTTC
* *
1015168 GACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAATGAATTTGGAAA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
1015233 ATCGCAACGCGAACTTC
66 ATCGCAACGCGAACTTC
1015250 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
**
1015315 ATCGCAACATGAACTTC
66 ATCGCAACGCGAACTTC
*
1015332 GACTATCGCAACGAATTT--AAAAAATCGCAACGCGAACTTCGACTATCGCAACG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACG
1015385 CGAACTTGGA
Statistics
Matches: 208, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
80 34 0.16
82 114 0.55
83 1 0.00
84 59 0.28
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (82 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
ATCGCAACGCGAACTTC
Found at i:1015379 original size:21 final size:21
Alignment explanation
Indices: 1015081--1015409 Score: 218
Period size: 21 Copynumber: 16.0 Consensus size: 21
1015071 CATTGCGATT
*
1015081 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
1015100 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
1015123 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
1015142 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
1015165 TTAGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* *
1015184 TTGGAATAAATCGCAACGCAAAC
1 TTGGACT--ATCGCAACGCGAAC
* * *
1015207 TTCGACTATCGCAA--TGAAT
1 TTGGACTATCGCAACGCGAAC
**
1015226 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
1015247 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
1015266 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
1015289 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
** **
1015308 TTGGAAAATCGCAACATGAAC
1 TTGGACTATCGCAACGCGAAC
* *
1015329 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
** **
1015348 TTAAAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
1015369 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
1015390 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
1015410 TATGTAAATC
Statistics
Matches: 234, Mismatches: 54, Indels: 42
0.71 0.16 0.13
Matches are distributed among these distances:
19 75 0.32
21 123 0.53
23 36 0.15
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:1015447 original size:21 final size:21
Alignment explanation
Indices: 1015418--1015470 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
1015408 AATATGTAAA
*
1015418 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
1015439 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
1015460 TCGCGTTGCGA
1 TCGCGTTGCGA
1015471 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:1015873 original size:6 final size:6
Alignment explanation
Indices: 1015862--1015896 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
1015852 AAACTCTAAC
1015862 CGGCAA CGGCAA CGGCAA CGGCAA CGGCAA CGGCA
1 CGGCAA CGGCAA CGGCAA CGGCAA CGGCAA CGGCA
1015897 TCCCCTTCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.34, T:0.00
Consensus pattern (6 bp):
CGGCAA
Found at i:1025445 original size:22 final size:22
Alignment explanation
Indices: 1025420--1025466 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1025410 GTAAGCAAAA
* * *
1025420 TGATTTAATTTATAAAATTGAG
1 TGATTAAATTGATAAAATTAAG
*
1025442 TGATTAAATTGATTAAATTAAG
1 TGATTAAATTGATAAAATTAAG
1025464 TGA
1 TGA
1025467 AAAATGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.43
Consensus pattern (22 bp):
TGATTAAATTGATAAAATTAAG
Found at i:1030103 original size:23 final size:23
Alignment explanation
Indices: 1030058--1030105 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1030048 GTATCTGTTC
* *
1030058 AAAATTTAAAATTAATTTTTTAA
1 AAAATTAAAAATTAATTTATTAA
1030081 AAAATTAAAAATTTAA-TTATTAA
1 AAAATTAAAAA-TTAATTTATTAA
1030104 AA
1 AA
1030106 TGGAACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAATTAAAAATTAATTTATTAA
Found at i:1031190 original size:72 final size:72
Alignment explanation
Indices: 1031038--1031230 Score: 246
Period size: 74 Copynumber: 2.7 Consensus size: 72
1031028 TTTTGGGGCG
* * *
1031038 ACAATAGTGGCATGTTTTTGACAAACGCCGCAATAGGTCCATCTATAGTAGTTTTTTTTAAATAA
1 ACAATAGTGGCAT-TTTTTTAAAAACGCCGCAATAAGTCCATCTATAGTAGTTTTTTTTAAATAA
**
1031103 AAGATGCA
65 AAGACACA
* * *
1031111 AAAATAGTGGCATTTTTTTTAAAAAACGCCACAATAAGTCCATCTATGGTAG-TTTTTTT-AATA
1 ACAATAGTGGCA-TTTTTTT-AAAAACGCCGCAATAAGTCCATCTATAGTAGTTTTTTTTAAATA
*
1031174 AAAGCCACA
64 AAAGACACA
* *
1031183 ACAATAGTGGCGTTTTTTTAAAAACGTCGCAATAAGTCCATCTATAGT
1 ACAATAGTGGCATTTTTTTAAAAACGCCGCAATAAGTCCATCTATAGT
1031231 GGTCGTTTAT
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
70 26 0.25
71 7 0.07
72 20 0.19
73 23 0.22
74 28 0.27
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (72 bp):
ACAATAGTGGCATTTTTTTAAAAACGCCGCAATAAGTCCATCTATAGTAGTTTTTTTTAAATAAA
AGACACA
Found at i:1038706 original size:60 final size:60
Alignment explanation
Indices: 1038595--1038708 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
1038585 TAGTTGGATA
* ** * *
1038595 ACCATTTTGTAACTTTTGATAGTCGAAAGACTCAACAAAGCAACACTCTATAGTCAGAAG
1 ACCATTTTGTAACTTTTAATAACCGAAAGACTCAACAAAACAACACCCTATAGTCAGAAG
* * *
1038655 ACCATTTTGTAACTTTTAATAACCGAAAGACTCAATAAAATAATACCCTATAGT
1 ACCATTTTGTAACTTTTAATAACCGAAAGACTCAACAAAACAACACCCTATAGT
1038709 AGGGAGATCG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (60 bp):
ACCATTTTGTAACTTTTAATAACCGAAAGACTCAACAAAACAACACCCTATAGTCAGAAG
Found at i:1041467 original size:21 final size:21
Alignment explanation
Indices: 1041438--1041478 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1041428 ATTTTGTATG
* *
1041438 GTTTATTATTTTTGTGCTTTA
1 GTTTATTATTGTTGTACTTTA
*
1041459 GTTTCTTATTGTTGTACTTT
1 GTTTATTATTGTTGTACTTT
1041479 TGCTTATTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.07, G:0.15, T:0.66
Consensus pattern (21 bp):
GTTTATTATTGTTGTACTTTA
Found at i:1051125 original size:2 final size:2
Alignment explanation
Indices: 1051118--1051150 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1051108 AAATCCTTCG
*
1051118 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1051151 AACAGAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1054295 original size:16 final size:16
Alignment explanation
Indices: 1054274--1054304 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1054264 TTCTAATTTT
1054274 TTTTTGAGTTCAAGTC
1 TTTTTGAGTTCAAGTC
1054290 TTTTTGAGTTCAAGT
1 TTTTTGAGTTCAAGT
1054305 TTCAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (16 bp):
TTTTTGAGTTCAAGTC
Found at i:1054422 original size:16 final size:16
Alignment explanation
Indices: 1054401--1054433 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1054391 CAAGTTCGAG
*
1054401 TCGAGCTCAGCAATAT
1 TCGAGCTCACCAATAT
1054417 TCGAGCTCACCAATAT
1 TCGAGCTCACCAATAT
1054433 T
1 T
1054434 ATATTTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (16 bp):
TCGAGCTCACCAATAT
Found at i:1055310 original size:29 final size:30
Alignment explanation
Indices: 1055268--1055338 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
1055258 AACTGTTTAC
1055268 AAGTGAGGACTA-TTTTTTTATTTATTAAT
1 AAGTGAGGACTATTTTTTTTATTTATTAAT
1055297 AAGTGAGGACTATTTTTTTTATTTATTAAT
1 AAGTGAGGACTATTTTTTTTATTTATTAAT
1055327 AAGTGAGGACTA
1 AAGTGAGGACTA
1055339 AATTGAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 12 0.29
30 29 0.71
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.46
Consensus pattern (30 bp):
AAGTGAGGACTATTTTTTTTATTTATTAAT
Found at i:1055905 original size:60 final size:60
Alignment explanation
Indices: 1055835--1056022 Score: 184
Period size: 60 Copynumber: 3.1 Consensus size: 60
1055825 TATTTGGATG
* * *
1055835 AGTTTAGGGATGAAATTGGAATATTTAAAAGTTTGAGGACTAATTTAGAAAG-AGGATCAT
1 AGTTTAGGGATGAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAGAAAGAAAG-TCAT
* * * * * * *
1055895 AGTTTGGGGAT-AAATTAGAATGTTCAAAAGTCTAATGATTAATTTAGAACGAAAGTCAT
1 AGTTTAGGGATGAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAGAAAGAAAGTCAT
* * * * * * *
1055954 AATTTTGAGATGAAATTGAAACATTCAAAAGTTTAAGGACTAATTTA-AAATAAGAGTAAT
1 AGTTTAGGGATGAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAGAAAGAA-AGTCAT
1056014 AGTTTAGGG
1 AGTTTAGGG
1056023 TGTAATTAAC
Statistics
Matches: 99, Mismatches: 26, Indels: 6
0.76 0.20 0.05
Matches are distributed among these distances:
59 48 0.48
60 51 0.52
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (60 bp):
AGTTTAGGGATGAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAGAAAGAAAGTCAT
Found at i:1068247 original size:10 final size:10
Alignment explanation
Indices: 1068202--1068254 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
1068192 AAAAGAAAAT
1068202 AATAATATAA
1 AATAATATAA
1068212 TAATAATGAATAA
1 -AATAAT--ATAA
* *
1068225 AAAAACA-AA
1 AATAATATAA
1068234 AATAATATAA
1 AATAATATAA
1068244 AATAATATAA
1 AATAATATAA
1068254 A
1 A
1068255 GTTATAAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
9 7 0.20
10 14 0.40
11 6 0.17
12 4 0.11
13 4 0.11
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (10 bp):
AATAATATAA
Found at i:1069846 original size:105 final size:105
Alignment explanation
Indices: 1069547--1070619 Score: 1561
Period size: 105 Copynumber: 10.3 Consensus size: 105
1069537 CATTGTTCCA
* * **
1069547 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAATTG-TTGTTGACAA
* * * * *
1069611 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
1069653 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
1069713 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
1069753 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
*
1069818 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1069858 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
1069918 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1069958 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATT-GGAAAGTTGTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAA-TTGTTGTTGACAAG
*
1070022 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1070063 AGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
*
1070123 AGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1070163 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATT-GGAAAGTTGTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAA-TTGTTGTTGACAAG
* *
1070227 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTTTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1070268 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
1070333 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
1070373 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGG-AAATTG-TTGTTGACAA
*
1070438 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
1070480 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTG-TTGTTGACAAG
* * * *
1070545 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1070586 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
1070620 CGCGGATGGC
Statistics
Matches: 890, Mismatches: 55, Indels: 41
0.90 0.06 0.04
Matches are distributed among these distances:
100 260 0.29
101 10 0.01
102 13 0.01
103 10 0.01
104 11 0.01
105 366 0.41
106 100 0.11
107 98 0.11
109 22 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1069900 original size:205 final size:205
Alignment explanation
Indices: 1069547--1070619 Score: 1617
Period size: 205 Copynumber: 5.2 Consensus size: 205
1069537 CATTGTTCCA
* * ** *
1069547 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACAA
* * ** *
1069611 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAA
**
1069676 GTTGAAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
129 GTTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
1069741 TGCGTTGTCTGG
194 TGCGTTGTCTGG
* * *
1069753 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
1069818 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
1069883 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
131 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
1069948 CGTTGTCTGG
196 CGTTGTCTGG
* *
1069958 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
* *
1070023 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTTGCTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1070088 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTTGTCGTGAAGTTGAACTTG
131 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
1070153 CGTTGTCTGG
196 CGTTGTCTGG
* *
1070163 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
1070228 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTTTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
* *
1070293 TGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
1070358 ACTTGCGTTGTCTGG
191 ACTTGCGTTGTCTGG
* * * * *
1070373 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGG-AAGTTG-TTGTTGACAA
*
1070438 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * *
1070503 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGT
129 GTTGAAATTGGCTCTG-AA-TGA-AA--T-TTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGT
* *
1070568 TGAACTTGTGTTGTCTCG
188 TGAACTTGCGTTGTCTGG
* * *
1070586 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
1070620 CGCGGATGGC
Statistics
Matches: 806, Mismatches: 45, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
205 484 0.60
206 46 0.06
207 2 0.00
209 5 0.01
210 95 0.12
211 6 0.01
212 90 0.11
213 53 0.07
214 4 0.00
216 21 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (205 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
CGTTGTCTGG
Found at i:1070099 original size:310 final size:312
Alignment explanation
Indices: 1069547--1070619 Score: 1553
Period size: 310 Copynumber: 3.4 Consensus size: 312
1069537 CATTGTTCCA
* * * *
1069547 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAA-C-TGAAAGTGTTTGTTGACAAC
* *
1069612 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
63 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
**
1069677 TTGAAATTGAATCTGA-A-T-GAAA-TT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
128 TTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
*
1069737 AACTTGCGTTGTCTGGAGTCCAATAT-CTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGA
193 AACTTGCGTTGTCTGGAGTCCAATATCCTTT-GCTGTGAAGTTGAAATTGGCTCT-GGATTGGGA
* *
1069801 AGTTGTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
256 AATTGTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1069858 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA-TGAAA-T-TTTGTTGACAAGCAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAACTGAAAGTGTTTGTTGACAACCAG
* *
1069920 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
66 CCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTG
1069985 AAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 AAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* *
1070050 TTGCATTGTCTGGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCT-GAAT--GAAATT-
196 TTGCGTTGTCTGGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGGATTGGGAAATTG
* *
1070111 TTGTTGACAAGCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTGG
261 TTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1070163 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGT-TGTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-ACT-GAAAGTGT-TTGTTGACAAC
* * * *
1070227 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTTTCTGGAGTCCAATATCCTTCGTTGTGAAG
63 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
* *
1070292 TTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
128 TTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
* * *
1070357 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAGCTCTGAAATTGGGAA
193 AACTTGCGTTGTCTGGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTG-GATTGGG-A
* *
1070422 AATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
256 AATTG-TTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1070480 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AACTGA-AAG-TGTTTGTTGACAAC
* * * *
1070545 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCCACGATATCCTCCGTCGTG
63 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGT-CCA--ATATCCTTCGTTGTG
*
1070610 GAGTTGAAAT
125 AAGTTGAAAT
1070620 CGCGGATGGC
Statistics
Matches: 696, Mismatches: 41, Indels: 40
0.90 0.05 0.05
Matches are distributed among these distances:
305 174 0.25
306 8 0.01
307 6 0.01
308 11 0.02
309 4 0.01
310 274 0.39
311 39 0.06
312 2 0.00
314 1 0.00
315 5 0.01
316 2 0.00
317 94 0.14
318 50 0.07
319 4 0.01
321 22 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (312 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAACTGAAAGTGTTTGTTGACAACCAG
CCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTG
AAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
TTGCGTTGTCTGGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGGATTGGGAAATTG
TTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1071313 original size:68 final size:65
Alignment explanation
Indices: 1071220--1071377 Score: 190
Period size: 68 Copynumber: 2.4 Consensus size: 65
1071210 AAGATATCTG
* * * * ** *
1071220 TTGTTTCATGAGAAACAGTTTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAAACAAAATTAT-TTTTAAGGGAAATAAATTCAAAG-G
1071285 TT
64 TT
* * * *
1071287 TGTGTTTCAAGTGTAACTGTCTCAAGGGAGACAAAATTATTTTTAGGGGAAATAAATTCAAAGGT
1 T-TGTTTCAAGGGAAACTGTCTCAAGGGAAACAAAATTATTTTTAAGGGAAATAAATTCAAAGGT
1071352 T
65 T
1071353 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGGGAAACTGTCTCAAG
1071378 ATAGACGAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
65 22 0.28
66 3 0.04
67 21 0.27
68 32 0.41
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.34
Consensus pattern (65 bp):
TTGTTTCAAGGGAAACTGTCTCAAGGGAAACAAAATTATTTTTAAGGGAAATAAATTCAAAGGTT
Found at i:1071404 original size:36 final size:35
Alignment explanation
Indices: 1071353--1071632 Score: 261
Period size: 36 Copynumber: 8.0 Consensus size: 35
1071343 TTCAAAGGTT
* *
1071353 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
*
1071389 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAC
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
1071424 TTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAAT
1 TT-GTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
* * **
1071461 TTGTTTCAA-AGAAAACATAT-TC---A-A-A-TATT
1 TTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
*
1071490 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * *
1071525 TTTATTTCAAGGGAAACTTTCTCAAGATAGACGAAAT
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
1071562 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
1071597 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAA
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1071633 CTCTTCTAGT
Statistics
Matches: 201, Mismatches: 28, Indels: 30
0.78 0.11 0.12
Matches are distributed among these distances:
28 2 0.01
29 17 0.08
30 1 0.00
31 1 0.00
32 2 0.01
33 1 0.00
34 1 0.00
35 11 0.05
36 155 0.77
37 10 0.05
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (35 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:1071453 original size:137 final size:137
Alignment explanation
Indices: 1071301--1071606 Score: 402
Period size: 137 Copynumber: 2.2 Consensus size: 137
1071291 TTTCAAGTGT
* ** * * *
1071301 AACTGTCTCAAGGGAGACAAAATTAT-TTTTAGGGGAAATAAATTCAAAGGTTTTGTTTCAAGGG
1 AACTGTCTCAAGGGAGACAAAATT-TGTTTCAAAGAAAACAAATTCAAAGATTTTGTTTCAAGGG
* *
1071365 AAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAACTTAG
65 AAACTGTCTCAAGAGAGAC-AAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTAG
1071428 TTCCAAAAGA
128 TTCCAAAAGA
* * *
1071438 AACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGATTTTGTTTCAAGGGA
* * * * *
1071503 AACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTTTCTCAAGATAGACGAAATTTGTTT
66 AACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTAGTTC
*
1071568 CAAGAGA
131 CAAAAGA
*
1071575 AACTGTCTCAAGAGAGACAAAATTTGTTTCAA
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAA
1071607 GGGAAACTGT
Statistics
Matches: 147, Mismatches: 19, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
136 5 0.03
137 139 0.95
138 3 0.02
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (137 bp):
AACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGATTTTGTTTCAAGGGA
AACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTAGTTC
CAAAAGA
Found at i:1071494 original size:101 final size:102
Alignment explanation
Indices: 1071389--1071576 Score: 281
Period size: 101 Copynumber: 1.9 Consensus size: 102
1071379 TAGACGAAAA
*
1071389 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAACTTAGTTCCAAAAGAAACTGTCTCAAGGGA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA-TTCCAAAAGAAACTGTCTCAAGAGA
1071453 GACGAAATTTGTTTCAA-AGAAAACATATTCAAATATT
65 GACGAAATTTGTTTCAAGAGAAAACATATTCAAATATT
* * * ** * *
1071490 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTTTCTCAAGATAG
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGAG
1071555 ACGAAATTTGTTTCAAGAGAAA
66 ACGAAATTTGTTTCAAGAGAAA
1071577 CTGTCTCAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 66 0.86
102 11 0.14
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (102 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGAG
ACGAAATTTGTTTCAAGAGAAAACATATTCAAATATT
Found at i:1071674 original size:71 final size:72
Alignment explanation
Indices: 1071494--1071674 Score: 215
Period size: 72 Copynumber: 2.5 Consensus size: 72
1071484 AATATTTTGT
* * * * *
1071494 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTTTCTCAAGATAGACGA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
** *
1071559 AATTTGT
66 AAACTGC
1071566 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA-AA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1071630 AAACT-C
66 AAACTGC
* * * *
1071636 TTCTAGTGAAAACGGTCTCAAGTGAGAC-AAATCTTGTTT
1 TTCAAGAG-AAACTGTCTCAAGAGAGACAAAAT-TTGTTT
1071675 TAAGAAAACA
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
70 10 0.11
71 27 0.28
72 58 0.61
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (72 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
AAACTGC
Found at i:1071682 original size:35 final size:35
Alignment explanation
Indices: 1071490--1071768 Score: 126
Period size: 36 Copynumber: 7.8 Consensus size: 35
1071480 TTCAAATATT
* * *
1071490 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT-
1 TTGTTTCAA-GAAAACAGTCTCAAGTGAGAC-AAATC
* * **
1071526 TTATTTCAAGGGAAACTTTCTCAAGAT-AGACGAAAT-
1 TTGTTTCAA-GAAAACAGTCTCAAG-TGAGAC-AAATC
* *
1071562 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT-
1 TTGTTTCAAGA-AAACAGTCTCAAGTGAGAC-AAATC
* * * * *
1071598 TTGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAAC
1 TTGTTTCAA-GAAAACAGTCTCAAGTGAGACAAATC
* * *
1071634 -T-CTTCTAGTGAAAACGGTCTCAAGTGAGACAAATC
1 TTGTTTC-A-AGAAAACAGTCTCAAGTGAGACAAATC
* * * * *
1071669 TTGTTTTAAGAAAACAATCAT-GAGTGAAATAAATC
1 TTGTTTCAAGAAAACAGTC-TCAAGTGAGACAAATC
* * *
1071704 TTCTTTCGAGTAAAACAGTCCCAAGTGAGACAAAGTC
1 TTGTTTCAAG-AAAACAGTCTCAAGTGAGACAAA-TC
* *
1071741 -TGTTTTAA-AAAAGCAATCTCAAGTGAGA
1 TTGTTTCAAGAAAA-CAGTCTCAAGTGAGA
1071769 TAATCATCTG
Statistics
Matches: 189, Mismatches: 40, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
34 7 0.04
35 66 0.35
36 111 0.59
37 5 0.03
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (35 bp):
TTGTTTCAAGAAAACAGTCTCAAGTGAGACAAATC
Found at i:1072114 original size:18 final size:18
Alignment explanation
Indices: 1072091--1072126 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1072081 TGTTGAATCC
*
1072091 CCAAAAATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
1072109 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
1072127 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.31, G:0.06, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:1072602 original size:29 final size:29
Alignment explanation
Indices: 1072560--1072622 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
1072550 TTGGCATTTG
1072560 ATGCTCAAAGGATTGATGGGGTAGCTTGC
1 ATGCTCAAAGGATTGATGGGGTAGCTTGC
1072589 ATGCTCAAAGGATTGATGGGGTAGCTTGC
1 ATGCTCAAAGGATTGATGGGGTAGCTTGC
1072618 ATGCT
1 ATGCT
1072623 TCTCTACTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (29 bp):
ATGCTCAAAGGATTGATGGGGTAGCTTGC
Found at i:1073236 original size:20 final size:21
Alignment explanation
Indices: 1073212--1073273 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
1073202 TTTTTTGTTC
*
1073212 CCTTTTTTATTTTTGTTCTTT
1 CCTTTTTTATTCTTGTTCTTT
* *
1073233 -CTTTTTTGTTCTTGTTTTTT
1 CCTTTTTTATTCTTGTTCTTT
*
1073253 CCTTTTTTGCTTCTT-TTCTTT
1 CCTTTTTT-ATTCTTGTTCTTT
1073274 TTTCTTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 12 0.35
22 5 0.15
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (21 bp):
CCTTTTTTATTCTTGTTCTTT
Found at i:1073284 original size:22 final size:22
Alignment explanation
Indices: 1073230--1073282 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
1073220 ATTTTTGTTC
1073230 TTTCTTTTTTG-TTCTTGTTTT
1 TTTCTTTTTTGCTTCTTGTTTT
* *
1073251 TTCCTTTTTTGCTTCTTTTCTTT
1 TTTCTTTTTTGCTTCTTGT-TTT
1073274 TTTCTTTTT
1 TTTCTTTTT
1073283 GCCCTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 11 0.41
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTCTTTTTTGCTTCTTGTTTT
Found at i:1076911 original size:21 final size:21
Alignment explanation
Indices: 1076867--1076921 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
1076857 AGTAAAATAT
* *
1076867 TAAATAAATATATATATAATAA
1 TAAATAAA-ATATATAAAAAAA
1076889 T-AATAAAATATAGTAAAAAAA
1 TAAATAAAATATA-TAAAAAAA
1076910 TAAATGAAAATA
1 TAAAT-AAAATA
1076922 ATTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 5 0.18
21 13 0.46
22 4 0.14
23 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
TAAATAAAATATATAAAAAAA
Found at i:1076921 original size:45 final size:45
Alignment explanation
Indices: 1076828--1076914 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
1076818 AGATAATTAC
* * ** * *
1076828 AATATATATATAGTAATATTAGACTTATAAGTAAAATATTAAATA
1 AATATATATATAATAATAATAGAAATATAAGTAAAAAAATAAATA
1076873 AATATATATATAATAATAATA-AAATAT-AGTAAAAAAATAAAT
1 AATATATATATAATAATAATAGAAATATAAGTAAAAAAATAAAT
1076915 GAAAATAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 13 0.36
44 4 0.11
45 19 0.53
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (45 bp):
AATATATATATAATAATAATAGAAATATAAGTAAAAAAATAAATA
Found at i:1078326 original size:83 final size:83
Alignment explanation
Indices: 1078187--1078356 Score: 340
Period size: 83 Copynumber: 2.0 Consensus size: 83
1078177 CAGACAATTG
1078187 TTAAATTTTTAAGAAAAAATGACGAATTTGGAACATAATGAATAGTCGAGTAACAATTTTGTAAC
1 TTAAATTTTTAAGAAAAAATGACGAATTTGGAACATAATGAATAGTCGAGTAACAATTTTGTAAC
1078252 TTTTAATAGTTTAGGAAC
66 TTTTAATAGTTTAGGAAC
1078270 TTAAATTTTTAAGAAAAAATGACGAATTTGGAACATAATGAATAGTCGAGTAACAATTTTGTAAC
1 TTAAATTTTTAAGAAAAAATGACGAATTTGGAACATAATGAATAGTCGAGTAACAATTTTGTAAC
1078335 TTTTAATAGTTTAGGAAC
66 TTTTAATAGTTTAGGAAC
1078353 TTAA
1 TTAA
1078357 CAAAGCAACT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 87 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.35
Consensus pattern (83 bp):
TTAAATTTTTAAGAAAAAATGACGAATTTGGAACATAATGAATAGTCGAGTAACAATTTTGTAAC
TTTTAATAGTTTAGGAAC
Found at i:1080824 original size:17 final size:18
Alignment explanation
Indices: 1080793--1080831 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1080783 TTTATTATTT
*
1080793 ATAATAATATAAATTTAG
1 ATAATAATATAAATTTAA
*
1080811 ATAA-AATATTAATTTAA
1 ATAATAATATAAATTTAA
1080828 ATAA
1 ATAA
1080832 CTTTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATAATATAAATTTAA
Found at i:1081394 original size:17 final size:17
Alignment explanation
Indices: 1081372--1081405 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1081362 ATTTTTATTG
1081372 AATAAAAATAATATTTT
1 AATAAAAATAATATTTT
* *
1081389 AATAAATATATTATTTT
1 AATAAAAATAATATTTT
1081406 GGGTCGGAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATAAAAATAATATTTT
Found at i:1081921 original size:29 final size:29
Alignment explanation
Indices: 1081879--1081935 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
1081869 GAATCCATCA
*
1081879 ACTATTAAAAGTTATAAAATAGTTACTCG
1 ACTATTAAAAGTTATAAAATAGTCACTCG
*
1081908 ACTATTAAATGTTATAAAATAGTCACTC
1 ACTATTAAAAGTTATAAAATAGTCACTC
1081936 CTTTATCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (29 bp):
ACTATTAAAAGTTATAAAATAGTCACTCG
Found at i:1084157 original size:51 final size:51
Alignment explanation
Indices: 1084069--1084276 Score: 296
Period size: 51 Copynumber: 4.0 Consensus size: 51
1084059 TACGGAGCTA
1084069 ATGCTTGAATCGGTGGTTGTCTAGTCAACTGCTGATTGTTATTCACCGGTGCTG
1 ATGCTTGAATC---GGTTGTCTAGTCAACTGCTGATTGTTATTCACCGGTGCTG
*
1084123 ATGCTTGAATCAGTTGTCTAG-CTAACT-CTGGATTGTTATTCACCGGTGCTG
1 ATGCTTGAATCGGTTGTCTAGTC-AACTGCT-GATTGTTATTCACCGGTGCTG
** * *
1084174 ATGCTTGAATCGGTTGTCTAGTCATTTG-TGGATCGTTATTCACTGGTGCTG
1 ATGCTTGAATCGGTTGTCTAGTCAACTGCT-GATTGTTATTCACCGGTGCTG
1084225 ATGCTTGAATCGGTTGTCTAGTCAACTGCTGATTGTTATTCACCGGTGCTG
1 ATGCTTGAATCGGTTGTCTAGTCAACTGCTGATTGTTATTCACCGGTGCTG
1084276 A
1 A
1084277 ACTTGCATAT
Statistics
Matches: 139, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
50 3 0.02
51 123 0.88
52 2 0.01
54 11 0.08
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (51 bp):
ATGCTTGAATCGGTTGTCTAGTCAACTGCTGATTGTTATTCACCGGTGCTG
Found at i:1084379 original size:51 final size:51
Alignment explanation
Indices: 1084291--1084396 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
1084281 GCATATGGAA
* *
1084291 CTGATTCTTGAATCAGTTGTCTAGCTAACTCTGGATTGTTATCCACTGGTG
1 CTGATGCTTGAATCAGTTGTCTAGCTAACTCTGGATTGTTATCCACCGGTG
* *
1084342 CTGATGCTTGAATCGGTTGTCGT-G-TCAACTGCT-GATTGTTATTCACCGGTG
1 CTGATGCTTGAATCAGTTGTC-TAGCT-AACT-CTGGATTGTTATCCACCGGTG
1084393 CTGA
1 CTGA
1084397 ACTTGTATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
50 1 0.02
51 44 0.92
52 3 0.06
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.38
Consensus pattern (51 bp):
CTGATGCTTGAATCAGTTGTCTAGCTAACTCTGGATTGTTATCCACCGGTG
Found at i:1084384 original size:120 final size:120
Alignment explanation
Indices: 1084171--1084506 Score: 464
Period size: 120 Copynumber: 2.8 Consensus size: 120
1084161 TTCACCGGTG
* ** * *
1084171 CTGATGCTTGAATCGGTTGTCTAG-TCATTTGTGGATCGTTATTCACTGGTGCTGATGCTTGAAT
1 CTGATGCTTGAATCAGTTGTCTAGCT-AACTCTGGATTGTTATTCACTGGTGCTGATGCTTGAAT
**
1084235 CGGTTGTCTAGTCAACTGCTGATTGTTATTCACCGGTGCTGAACTTGCATATGGAA
65 CGGTTGTCTAGTCAACTGCTGATTGTTATTCACCGGTGCTGAACTTGCATACAGAA
* *
1084291 CTGATTCTTGAATCAGTTGTCTAGCTAACTCTGGATTGTTATCCACTGGTGCTGATGCTTGAATC
1 CTGATGCTTGAATCAGTTGTCTAGCTAACTCTGGATTGTTATTCACTGGTGCTGATGCTTGAATC
* *
1084356 GGTTGTCGT-GTCAACTGCTGATTGTTATTCACCGGTGCTGAACTTGTATACAGAG
66 GGTTGTC-TAGTCAACTGCTGATTGTTATTCACCGGTGCTGAACTTGCATACAGAA
* * * *
1084411 CTGATGCTTGAATTAGTTGTCTAGCTAACTCTGGATTGTTATTCAATAGTGCTGATGCTTGAATT
1 CTGATGCTTGAATCAGTTGTCTAGCTAACTCTGGATTGTTATTCACTGGTGCTGATGCTTGAATC
*
1084476 AGTTGTCTAG-CTAACT-CTGGATTGTTATTCA
66 GGTTGTCTAGTC-AACTGCT-GATTGTTATTCA
1084507 ATAGTCCTGA
Statistics
Matches: 193, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
119 4 0.02
120 187 0.97
121 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (120 bp):
CTGATGCTTGAATCAGTTGTCTAGCTAACTCTGGATTGTTATTCACTGGTGCTGATGCTTGAATC
GGTTGTCTAGTCAACTGCTGATTGTTATTCACCGGTGCTGAACTTGCATACAGAA
Found at i:1084436 original size:24 final size:24
Alignment explanation
Indices: 1084409--1084487 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 24
1084399 TTGTATACAG
1084409 AGCTGATGCTTGAATTAGTTGTCT
1 AGCTGATGCTTGAATTAGTTGTCT
* * *
1084433 AGCT-A-ACTCTGGATT-GTTATTCAAT
1 AGCTGATGCT-TGAATTAGTT-GTC--T
1084458 AGTGCTGATGCTTGAATTAGTTGTCT
1 A--GCTGATGCTTGAATTAGTTGTCT
1084484 AGCT
1 AGCT
1084488 AACTCTGGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
22 5 0.12
23 8 0.20
24 7 0.17
25 2 0.05
26 2 0.05
27 3 0.08
28 8 0.20
29 5 0.12
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.41
Consensus pattern (24 bp):
AGCTGATGCTTGAATTAGTTGTCT
Found at i:1084474 original size:171 final size:170
Alignment explanation
Indices: 1083979--1084591 Score: 626
Period size: 171 Copynumber: 3.6 Consensus size: 170
1083969 GTCAACTGCT
* * *
1083979 GATTATTATTCACTGGTGCTGATGTTTGAATCGGTTGTCTAGTCAGCTGCTGATTGTTATTCACC
1 GATTGTTATTCACTGGTGCTGATGCTTGAATCGGTTGTCTAGTCAACTGCTGATTGTTATTCACC
** *
1084044 GGTGCTGAGTTTGTATACGGAGCTAATGCTTGAATCGGTGGTTGTCTAGTCAACTGCT-GATTGT
66 GGTGCTGAACTTGTATACAGAGCTAATGCTTGAAT--GT-GTTGTCTAGT-AACT-CTGGATTGT
**
1084108 TATTCACCGGTGCTGATGCTTGAATCAGTTGTCTAGCTAACTCTG
126 TATTCAATGGTGCTGATGCTTGAATCAGTTGTCTAGCTAACTCTG
* ** *
1084153 GATTGTTATTCACCGGTGCTGATGCTTGAATCGGTTGTCTAGTCATTTG-TGGATCGTTATTCAC
1 GATTGTTATTCACTGGTGCTGATGCTTGAATCGGTTGTCTAGTCAACTGCT-GATTGTTATTCAC
* * * * * *
1084217 TGGTGCTGATGCTTGAAT-C-G-G-T--TGTCTAGTCAACTGCTGATTGT-TATTCAC-C-GG--
65 CGGTGCTGA-ACTTGTATACAGAGCTAATG-CT--TGAA-TG-TG-TTGTCTAGTAACTCTGGAT
* ** *
1084271 TGCTGAACTTGCATATGGAACTGATTCTTGAATCAGTTGTCTAGCTAACTCTG
123 TG-T-TA-TT-CA-ATGGTGCTGATGCTTGAATCAGTTGTCTAGCTAACTCTG
*
1084324 GATTGTTATCCACTGGTGCTGATGCTTGAATCGGTTGTCGT-GTCAACTGCTGATTGTTATTCAC
1 GATTGTTATTCACTGGTGCTGATGCTTGAATCGGTTGTC-TAGTCAACTGCTGATTGTTATTCAC
*
1084388 CGGTGCTGAACTTGTATACAGAGCTGATGCTTGAAT-TAGTTGTCTAGCTAACTCTGGATTGTTA
65 CGGTGCTGAACTTGTATACAGAGCTAATGCTTGAATGT-GTTGTCTAG-TAACTCTGGATTGTTA
* *
1084452 TTCAATAGTGCTGATGCTTGAATTAGTTGTCTAGCTAACTCTG
128 TTCAATGGTGCTGATGCTTGAATCAGTTGTCTAGCTAACTCTG
* * * * * *
1084495 GATTGTTATTCAATAGTCCTGATGCTTGAATCTGTTGTCTAGTCAACTGCTGATTGTTATTTACT
1 GATTGTTATTCACTGGTGCTGATGCTTGAATCGGTTGTCTAGTCAACTGCTGATTGTTATTCACC
* *
1084560 GGTGCTGGATTTGTATACAGAGCTAATGCTTG
66 GGTGCTGAACTTGTATACAGAGCTAATGCTTG
1084592 TCTAATCAAC
Statistics
Matches: 364, Mismatches: 45, Indels: 63
0.77 0.10 0.13
Matches are distributed among these distances:
166 2 0.01
167 1 0.00
168 3 0.01
169 4 0.01
170 18 0.05
171 226 0.62
172 18 0.05
173 10 0.03
174 69 0.19
175 9 0.02
176 4 0.01
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.38
Consensus pattern (170 bp):
GATTGTTATTCACTGGTGCTGATGCTTGAATCGGTTGTCTAGTCAACTGCTGATTGTTATTCACC
GGTGCTGAACTTGTATACAGAGCTAATGCTTGAATGTGTTGTCTAGTAACTCTGGATTGTTATTC
AATGGTGCTGATGCTTGAATCAGTTGTCTAGCTAACTCTG
Found at i:1084486 original size:51 final size:51
Alignment explanation
Indices: 1084410--1084555 Score: 235
Period size: 51 Copynumber: 2.9 Consensus size: 51
1084400 TGTATACAGA
1084410 GCTGATGCTTGAATTAGTTGTCTAGCTAACTCTGGATTGTTATTCAATAGT
1 GCTGATGCTTGAATTAGTTGTCTAGCTAACTCTGGATTGTTATTCAATAGT
1084461 GCTGATGCTTGAATTAGTTGTCTAGCTAACTCTGGATTGTTATTCAATAGT
1 GCTGATGCTTGAATTAGTTGTCTAGCTAACTCTGGATTGTTATTCAATAGT
*
1084512 CCTGATGCTTGAATCT-GTTGTCTAG-TCAACTGCT-GATTGTTATT
1 GCTGATGCTTGAAT-TAGTTGTCTAGCT-AACT-CTGGATTGTTATT
1084556 TACTGGTGCT
Statistics
Matches: 91, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
50 1 0.01
51 87 0.96
52 3 0.03
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (51 bp):
GCTGATGCTTGAATTAGTTGTCTAGCTAACTCTGGATTGTTATTCAATAGT
Found at i:1084667 original size:51 final size:51
Alignment explanation
Indices: 1084606--1084720 Score: 122
Period size: 51 Copynumber: 2.3 Consensus size: 51
1084596 ATCAACCGTT
* * * *
1084606 GATTGTTATTCACCGATGCTGATGCTTGAATTGGTTGTCCAGCCAACTGCA
1 GATTGCTATTCACCGATGATGATGCTTGAATCGGTTGTCCAACCAACTGCA
** * * * * **
1084657 GATTGCTATTCATTGTTGATGATGCTTGGATCGGTTGTCTAATCAACTGTG
1 GATTGCTATTCACCGATGATGATGCTTGAATCGGTTGTCCAACCAACTGCA
1084708 GATTGCTATTCAC
1 GATTGCTATTCAC
1084721 TGGTGTTGAA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (51 bp):
GATTGCTATTCACCGATGATGATGCTTGAATCGGTTGTCCAACCAACTGCA
Found at i:1084753 original size:162 final size:162
Alignment explanation
Indices: 1084460--1084753 Score: 342
Period size: 162 Copynumber: 1.8 Consensus size: 162
1084450 TATTCAATAG
* * * * *
1084460 TGCTGATGCTTGAATTAGTTGTCTAGCTAACTCTGGATTGTTATTCAATAGTCCTGATGCTTGAA
1 TGCTGATGCTTGAATTAGTTGTCCAGCCAACTCTAGATTGCTATTCAATAGTCATGATGCTTGAA
* * * * * * ***
1084525 TCTGTTGTCTAGTCAACTGCTGATTGTTATTTACTGGTGCTGGATTTGTATACAGAGCTAATGCT
66 TCGGTTGTCTAATCAACTGCTGATTGCTATTCACTGGTGCTGAACTCACATACAGAGCTAATGCT
1084590 TGTCTAATCAACCGTTGATTGTTATTCACCGA
131 TGTCTAATCAACCGTTGATTGTTATTCACCGA
* * *
1084622 TGCTGATGCTTGAATTGGTTGTCCAGCCAACTGC-AGATTGCTATTC-ATTGTTGATGATGCTTG
1 TGCTGATGCTTGAATTAGTTGTCCAGCCAACT-CTAGATTGCTATTCAATAG-TCATGATGCTTG
* * * * *
1084685 GATCGGTTGTCTAATCAACTG-TGGATTGCTATTCACTGGTGTTGAACTCACATTCGGAGCTGAT
64 AATCGGTTGTCTAATCAACTGCT-GATTGCTATTCACTGGTGCTGAACTCACATACAGAGCTAAT
1084749 GCTTG
128 GCTTG
1084754 AATCCGTTGT
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
161 4 0.04
162 102 0.95
163 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (162 bp):
TGCTGATGCTTGAATTAGTTGTCCAGCCAACTCTAGATTGCTATTCAATAGTCATGATGCTTGAA
TCGGTTGTCTAATCAACTGCTGATTGCTATTCACTGGTGCTGAACTCACATACAGAGCTAATGCT
TGTCTAATCAACCGTTGATTGTTATTCACCGA
Done.