Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002441.1 Hibiscus syriacus cultivar Beakdansim tig00004997_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: 147266
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3410 original size:22 final size:23
Alignment explanation
Indices: 3384--3445 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
3374 GGCATGTGAA
3384 ATATGTCCTGAAGAACCTA-TAT-
1 ATATGTCCTGAAGAACC-ACTATC
* *
3406 ATATGTCCCGAAGGACCACTATCC
1 ATATGTCCTGAAGAACCACTAT-C
*
3430 ATATGTTCTGAAGAAC
1 ATATGTCCTGAAGAAC
3446 ATAAGTAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 18 0.56
24 13 0.41
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (23 bp):
ATATGTCCTGAAGAACCACTATC
Found at i:4083 original size:19 final size:18
Alignment explanation
Indices: 4052--4094 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
4042 AGCATATATT
*
4052 CATACAAAACATATCACA
1 CATACAAAACATATAACA
*
4070 CATACAATAACATATAACT
1 CATACAA-AACATATAACA
4089 CATACA
1 CATACA
4095 CTTCTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (18 bp):
CATACAAAACATATAACA
Found at i:12565 original size:8 final size:9
Alignment explanation
Indices: 12549--12575 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
12539 AGACATGATT
12549 TTAAAAAAA
1 TTAAAAAAA
12558 TTAAAAAAA
1 TTAAAAAAA
12567 TTAAAAAAA
1 TTAAAAAAA
12576 ATTAGATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:12566 original size:10 final size:10
Alignment explanation
Indices: 12551--12579 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
12541 ACATGATTTT
12551 AAAAAAATT-
1 AAAAAAATTA
12560 AAAAAAATTA
1 AAAAAAATTA
12570 AAAAAAATTA
1 AAAAAAATTA
12580 GATACTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:13203 original size:20 final size:19
Alignment explanation
Indices: 13178--13225 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
13168 TCATAATCAA
13178 TTTATAATATTTCGATAAAT
1 TTTATAATATTT-GATAAAT
*
13198 TTTATAATTATTTTATAAAT
1 TTTATAA-TATTTGATAAAT
13218 TTTA-AATA
1 TTTATAATA
13226 ATTTAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 2 0.08
19 2 0.08
20 17 0.65
21 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTATAATATTTGATAAAT
Found at i:13204 original size:9 final size:10
Alignment explanation
Indices: 13178--13234 Score: 50
Period size: 9 Copynumber: 5.9 Consensus size: 10
13168 TCATAATCAA
13178 TTTATAATAT
1 TTTATAATAT
*
13188 TTCGATAA-AT
1 TT-TATAATAT
13198 TTTATAATTAT
1 TTTATAA-TAT
13209 TTTATAA-AT
1 TTTATAATAT
*
13218 TTTA-AATAA
1 TTTATAATAT
13227 TTTA-AATA
1 TTTATAATA
13235 ATGGAAACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 2 0.05
9 19 0.47
10 6 0.15
11 13 0.32
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (10 bp):
TTTATAATAT
Found at i:13235 original size:20 final size:20
Alignment explanation
Indices: 13178--13231 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
13168 TCATAATCAA
*
13178 TTTATAAT-ATTTCGATAAAT
1 TTTATAATAATTT-AATAAAT
* *
13198 TTTATAATTATTTTATAAAT
1 TTTATAATAATTTAATAAAT
13218 TTTA-AATAATTTAA
1 TTTATAATAATTTAA
13232 ATAATGGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.27
20 18 0.60
21 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTATAATAATTTAATAAAT
Found at i:14200 original size:40 final size:40
Alignment explanation
Indices: 14142--14231 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
14132 AAAATAAAAT
* *
14142 AAAAACTAAAGTTTTTAACGACGGAGTATTAAAGTGAAAC
1 AAAAACTAAAGTTCTTAACGACAGAGTATTAAAGTGAAAC
*
14182 AAAAATTAAAGTTCTTAACGACAGAGTATTAAAGTGAAAC
1 AAAAACTAAAGTTCTTAACGACAGAGTATTAAAGTGAAAC
*
14222 ATAAACTAAA
1 AAAAACTAAA
14232 CTTTATGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.24
Consensus pattern (40 bp):
AAAAACTAAAGTTCTTAACGACAGAGTATTAAAGTGAAAC
Found at i:21979 original size:27 final size:28
Alignment explanation
Indices: 21923--22009 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 28
21913 GAAAAAATTG
*
21923 AATAGTTTAAGTACTTATTTTGACATAA
1 AATACTTTAAGTACTTATTTTGACATAA
* *
21951 AATACTTTAGGTAC-TATTTTGACCAAAA
1 AATACTTTAAGTACTTATTTTGA-CATAA
* * *
21979 AGATAATTTAATATATTTATTTTGAC-TAA
1 A-ATACTTTAA-GTACTTATTTTGACATAA
22008 AA
1 AA
22010 AAATATTTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
27 8 0.17
28 18 0.38
29 10 0.21
30 3 0.06
31 8 0.17
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.41
Consensus pattern (28 bp):
AATACTTTAAGTACTTATTTTGACATAA
Found at i:27021 original size:63 final size:63
Alignment explanation
Indices: 26854--27149 Score: 474
Period size: 63 Copynumber: 4.7 Consensus size: 63
26844 TCTACCTTCT
* * *
26854 CTTCATCTTTTCTTACTTGAATTCCTTCGTTTTGCAATGGATTCAGCTCCTCCACCTTAT-CC
1 CTTCATCTTTACTTACTTGAATTTCTTGGTTTTGCAATGGATTCAGCTCCTCCACCTTATACC
*
26916 ACTTCATCTTTAC-T--TTGAATTTCTTGGTTTTGCAATGGATTCAGCTTCTCCACCTTATACC
1 -CTTCATCTTTACTTACTTGAATTTCTTGGTTTTGCAATGGATTCAGCTCCTCCACCTTATACC
*
26977 CTTCATCTTTACTTACTTGAATTTCTTGGTTTTGCAATGGATTCAGCTTCTCCACCTTATACC
1 CTTCATCTTTACTTACTTGAATTTCTTGGTTTTGCAATGGATTCAGCTCCTCCACCTTATACC
27040 CTTCATCTTTACTTACTTGAATTTCTTGGTTTTGCAATGGATTCAGCTCCTCCACCTTATACC
1 CTTCATCTTTACTTACTTGAATTTCTTGGTTTTGCAATGGATTCAGCTCCTCCACCTTATACC
* * * *
27103 CTTCGTCTTTTCTTACTTGAATTTCTTGGTTTTGCACTGGAATCAGC
1 CTTCATCTTTACTTACTTGAATTTCTTGGTTTTGCAATGGATTCAGC
27150 GATTCCTCCT
Statistics
Matches: 220, Mismatches: 9, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
60 53 0.24
61 3 0.01
62 1 0.00
63 163 0.74
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.44
Consensus pattern (63 bp):
CTTCATCTTTACTTACTTGAATTTCTTGGTTTTGCAATGGATTCAGCTCCTCCACCTTATACC
Found at i:31443 original size:31 final size:31
Alignment explanation
Indices: 31406--31525 Score: 100
Period size: 31 Copynumber: 3.8 Consensus size: 31
31396 GTCTTTCGGG
31406 ACATATGAACAATATACCTATGTTCTACGGA
1 ACATATGAACAATATACCTATGTTCTACGGA
* * * *
31437 ATATATGGACAGA-ATTACCTATG-TCTTTCGGG
1 ACATATGAACA-ATA-TACCTATGTTC-TACGGA
* * ** *
31469 ACATATGGACAGTATATTTATGTTCTAAGGA
1 ACATATGAACAATATACCTATGTTCTACGGA
* *
31500 ACATATGAATAATTTACCTATGTTCT
1 ACATATGAACAATATACCTATGTTCT
31526 TCGGGACCTA
Statistics
Matches: 67, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
31 41 0.61
32 26 0.39
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (31 bp):
ACATATGAACAATATACCTATGTTCTACGGA
Found at i:31459 original size:32 final size:32
Alignment explanation
Indices: 31420--31542 Score: 101
Period size: 31 Copynumber: 3.9 Consensus size: 32
31410 ATGAACAATA
*
31420 TACCTATGTTCTACGGAATATATGGACAGAAT
1 TACCTATGTTCTACGGAACATATGGACAGAAT
* * *
31452 TACCTATG-TCTTTCGGGACATATGGACAGTA-
1 TACCTATGTTC-TACGGAACATATGGACAGAAT
** * *
31483 TATTTATGTTCTAAGGAACATAT-GA-ATAATT
1 TACCTATGTTCTACGGAACATATGGACAGAA-T
* * *
31514 TACCTATGTTCTTCGGGACCTATGGACAG
1 TACCTATGTTCTACGGAACATATGGACAG
31543 TTGCCGAGGT
Statistics
Matches: 67, Mismatches: 18, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
29 2 0.03
30 2 0.03
31 34 0.51
32 28 0.42
33 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (32 bp):
TACCTATGTTCTACGGAACATATGGACAGAAT
Found at i:31462 original size:63 final size:61
Alignment explanation
Indices: 31382--31537 Score: 188
Period size: 63 Copynumber: 2.5 Consensus size: 61
31372 GCCAAGAGTC
* * *
31382 GAAGAATTATCTATGTCTTTCGGGACATATGAACAATATACCTATGTTCTACGGAATATAT
1 GAAGAATTACCTATGTCTTTCGGGACATATGAACAATATACCTATGTTCTAAGGAACATAT
* * **
31443 GGACAGAATTACCTATGTCTTTCGGGACATATGGACAGTATATTTATGTTCTAAGGAACATAT
1 -GA-AGAATTACCTATGTCTTTCGGGACATATGAACAATATACCTATGTTCTAAGGAACATAT
* *
31506 GAATAATTTACCTATGT-TCTTCGGGACCTATG
1 GAAGAA-TTACCTATGTCT-TTCGGGACATATG
31538 GACAGTTGCC
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
61 4 0.05
62 26 0.32
63 52 0.63
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (61 bp):
GAAGAATTACCTATGTCTTTCGGGACATATGAACAATATACCTATGTTCTAAGGAACATAT
Found at i:32733 original size:12 final size:12
Alignment explanation
Indices: 32703--32740 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
32693 GAGAATGATT
32703 TATGATATAT-A
1 TATGATATATGA
*
32714 TAT-TTATATGA
1 TATGATATATGA
32725 TATGATATATGA
1 TATGATATATGA
32737 TATG
1 TATG
32741 TGAACATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 5 0.22
11 7 0.30
12 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (12 bp):
TATGATATATGA
Found at i:32739 original size:17 final size:17
Alignment explanation
Indices: 32703--32740 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
32693 GAGAATGATT
*
32703 TATGATATATATATTTA
1 TATGATATATATATTGA
32720 TATGATATGATATA-TGA
1 TATGATAT-ATATATTGA
32737 TATG
1 TATG
32741 TGAACATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (17 bp):
TATGATATATATATTGA
Found at i:34027 original size:27 final size:27
Alignment explanation
Indices: 33997--34057 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
33987 AGGAAAGCTT
*
33997 AAGTTGTCTTAAAATCAAAAGATGAAG
1 AAGTTATCTTAAAATCAAAAGATGAAG
*
34024 AAGTTATCTTGAAATCAAAAGATGAAG
1 AAGTTATCTTAAAATCAAAAGATGAAG
34051 AAGTTAT
1 AAGTTAT
34058 GAAAGATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.28
Consensus pattern (27 bp):
AAGTTATCTTAAAATCAAAAGATGAAG
Found at i:35657 original size:31 final size:30
Alignment explanation
Indices: 35619--35773 Score: 141
Period size: 31 Copynumber: 5.0 Consensus size: 30
35609 GTCGAAGAAT
35619 TACCTATGTCTTTCGGGACATATGAACAGTA
1 TACCTATGT-TTTCGGGACATATGAACAGTA
*
35650 TACCTATGTTTTACGGAACATATGAACA-TAA
1 TACCTATGTTTT-CGGGACATATGAACAGT-A
* *
35681 TTACCTATGTCTTTCAGGACATATGGACAGTA
1 -TACCTATGT-TTTCGGGACATATGAACAGTA
** * * *
35713 TACCTATGTTCTAAGGAACATATAAACAGTT
1 TACCTATGTT-TTCGGGACATATGAACAGTA
* * *
35744 TACCTAGGTTCTTCGGGACCTATGGACAGT
1 TACCTATGTT-TTCGGGACATATGAACAGT
35774 TGTCGAGGTT
Statistics
Matches: 100, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
30 5 0.05
31 69 0.69
32 22 0.22
33 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (30 bp):
TACCTATGTTTTCGGGACATATGAACAGTA
Found at i:35693 original size:63 final size:64
Alignment explanation
Indices: 35616--35773 Score: 216
Period size: 63 Copynumber: 2.5 Consensus size: 64
35606 AGAGTCGAAG
* * * *
35616 AATTACCTATGTCTTTCGGGACATATGAACAGTATACCTATGTTTTACGGAACATATGAACA-T
1 AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATGTTCTAAGGAACATATAAACAGT
*
35679 AATTACCTATGTCTTTCAGGACATATGGACAGTATACCTATGTTCTAAGGAACATATAAACAGT
1 AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATGTTCTAAGGAACATATAAACAGT
* *
35743 --TTACCTAGGT-TCTTCGGGACCTATGGACAGT
1 AATTACCTATGTCT-TTCGGGACATATGGACAGT
35774 TGTCGAGGTT
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
61 1 0.01
62 26 0.31
63 57 0.67
64 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (64 bp):
AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATGTTCTAAGGAACATATAAACAGT
Found at i:38221 original size:23 final size:23
Alignment explanation
Indices: 38163--38225 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
38153 ATCTCTCTAC
* * * *
38163 CTTTATGACACGTTTATGTATGC
1 CTTTATGGCACATTTATCTATGA
* * *
38186 CTTTGTAGTACATTTATCTATGA
1 CTTTATGGCACATTTATCTATGA
38209 CTTTATGGCACATTTAT
1 CTTTATGGCACATTTAT
38226 TCATTTTTTT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (23 bp):
CTTTATGGCACATTTATCTATGA
Found at i:43846 original size:2 final size:2
Alignment explanation
Indices: 43839--43915 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
43829 TCAAAATAAC
43839 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
43881 AT AT AT AT AT 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 AT AT AT AT AT A
43916 GAGAGAGAGA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:44917 original size:21 final size:21
Alignment explanation
Indices: 44891--44959 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
44881 GGCCGGGTAT
44891 ATATATATATATTTAAATTAA
1 ATATATATATATTTAAATTAA
* *
44912 ATATATATATTTTTAATTTAA
1 ATATATATATATTTAAATTAA
* * *
44933 AT-TAAATTTA-TTAATATTAT
1 ATATATATATATTTAA-ATTAA
44953 ATATATA
1 ATATATA
44960 ATAATTATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 4 0.11
20 10 0.26
21 24 0.63
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATATATATATTTAAATTAA
Found at i:45009 original size:13 final size:12
Alignment explanation
Indices: 44978--45009 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
44968 TTTTAATATT
44978 TATCGGGCCGGG
1 TATCGGGCCGGG
44990 TATCGGGCCGGG
1 TATCGGGCCGGG
45002 TAATCGGG
1 T-ATCGGG
45010 GTGGGATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.19
Consensus pattern (12 bp):
TATCGGGCCGGG
Found at i:53971 original size:10 final size:10
Alignment explanation
Indices: 53956--53980 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
53946 TTTTGAAAAA
53956 TATATTATTT
1 TATATTATTT
53966 TATATTATTT
1 TATATTATTT
53976 TATAT
1 TATAT
53981 AACTTAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TATATTATTT
Found at i:58115 original size:31 final size:31
Alignment explanation
Indices: 58077--58157 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
58067 ACGCGTTTAG
*
58077 TACCTAAACTATCAATTTTAGTCTGTTCTAA
1 TACCTAAACTATCAATTTTAGTCTATTCTAA
58108 TACCTAAACTATCAATTTTAGTCTATTCTAA
1 TACCTAAACTATCAATTTTAGTCTATTCTAA
58139 TACCTAAACT-TCCAATTTT
1 TACCTAAACTAT-CAATTTT
58158 TTCAAAACCA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 1 0.02
31 47 0.98
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (31 bp):
TACCTAAACTATCAATTTTAGTCTATTCTAA
Found at i:58262 original size:153 final size:152
Alignment explanation
Indices: 57984--58279 Score: 344
Period size: 153 Copynumber: 1.9 Consensus size: 152
57974 TATTCTGTTT
* * * * * * *
57984 TAATATCTAAACTTTCATTTTTCCAAAACCATGCCTAATGTTTAGTTTTTGTTTTATTATATTTT
1 TAATACCTAAACTTCCATTTTTCCAAAACCATACCTAACGTTTAGTTTTTGTTTCATTATATGTA
* ** * * * * **
58049 CTCGTCATTAATAACTTAACGCGTTTAGTACCTAAACTATCAATTTTAGTCTGTTCTAATACCTA
66 CCCACCATTAAAAACTTAACACATTTAGTACCTAAACTATCAATTTTAGCCAATTCTAATACCTA
58114 AACTATCAATTTTAGTCTATTC
131 AACTATCAATTTTAGTCTATTC
* *
58136 TAATACCTAAACTTCCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTTGTTTCATTTTA-GT
1 TAATACCTAAACTTCC-ATTTTTCCAAAACCATACCTAACGTTTAGTTTTTGTTTCATTATATGT
* * * *
58200 ACCCAACCGTTAAAAACTTAACACATTTAGTACCTAAACTATCAGTTTT-GACCAATTTTAATAT
65 ACCC-ACCATTAAAAACTTAACACATTTAGTACCTAAACTATCAATTTTAG-CCAATTCTAATAC
*
58264 CTAAACTTTCAATTTT
128 CTAAACTATCAATTTT
58280 TTTAAATTTA
Statistics
Matches: 118, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
152 18 0.15
153 100 0.85
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (152 bp):
TAATACCTAAACTTCCATTTTTCCAAAACCATACCTAACGTTTAGTTTTTGTTTCATTATATGTA
CCCACCATTAAAAACTTAACACATTTAGTACCTAAACTATCAATTTTAGCCAATTCTAATACCTA
AACTATCAATTTTAGTCTATTC
Found at i:67883 original size:21 final size:22
Alignment explanation
Indices: 67844--67884 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
67834 AAATATTACA
*
67844 AAAAAATAAATTATCTTTAAGT
1 AAAAAATAAATAATCTTTAAGT
*
67866 AAAAAATATATAAT-TTTAA
1 AAAAAATAAATAATCTTTAA
67885 ATCTAGCCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAAAATAAATAATCTTTAAGT
Found at i:68992 original size:14 final size:14
Alignment explanation
Indices: 68973--69001 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
68963 AGTTCAGGGG
68973 TTAAAATAAAATTT
1 TTAAAATAAAATTT
68987 TTAAAATAAAATTT
1 TTAAAATAAAATTT
69001 T
1 T
69002 AGAATTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAAAATAAAATTT
Found at i:71495 original size:41 final size:41
Alignment explanation
Indices: 71438--71520 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
71428 CATCCCTCAA
71438 ATAATTTCTTTCTCCCAATACTAGAGAGCTTTCTTGTGAGT
1 ATAATTTCTTTCTCCCAATACTAGAGAGCTTTCTTGTGAGT
71479 ATAATTTCTTTCTCCCAATACTAGAGAGCTTTCTTGTGAGT
1 ATAATTTCTTTCTCCCAATACTAGAGAGCTTTCTTGTGAGT
71520 A
1 A
71521 ATAAATATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.41
Consensus pattern (41 bp):
ATAATTTCTTTCTCCCAATACTAGAGAGCTTTCTTGTGAGT
Found at i:71795 original size:16 final size:16
Alignment explanation
Indices: 71774--71804 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71764 TATTATTCAA
*
71774 GTGAATAGTGAAATTC
1 GTGAATAGAGAAATTC
71790 GTGAATAGAGAAATT
1 GTGAATAGAGAAATT
71805 TTGTCCGCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.29
Consensus pattern (16 bp):
GTGAATAGAGAAATTC
Found at i:84195 original size:6 final size:6
Alignment explanation
Indices: 84184--84639 Score: 912
Period size: 6 Copynumber: 76.0 Consensus size: 6
84174 TTTTACACTT
84184 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
84232 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
84280 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
84328 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
84376 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
84424 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
84472 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
84520 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
84568 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
84616 TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG
84640 GGTATACCTG
Statistics
Matches: 450, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 450 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:87703 original size:59 final size:58
Alignment explanation
Indices: 87600--87772 Score: 152
Period size: 59 Copynumber: 2.9 Consensus size: 58
87590 GGGACGAAAT
** * *
87600 TGAAATGTTCAAAAAGTTTAGGGACCGATTTTGGATGA-AGGTCATAATTTGAAGATAAAA
1 TGAAATGTTC-AAAAGTTTAGGGACAAATTTAGAATGATA-GTCATAATTT-AAGATAAAA
* * * *
87660 TGAAATGTTCAAAAGTTTAAGGACAAATTTAGAATGATAGTCAT-GTTTAGGGATGAAA
1 TGAAATGTTCAAAAGTTTAGGGACAAATTTAGAATGATAGTCATAATTTA-AGATAAAA
** * * * *
87718 TGAGAACCTTTAAAAGTTTAGGGACTAATTTAAAACGATAGTCATAATTTTAAGA
1 TGA-AATGTTCAAAAGTTTAGGGACAAATTTAGAATGATAGTCATAA-TTTAAGA
87773 GGTGATGCAA
Statistics
Matches: 91, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
57 1 0.01
58 12 0.13
59 61 0.67
60 13 0.14
61 4 0.04
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (58 bp):
TGAAATGTTCAAAAGTTTAGGGACAAATTTAGAATGATAGTCATAATTTAAGATAAAA
Found at i:87848 original size:31 final size:31
Alignment explanation
Indices: 87812--87871 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
87802 TAAACTTTAG
87812 TAAGTTTAACT-ATTACGTTGTAATAATTCAC
1 TAAGTTTAA-TAATTACGTTGTAATAATTCAC
**
87843 TAAGTTTAATAATTATTTTGTAATAATTC
1 TAAGTTTAATAATTACGTTGTAATAATTC
87872 GACCATTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (31 bp):
TAAGTTTAATAATTACGTTGTAATAATTCAC
Found at i:101297 original size:27 final size:27
Alignment explanation
Indices: 101266--101345 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 27
101256 ATAAGGTGGT
101266 TCATACACTGGAGGCTTCTTTGGAGTC
1 TCATACACTGGAGGCTTCTTTGGAGTC
* * * *
101293 TCATAGACCGGTGG---C-TT--AGGC
1 TCATACACTGGAGGCTTCTTTGGAGTC
**
101314 TCATACGTTGGAGGCTTCTTTGGAGTC
1 TCATACACTGGAGGCTTCTTTGGAGTC
101341 TCATA
1 TCATA
101346 GACCGGTGGT
Statistics
Matches: 37, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
21 12 0.32
23 2 0.05
24 2 0.05
25 2 0.05
27 19 0.51
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.33
Consensus pattern (27 bp):
TCATACACTGGAGGCTTCTTTGGAGTC
Found at i:101450 original size:57 final size:57
Alignment explanation
Indices: 101388--101518 Score: 210
Period size: 57 Copynumber: 2.3 Consensus size: 57
101378 TTGGTGGTGT
* *
101388 ATAGACTGGTGGCTTTGGTGGCTTAGGCTCATACGTTGGTGGTTTCTTTGGATGCTC
1 ATAGACTGGTGGCTTTGGTGGCTTAGGCTCATACGTTGGTGGCTTCTTTGGAGGCTC
* * *
101445 ATAGACTGGTGGCTTTGGTGGTTTAGGCTCATATGTTGGTGGCTTCTTTGGAGGTTC
1 ATAGACTGGTGGCTTTGGTGGCTTAGGCTCATACGTTGGTGGCTTCTTTGGAGGCTC
101502 ATAGACTGGTGG-TTTGG
1 ATAGACTGGTGGCTTTGG
101519 GTTCAGGCTT
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
56 5 0.07
57 64 0.93
ACGTcount: A:0.13, C:0.13, G:0.35, T:0.39
Consensus pattern (57 bp):
ATAGACTGGTGGCTTTGGTGGCTTAGGCTCATACGTTGGTGGCTTCTTTGGAGGCTC
Found at i:101511 original size:27 final size:27
Alignment explanation
Indices: 101424--101513 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 27
101414 GCTCATACGT
* *
101424 TGGTGGTTTCTTTGGATGCTCATAGAC
1 TGGTGGCTTCTTTGGAGGCTCATAGAC
* *
101451 TGGTGGCTT-TGGTGGTTTAGGCTCATATG-T
1 TGGTGGCTTCT-TTGG---AGGCTCATA-GAC
*
101481 TGGTGGCTTCTTTGGAGGTTCATAGAC
1 TGGTGGCTTCTTTGGAGGCTCATAGAC
101508 TGGTGG
1 TGGTGG
101514 TTTGGGTTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
26 2 0.04
27 25 0.51
30 20 0.41
31 2 0.04
ACGTcount: A:0.12, C:0.12, G:0.36, T:0.40
Consensus pattern (27 bp):
TGGTGGCTTCTTTGGAGGCTCATAGAC
Found at i:101555 original size:45 final size:45
Alignment explanation
Indices: 101488--101873 Score: 278
Period size: 45 Copynumber: 8.2 Consensus size: 45
101478 TGTTGGTGGC
* *
101488 TTCTTTGGAGGTTCATAGACTGGTGGTTTGGGTTCAGGCTTCTCT
1 TTCTTTGGTGGTTCATAGACAGGTGGTTTGGGTTCAGGCTTCTCT
* * * ** **
101533 TTCTTTGGTGGTGT-ATAAACTGGTGGTTTAGGTTCATACGTTGGAGGC-
1 TTCTTTGGTGGT-TCATAGACAGGTGGTTTGGGTTCAGGC-TT---CTCT
* *
101581 TTCTTTGG-AGTCTCATAGACGGGTGGTTTGGGTTCAGGCTTCTCT
1 TTCTTTGGTGGT-TCATAGACAGGTGGTTTGGGTTCAGGCTTCTCT
* * * *
101626 TTCTTTGGTGGTGT-GTAAACCGGTGGCTTTGGTGGTTTAGGCTCATACGTCGGT
1 TTCTTTGGTGGT-TCATAGACAGGTGG-TTT-G-GGTTCAGGCT--T-C-TC--T
* * *
101680 GGCTTCTTTGGAT-GCTCATAGACAGGTGGTTTGGGCTCAGGTTTCTCT
1 ---TTCTTTGG-TGGTTCATAGACAGGTGGTTTGGGTTCAGGCTTCTCT
* * * *
101728 TTCTTTGGTGGTTCATAGACAGGTGGTTTAGGCTCAGGTTTATCT
1 TTCTTTGGTGGTTCATAGACAGGTGGTTTGGGTTCAGGCTTCTCT
* *
101773 TTCTTTGGGGGCTCATAGACAGGTGGTTTGGGTTCAGGCTTCTCT
1 TTCTTTGGTGGTTCATAGACAGGTGGTTTGGGTTCAGGCTTCTCT
* * * * * * *
101818 TTCTTTGGTGGTTCATAGACCGGGGGCTTAGGCTCGGGTTTCTCT
1 TTCTTTGGTGGTTCATAGACAGGTGGTTTGGGTTCAGGCTTCTCT
101863 TTCTTTGGTGG
1 TTCTTTGGTGG
101874 CTCGTAAGTA
Statistics
Matches: 271, Mismatches: 47, Indels: 46
0.74 0.13 0.13
Matches are distributed among these distances:
44 2 0.01
45 175 0.65
46 9 0.03
47 6 0.02
48 38 0.14
49 1 0.00
50 3 0.01
51 2 0.01
52 3 0.01
54 8 0.03
55 1 0.00
56 4 0.01
57 18 0.07
58 1 0.00
ACGTcount: A:0.12, C:0.16, G:0.32, T:0.40
Consensus pattern (45 bp):
TTCTTTGGTGGTTCATAGACAGGTGGTTTGGGTTCAGGCTTCTCT
Found at i:101570 original size:93 final size:93
Alignment explanation
Indices: 101460--101829 Score: 444
Period size: 93 Copynumber: 3.9 Consensus size: 93
101450 CTGGTGGCTT
* * *
101460 TGGTGGTTTAGGCTCATATGTTGGTGGCTTCTTTGGAGGTTCATAGACTGGTGGTTTGGGTTCAG
1 TGGTGGTTTAGGCTCATACGTTGGTGGCTTCTTTGGAGGCTCATAGACAGGTGGTTTGGGTTCAG
101525 GCTTCTCTTTCTTTGGTGGTGTATAAAC
66 GCTTCTCTTTCTTTGGTGGTGTATAAAC
* * * *
101553 TGGTGGTTTAGGTTCATACGTTGGAGGCTTCTTTGGAGTCTCATAGACGGGTGGTTTGGGTTCAG
1 TGGTGGTTTAGGCTCATACGTTGGTGGCTTCTTTGGAGGCTCATAGACAGGTGGTTTGGGTTCAG
*
101618 GCTTCTCTTTCTTTGGTGGTGTGTAAACCGGTGGC
66 GCTTCTCTTTCTTTGGTGGTGTATAAA-------C
* * *
101653 TTTGGTGGTTTAGGCTCATACGTCGGTGGCTTCTTTGGATGCTCATAGACAGGTGGTTTGGGCTC
1 --TGGTGGTTTAGGCTCATACGTTGGTGGCTTCTTTGGAGGCTCATAGACAGGTGGTTTGGGTTC
* *
101718 AGGTTTCTCTTTCTTTGGTGGT-TCATAGAC
64 AGGCTTCTCTTTCTTTGGTGGTGT-ATAAAC
* * ** *
101748 AGGTGGTTTAGGCTC--AGGTT--TATCTTTCTTTGGGGGCTCATAGACAGGTGGTTTGGGTTCA
1 TGGTGGTTTAGGCTCATACGTTGGTGGC-TTCTTTGGAGGCTCATAGACAGGTGGTTTGGGTTCA
101809 GGCTTCTCTTTCTTTGGTGGT
65 GGCTTCTCTTTCTTTGGTGGT
101830 TCATAGACCG
Statistics
Matches: 240, Mismatches: 26, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
89 2 0.01
90 53 0.22
91 3 0.01
93 99 0.41
95 1 0.00
100 1 0.00
101 1 0.00
102 80 0.33
ACGTcount: A:0.12, C:0.15, G:0.33, T:0.40
Consensus pattern (93 bp):
TGGTGGTTTAGGCTCATACGTTGGTGGCTTCTTTGGAGGCTCATAGACAGGTGGTTTGGGTTCAG
GCTTCTCTTTCTTTGGTGGTGTATAAAC
Found at i:101662 original size:195 final size:192
Alignment explanation
Indices: 101452--101829 Score: 553
Period size: 195 Copynumber: 2.0 Consensus size: 192
101442 CTCATAGACT
* * * *
101452 GGTGGCTTTGGTGGTTTAGGCTCATATGTTGGTGGCTTCTTTGGAGGTTCATAGACTGGTGGTTT
1 GGTGGCTTTGGTGGTTTAGGCTCATACGTCGGTGGCTTCTTTGGAGGCTCATAGACAGGTGGTTT
* * *
101517 GGGTTCAGGCTTCTCTTTCTTTGGTGGTGT-ATAAACTGGTGGTTTAGGTTCATACGTTGGAGGC
66 GGGCTCAGGCTTCTCTTTCTTTGGTGGT-TCATAAACAGGTGGTTTAGGCTC--ACGTT-GA-GC
* *
101581 -TTCTTTGGAGTCTCATAGACGGGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGTGGTGTGTAAA
126 TTTCTTTGGAGGCTCATAGACAGGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGTGGTGTGTAAA
101645 CC
191 CC
*
101647 GGTGGCTTTGGTGGTTTAGGCTCATACGTCGGTGGCTTCTTTGGATGCTCATAGACAGGTGGTTT
1 GGTGGCTTTGGTGGTTTAGGCTCATACGTCGGTGGCTTCTTTGGAGGCTCATAGACAGGTGGTTT
* * * * *
101712 GGGCTCAGGTTTCTCTTTCTTTGGTGGTTCATAGACAGGTGGTTTAGGCTCAGGTTTATCTTTCT
66 GGGCTCAGGCTTCTCTTTCTTTGGTGGTTCATAAACAGGTGGTTTAGGCTCACGTTGAGCTTTCT
*
101777 TTGGGGGCTCATAGACAGGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGTGGT
131 TTGGAGGCTCATAGACAGGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGTGGT
101830 TCATAGACCG
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
191 1 0.01
192 55 0.33
193 4 0.02
194 1 0.01
195 104 0.63
ACGTcount: A:0.12, C:0.15, G:0.33, T:0.40
Consensus pattern (192 bp):
GGTGGCTTTGGTGGTTTAGGCTCATACGTCGGTGGCTTCTTTGGAGGCTCATAGACAGGTGGTTT
GGGCTCAGGCTTCTCTTTCTTTGGTGGTTCATAAACAGGTGGTTTAGGCTCACGTTGAGCTTTCT
TTGGAGGCTCATAGACAGGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGTGGTGTGTAAACC
Found at i:101729 original size:102 final size:102
Alignment explanation
Indices: 101553--101739 Score: 304
Period size: 102 Copynumber: 1.8 Consensus size: 102
101543 GTGTATAAAC
* * * *
101553 TGGTGGTTTAGGTTCATACGTTGGAGGCTTCTTTGGAGTCTCATAGACGGGTGGTTTGGGTTCAG
1 TGGTGGTTTAGGCTCATACGTCGGAGGCTTCTTTGGAGTCTCATAGACAGGTGGTTTGGGCTCAG
101618 GCTTCTCTTTCTTTGGTGGTGTGTAAACCGGTGGCTT
66 GCTTCTCTTTCTTTGGTGGTGTGTAAACCGGTGGCTT
*
101655 TGGTGGTTTAGGCTCATACGTCGGTGGCTTCTTTGGA-TGCTCATAGACAGGTGGTTTGGGCTCA
1 TGGTGGTTTAGGCTCATACGTCGGAGGCTTCTTTGGAGT-CTCATAGACAGGTGGTTTGGGCTCA
*
101719 GGTTTCTCTTTCTTTGGTGGT
65 GGCTTCTCTTTCTTTGGTGGT
101740 TCATAGACAG
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
101 1 0.01
102 77 0.99
ACGTcount: A:0.11, C:0.16, G:0.34, T:0.40
Consensus pattern (102 bp):
TGGTGGTTTAGGCTCATACGTCGGAGGCTTCTTTGGAGTCTCATAGACAGGTGGTTTGGGCTCAG
GCTTCTCTTTCTTTGGTGGTGTGTAAACCGGTGGCTT
Found at i:108975 original size:93 final size:95
Alignment explanation
Indices: 108820--109290 Score: 503
Period size: 102 Copynumber: 4.8 Consensus size: 95
108810 GCTCATACAC
* * *
108820 TGGAGGCTTCTTTGGAGTCTCATGGACTGGTGGTTTGGGTTCAGG-TTTCTCTTTCTTTGGTGGT
1 TGGAGGCTTCTTTGGTG-CTCATAGACTGGTGGTTTGGGTTCAGGCTTT-TCTTTCTTCGGTGGT
108884 GTATAGACTGGTGGCTT-TGG-T-TCATACGT
64 GTATAGACTGGTGGCTTGTGGCTGTCATACGT
*
108913 TGGAGGCTTCTTTGGATGCTCATAGACTGGTGGTTTTGGTTCAGGCTTTTCTTTCTTCGGTGGTG
1 TGGAGGCTTCTTTGG-TGCTCATAGACTGGTGGTTTGGGTTCAGGCTTTTCTTTCTTCGGTGGTG
108978 TATAGACTGGTGGCTTTGGTGGCTTAGGCTCATACGT
65 TATAGACTGGTGGC-TT-GTGGC-T--G-TCATACGT
* * *
109015 TGGTGGCTTCTTTGGGGGCTCATAGACTGGGGGTTTGGGTTCAGG-TTTCTCTTTCTTCGGTGGT
1 TGGAGGCTTCTTT-GGTGCTCATAGACTGGTGGTTTGGGTTCAGGCTTT-TCTTTCTTCGGTGGT
* *
109079 GCATAAACTGGTGGCTTTGGTGGCTTAGGCTCATACGT
64 GTATAGACTGGTGGC-TT-GTGGC-T--G-TCATACGT
* * *
109117 TGGAGGCTTCTTTGGTGGTTCATAGACCGGTGGTTTGGGTTCAGGCTTCTCTTTCTTCGGTGGTG
1 TGGAGGCTTCTTTGGT-GCTCATAGACTGGTGGTTTGGGTTCAGGCTTTTCTTTCTTCGGTGGTG
*
109182 TATAAACTGGTGG-TT-TAGG-T-TCATACGT
65 TATAGACTGGTGGCTTGT-GGCTGTCATACGT
* * * * * *
109210 TGGTGGCTTCTTTGGTGGTTCATAGACCGGTGGTTTGGGTTCAGGCTTCTCTTTCTTTGGAGGT-
1 TGGAGGCTTCTTTGGT-GCTCATAGACTGGTGGTTTGGGTTCAGGCTTTTCTTTCTTCGGTGGTG
*
109274 TCATAGACAGGTGGCTT
65 T-ATAGACTGGTGGCTT
109291 AGGCTTAGGC
Statistics
Matches: 338, Mismatches: 22, Indels: 35
0.86 0.06 0.09
Matches are distributed among these distances:
92 1 0.00
93 148 0.44
94 8 0.02
96 3 0.01
97 1 0.00
98 2 0.01
99 2 0.01
100 2 0.01
101 5 0.01
102 162 0.48
103 4 0.01
ACGTcount: A:0.11, C:0.15, G:0.33, T:0.40
Consensus pattern (95 bp):
TGGAGGCTTCTTTGGTGCTCATAGACTGGTGGTTTGGGTTCAGGCTTTTCTTTCTTCGGTGGTGT
ATAGACTGGTGGCTTGTGGCTGTCATACGT
Found at i:109023 original size:102 final size:102
Alignment explanation
Indices: 108892--109266 Score: 527
Period size: 102 Copynumber: 3.8 Consensus size: 102
108882 GTGTATAGAC
* * * *
108892 TGGTGGCTTTGGTTCATACGTTGGAGGCTTCTTTGGAT-GCTCATAGACTGGTGGTTTTGGTTCA
1 TGGTGGCTTAGGCTCATACGTTGGAGGCTTCTTTGG-TGGCTCATAGACCGGTGGTTTGGGTTCA
* *
108956 GGCTTTTCTTTCTTCGGTGGTGTATAGACTGGTGGCTT
65 GGCTTCTCTTTCTTCGGTGGTGTATAAACTGGTGGCTT
* * * *
108994 TGGTGGCTTAGGCTCATACGTTGGTGGCTTCTTTGGGGGCTCATAGACTGGGGGTTTGGGTTCAG
1 TGGTGGCTTAGGCTCATACGTTGGAGGCTTCTTTGGTGGCTCATAGACCGGTGGTTTGGGTTCAG
* *
109059 GTTTCTCTTTCTTCGGTGGTGCATAAACTGGTGGCTT
66 GCTTCTCTTTCTTCGGTGGTGTATAAACTGGTGGCTT
*
109096 TGGTGGCTTAGGCTCATACGTTGGAGGCTTCTTTGGTGGTTCATAGACCGGTGGTTTGGGTTCAG
1 TGGTGGCTTAGGCTCATACGTTGGAGGCTTCTTTGGTGGCTCATAGACCGGTGGTTTGGGTTCAG
109161 GCTTCTCTTTCTTCGGTGGTGTATAAAC---TGG---
66 GCTTCTCTTTCTTCGGTGGTGTATAAACTGGTGGCTT
* * *
109192 TGGT---TTAGGTTCATACGTTGGTGGCTTCTTTGGTGGTTCATAGACCGGTGGTTTGGGTTCAG
1 TGGTGGCTTAGGCTCATACGTTGGAGGCTTCTTTGGTGGCTCATAGACCGGTGGTTTGGGTTCAG
109254 GCTTCTCTTTCTT
66 GCTTCTCTTTCTT
109267 TGGAGGTTCA
Statistics
Matches: 253, Mismatches: 19, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
93 69 0.27
96 4 0.02
99 3 0.01
102 177 0.70
ACGTcount: A:0.11, C:0.16, G:0.33, T:0.40
Consensus pattern (102 bp):
TGGTGGCTTAGGCTCATACGTTGGAGGCTTCTTTGGTGGCTCATAGACCGGTGGTTTGGGTTCAG
GCTTCTCTTTCTTCGGTGGTGTATAAACTGGTGGCTT
Found at i:109042 original size:57 final size:57
Alignment explanation
Indices: 108965--109154 Score: 160
Period size: 57 Copynumber: 3.6 Consensus size: 57
108955 AGGCTTTTCT
*
108965 TTCTTCGGTGGTGT-ATAGACTGGTGGCTTTGGTGGCTTAGGCTCATACGTTGGTGGC
1 TTCTTTGGTGGT-TCATAGACTGGTGGCTTTGGTGGCTTAGGCTCATACGTTGGTGGC
* * * *
109022 TTCTTTGGGGGCTCATAGACTGG-GGGTTT-G-GG-TTCAGGTTTC-T-C-TT--T--C
1 TTCTTTGGTGGTTCATAGACTGGTGGCTTTGGTGGCTT-AGG-CTCATACGTTGGTGGC
* * *
109070 TTC---GGTGGTGCATAAACTGGTGGCTTTGGTGGCTTAGGCTCATACGTTGGAGGC
1 TTCTTTGGTGGTTCATAGACTGGTGGCTTTGGTGGCTTAGGCTCATACGTTGGTGGC
*
109124 TTCTTTGGTGGTTCATAGACCGGTGG-TTTGG
1 TTCTTTGGTGGTTCATAGACTGGTGGCTTTGG
109155 GTTCAGGCTT
Statistics
Matches: 101, Mismatches: 15, Indels: 35
0.67 0.10 0.23
Matches are distributed among these distances:
45 13 0.13
46 5 0.05
47 3 0.03
48 10 0.10
49 3 0.03
50 3 0.03
52 2 0.02
53 3 0.03
54 10 0.10
55 3 0.03
56 11 0.11
57 35 0.35
ACGTcount: A:0.11, C:0.16, G:0.36, T:0.37
Consensus pattern (57 bp):
TTCTTTGGTGGTTCATAGACTGGTGGCTTTGGTGGCTTAGGCTCATACGTTGGTGGC
Found at i:109208 original size:195 final size:190
Alignment explanation
Indices: 108809--109290 Score: 587
Period size: 195 Copynumber: 2.5 Consensus size: 190
108799 ACCATAAGGT
** * * *
108809 GGCTCATACACTGGAGGCTTCTTTGGAGTCTCATGGACTGGTGGTTTGGGTTCAGGTTTCTCTTT
1 GGCTCATACGTTGGTGGCTTCTTTGGAGGCTCATAGACTGGTGGTTTGGGTTCAGGTTTCTCTTT
*
108874 CTTTGGTGGTGTATAGACTGGTGGC-TTTGGTTCATACGTTGGAGGCTTCTTTGGATGCTCATAG
66 CTTTGGTGGTGCATAGACTGGTGGCTTTTGGTTCATACGTTGGAGGCTTCTTTGGATGCTCATAG
* * * *
108938 ACTGGTGGTTTTGGTTCAGGCTTTTCTTTCTTCGGTGGTGTATAGACTGGTGGCTTTGGTGGCTT
131 ACCGGTGGTTTGGGTTCAGGCTTCTCTTTCTTCGGTGGTGTATAAAC--GTGG--TTGGT-G-TT
109003 A
190 A
* *
109004 GGCTCATACGTTGGTGGCTTCTTTGGGGGCTCATAGACTGGGGGTTTGGGTTCAGGTTTCTCTTT
1 GGCTCATACGTTGGTGGCTTCTTTGGAGGCTCATAGACTGGTGGTTTGGGTTCAGGTTTCTCTTT
* *
109069 CTTCGGTGGTGCATAAACTGGTGGCTTTGGTGGCTTAGGCTCATACGTTGGAGGCTTCTTTGG-T
66 CTTTGGTGGTGCATAGACTGGTGGCTTT--TGG--T----TCATACGTTGGAGGCTTCTTTGGAT
*
109133 GGTTCATAGACCGGTGGTTTGGGTTCAGGCTTCTCTTTCTTCGGTGGTGTATAAAC-TGG-TGGT
123 -GCTCATAGACCGGTGGTTTGGGTTCAGGCTTCTCTTTCTTCGGTGGTGTATAAACGTGGTTGGT
109196 -TTA
187 GTTA
* * * * *
109199 GGTTCATACGTTGGTGGCTTCTTTGGTGGTTCATAGACCGGTGGTTTGGGTTCAGGCTTCTCTTT
1 GGCTCATACGTTGGTGGCTTCTTTGGAGGCTCATAGACTGGTGGTTTGGGTTCAGGTTTCTCTTT
* * *
109264 CTTTGGAGGTTCATAGACAGGTGGCTT
66 CTTTGGTGGTGCATAGACTGGTGGCTT
109291 AGGCTTAGGC
Statistics
Matches: 251, Mismatches: 26, Indels: 20
0.85 0.09 0.07
Matches are distributed among these distances:
195 164 0.65
196 2 0.01
198 7 0.03
200 1 0.00
201 3 0.01
203 1 0.00
204 73 0.29
ACGTcount: A:0.12, C:0.16, G:0.33, T:0.39
Consensus pattern (190 bp):
GGCTCATACGTTGGTGGCTTCTTTGGAGGCTCATAGACTGGTGGTTTGGGTTCAGGTTTCTCTTT
CTTTGGTGGTGCATAGACTGGTGGCTTTTGGTTCATACGTTGGAGGCTTCTTTGGATGCTCATAG
ACCGGTGGTTTGGGTTCAGGCTTCTCTTTCTTCGGTGGTGTATAAACGTGGTTGGTGTTA
Found at i:109227 original size:48 final size:48
Alignment explanation
Indices: 109097--109252 Score: 160
Period size: 48 Copynumber: 3.3 Consensus size: 48
109087 TGGTGGCTTT
* * *
109097 GGTGGCTTAGGCTCATACGTTGGAGGCTTCTTTGGTGGTTCATAGACC
1 GGTGGTTTAGGTTCATACGTTGGTGGCTTCTTTGGTGGTTCATAGACC
* ** * * * *
109145 GGTGGTTTGGGTTCAGGC-TT-CT--CTTTCTTCGGTGGTGT-ATAAACT
1 GGTGGTTTAGGTTCATACGTTGGTGGC-TTCTTTGGTGGT-TCATAGACC
109190 GGTGGTTTAGGTTCATACGTTGGTGGCTTCTTTGGTGGTTCATAGACC
1 GGTGGTTTAGGTTCATACGTTGGTGGCTTCTTTGGTGGTTCATAGACC
*
109238 GGTGGTTTGGGTTCA
1 GGTGGTTTAGGTTCA
109253 GGCTTCTCTT
Statistics
Matches: 83, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
44 1 0.01
45 31 0.37
46 3 0.04
47 4 0.05
48 43 0.52
49 1 0.01
ACGTcount: A:0.12, C:0.15, G:0.34, T:0.38
Consensus pattern (48 bp):
GGTGGTTTAGGTTCATACGTTGGTGGCTTCTTTGGTGGTTCATAGACC
Found at i:109293 original size:93 final size:93
Alignment explanation
Indices: 109097--109295 Score: 319
Period size: 93 Copynumber: 2.1 Consensus size: 93
109087 TGGTGGCTTT
109097 GGTGGCTTAGGCTCATACGTTGGAGGCTTCTTTGGTGGTTCATAGACCGGTGGTTTGGGTTCAGG
1 GGTGGCTTAGGCTCATACGTTGGAGGCTTCTTTGGTGGTTCATAGACCGGTGGTTTGGGTTCAGG
* *
109162 CTTCTCTTTCTTCGGTGGTGTATAAACT
66 CTTCTCTTTCTTCGGAGGTGTATAAACA
* * *
109190 GGTGGTTTAGGTTCATACGTTGGTGGCTTCTTTGGTGGTTCATAGACCGGTGGTTTGGGTTCAGG
1 GGTGGCTTAGGCTCATACGTTGGAGGCTTCTTTGGTGGTTCATAGACCGGTGGTTTGGGTTCAGG
* *
109255 CTTCTCTTTCTTTGGAGGT-TCATAGACA
66 CTTCTCTTTCTTCGGAGGTGT-ATAAACA
109283 GGTGGCTTAGGCT
1 GGTGGCTTAGGCT
109296 TAGGCTCAGG
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 1 0.01
93 95 0.99
ACGTcount: A:0.13, C:0.16, G:0.33, T:0.38
Consensus pattern (93 bp):
GGTGGCTTAGGCTCATACGTTGGAGGCTTCTTTGGTGGTTCATAGACCGGTGGTTTGGGTTCAGG
CTTCTCTTTCTTCGGAGGTGTATAAACA
Found at i:109904 original size:9 final size:9
Alignment explanation
Indices: 109890--109921 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
109880 ACACATTTTA
109890 ATATAAAAT
1 ATATAAAAT
109899 ATATAAAAAT
1 ATAT-AAAAT
109909 ATATAAAAT
1 ATATAAAAT
109918 ATAT
1 ATAT
109922 GATAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
ATATAAAAT
Found at i:110076 original size:22 final size:22
Alignment explanation
Indices: 110048--110091 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
110038 ATATATTAAA
110048 AAGGGTATATAATATATTTTTT
1 AAGGGTATATAATATATTTTTT
110070 AAGGGTATATAATATATTTTTT
1 AAGGGTATATAATATATTTTTT
110092 CATAATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (22 bp):
AAGGGTATATAATATATTTTTT
Found at i:114776 original size:2 final size:2
Alignment explanation
Indices: 114769--114819 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
114759 CAACTGAATT
114769 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
114811 TA TA TA TA T
1 TA TA TA TA T
114820 TCCATAAAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:115270 original size:101 final size:101
Alignment explanation
Indices: 115092--115279 Score: 304
Period size: 101 Copynumber: 1.9 Consensus size: 101
115082 AAATCTAATC
* * *
115092 ATGTCAAACCATCAAGAACAAAATAAATATAAGATTTGCGGAAGCGTACCTAAATTCATTGTTGA
1 ATGTCAAACCATCAAGAACAAAATAAATATAAGATTTGCAGAAGCGTACCTAAATCCATTATTGA
*
115157 AAATTACCTAGAAGGCTGAGATCTTGAAGATATTAG
66 AAATTACATAGAAGGCTGAGATCTTGAAGATATTAG
* *
115193 ATGTCAAACCATCAAGAATAAAATAAATATAAGATTTGCAGAAGCGTACCTGAATCCATTATTGA
1 ATGTCAAACCATCAAGAACAAAATAAATATAAGATTTGCAGAAGCGTACCTAAATCCATTATTGA
* *
115258 AGATTACATAGAAGGTTGAGAT
66 AAATTACATAGAAGGCTGAGAT
115280 TTTCCAAGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.27
Consensus pattern (101 bp):
ATGTCAAACCATCAAGAACAAAATAAATATAAGATTTGCAGAAGCGTACCTAAATCCATTATTGA
AAATTACATAGAAGGCTGAGATCTTGAAGATATTAG
Found at i:126192 original size:2 final size:2
Alignment explanation
Indices: 126187--126225 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
126177 AAATTAAAAT
126187 TA TA 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 TA TA T
126226 CCAAAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:126621 original size:20 final size:20
Alignment explanation
Indices: 126581--126622 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
126571 TATTTTGTAA
*
126581 TTTTACAAATATAAGATTTT
1 TTTTACAAATATAAGAGTTT
* *
126601 TTTTATAAATATAATAGTTT
1 TTTTACAAATATAAGAGTTT
126621 TT
1 TT
126623 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTACAAATATAAGAGTTT
Found at i:126930 original size:21 final size:22
Alignment explanation
Indices: 126887--126931 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
126877 GAGTTCTGCT
* *
126887 AGGGAACCGATTCCCCTGCTAC
1 AGGGAACCGATTACCCTGATAC
126909 AGGGAACCGA-TACCCTGATAC
1 AGGGAACCGATTACCCTGATAC
126930 AG
1 AG
126932 TGCTTCCGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.29, C:0.31, G:0.24, T:0.16
Consensus pattern (22 bp):
AGGGAACCGATTACCCTGATAC
Found at i:131027 original size:29 final size:29
Alignment explanation
Indices: 130985--131119 Score: 225
Period size: 29 Copynumber: 4.6 Consensus size: 29
130975 TCGTTGACTC
130985 GGGTGTTAGTTTCGTAAATATTTTTAAAA
1 GGGTGTTAGTTTCGTAAATATTTTTAAAA
*
131014 GGGTGTGAGTTTCGTAAATATTTTTAAAA
1 GGGTGTTAGTTTCGTAAATATTTTTAAAA
131043 GGGTGTTAGTTTCGTAAATATTTTTAAAA
1 GGGTGTTAGTTTCGTAAATATTTTTAAAA
*
131072 GGGTGTTAATTTCGTAAATATTTTTTAAAAA
1 GGGTGTTAGTTTCGTAAATA-TTTTT-AAAA
*
131103 GGGTGTTAGTTTTGTAA
1 GGGTGTTAGTTTCGTAA
131120 TTAATTTCTG
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 75 0.76
30 5 0.05
31 19 0.19
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.44
Consensus pattern (29 bp):
GGGTGTTAGTTTCGTAAATATTTTTAAAA
Found at i:132120 original size:44 final size:42
Alignment explanation
Indices: 132052--132172 Score: 163
Period size: 42 Copynumber: 2.8 Consensus size: 42
132042 TTGAAGGAAA
132052 TTTCTCAGG-TCCTTTTGTTGTGTGCGAAAAGGTAAGCCTTACAG
1 TTTCTCAGGTTCC-TTTGTTGTGTGC--AAAGGTAAGCCTTACAG
* * * * *
132096 TTTCACAGGTTCCTTTGCTGTGTGCAAGGGTAAACTTTACAG
1 TTTCTCAGGTTCCTTTGTTGTGTGCAAAGGTAAGCCTTACAG
132138 TTTCTCAGGTTCCTTTGTTGTGTGCAAAGGTAAGC
1 TTTCTCAGGTTCCTTTGTTGTGTGCAAAGGTAAGC
132173 TTTGTTGTGT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 45 0.67
44 19 0.28
45 3 0.04
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (42 bp):
TTTCTCAGGTTCCTTTGTTGTGTGCAAAGGTAAGCCTTACAG
Found at i:132175 original size:22 final size:22
Alignment explanation
Indices: 132150--132194 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
132140 TCTCAGGTTC
*
132150 CTTTGTTGTGTGCAAAGGTAAG
1 CTTTGTTGTGTGCAAAAGTAAG
132172 CTTTGTTGTGTGCAAAAGTAAG
1 CTTTGTTGTGTGCAAAAGTAAG
132194 C
1 C
132195 CTTACAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.36
Consensus pattern (22 bp):
CTTTGTTGTGTGCAAAAGTAAG
Found at i:132217 original size:64 final size:64
Alignment explanation
Indices: 132108--132236 Score: 168
Period size: 64 Copynumber: 2.0 Consensus size: 64
132098 TCACAGGTTC
** * * * * *
132108 CTTTGCTGTGTGCAAGGGTAAACTTTACAGTTTCTCAGGTTCCTTTGTTGTGTGCAAAGGTAAG
1 CTTTGCTGTGTGCAAAAGTAAACCTTACAATTTCCCAAGTCCCTTTGTTGTGTGCAAAGGTAAG
* * *
132172 CTTTGTTGTGTGCAAAAGTAAGCCTTACAATTTCCCAAGTCCCTTTGTTGTGTGCAAGGGTAAG
1 CTTTGCTGTGTGCAAAAGTAAACCTTACAATTTCCCAAGTCCCTTTGTTGTGTGCAAAGGTAAG
132236 C
1 C
132237 CTTACAGTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.36
Consensus pattern (64 bp):
CTTTGCTGTGTGCAAAAGTAAACCTTACAATTTCCCAAGTCCCTTTGTTGTGTGCAAAGGTAAG
Found at i:132235 original size:42 final size:42
Alignment explanation
Indices: 132172--132283 Score: 152
Period size: 42 Copynumber: 2.7 Consensus size: 42
132162 CAAAGGTAAG
**
132172 CTTTGTTGTGTGCAAAAGTAAGCCTTACAATTTCCCAAGTCC
1 CTTTGTTGTGTGCAAGGGTAAGCCTTACAATTTCCCAAGTCC
* * **
132214 CTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTT
1 CTTTGTTGTGTGCAAGGGTAAGCCTTACAATTTCCCAAGTCC
* *
132256 TTTTGCTGTGTGCAAGGGTAAGCCTTAC
1 CTTTGTTGTGTGCAAGGGTAAGCCTTAC
132284 GGTTTTCCTA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (42 bp):
CTTTGTTGTGTGCAAGGGTAAGCCTTACAATTTCCCAAGTCC
Found at i:132268 original size:106 final size:108
Alignment explanation
Indices: 132065--132278 Score: 306
Period size: 106 Copynumber: 2.0 Consensus size: 108
132055 CTCAGGTCCT
* * *
132065 TTTGTTGTGTGCGAAAAGGTAAGCCTTACAGTTTCACAGGTTCCTTTGCTGTGTGCAAGGGTAAA
1 TTTGTTGTGTGCGAAAAGGTAAGCCTTACAATTTCACAAGTCCCTTTGCTGTGTGCAAGGGTAAA
* * *
132130 CTTTACAGTTTCTCAGGTTCCTTTGTTGTGTGCAAAGGTAAGC
66 CCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAAGGTAAGC
* * *
132173 TTTGTTGTGTGC-AAAA-GTAAGCCTTACAATTTCCCAAGTCCCTTTGTTGTGTGCAAGGGTAAG
1 TTTGTTGTGTGCGAAAAGGTAAGCCTTACAATTTCACAAGTCCCTTTGCTGTGTGCAAGGGTAAA
** *
132236 CCTTACAGTTTCCCAGGTTTTTTTGCTGTGTGCAAGGGTAAGC
66 CCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAAGGTAAGC
132279 CTTACGGTTT
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
106 78 0.83
107 4 0.04
108 12 0.13
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (108 bp):
TTTGTTGTGTGCGAAAAGGTAAGCCTTACAATTTCACAAGTCCCTTTGCTGTGTGCAAGGGTAAA
CCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAAGGTAAGC
Found at i:132311 original size:43 final size:42
Alignment explanation
Indices: 132178--132312 Score: 144
Period size: 42 Copynumber: 3.2 Consensus size: 42
132168 TAAGCTTTGT
** * * * * *
132178 TGTGTGCAAAAGTAAGCCTTACAATTTCCCAAGTCCCTTTGT
1 TGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTATGC
** *
132220 TGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTTTTTTGC
1 TGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTATGC
* *
132262 TGTGTGCAAGGGTAAGCCTTACGGTTTTCCTAGGTTCCTATGC
1 TGTGTGCAAGGGTAAGCCTTACAG-TTTCCCAGGTTCCTATGC
*
132305 TTTGTGCA
1 TGTGTGCA
132313 CATGTTAAAC
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 57 0.73
43 21 0.27
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (42 bp):
TGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTATGC
Found at i:134399 original size:21 final size:21
Alignment explanation
Indices: 134370--134409 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
134360 TTTTTATTAT
* *
134370 TTTATTAAAAGAATTGGTATG
1 TTTAGTAAAACAATTGGTATG
*
134391 TTTAGTAAAACACTTGGTA
1 TTTAGTAAAACAATTGGTA
134410 CATTTAGACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (21 bp):
TTTAGTAAAACAATTGGTATG
Found at i:135723 original size:31 final size:32
Alignment explanation
Indices: 135648--135730 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
135638 TAAAATTTAA
* *
135648 GTACTAAACTGAAACAAAAAGTTAACTGTTGG
1 GTACTAAAATGAAATAAAAAGTTAACTGTTGG
* *
135680 GTACTAAGATGAAATAAAAAGTTAATTG-TGG
1 GTACTAAAATGAAATAAAAAGTTAACTGTTGG
*
135711 GTATTAAAATGAAATAAAAA
1 GTACTAAAATGAAATAAAAA
135731 TAAACGTTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
31 21 0.47
32 24 0.53
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.27
Consensus pattern (32 bp):
GTACTAAAATGAAATAAAAAGTTAACTGTTGG
Found at i:136538 original size:2 final size:2
Alignment explanation
Indices: 136433--136530 Score: 189
Period size: 2 Copynumber: 49.5 Consensus size: 2
136423 CCACCCCAAA
136433 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
136475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
136516 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
136531 CTTATATAAA
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 94 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:136784 original size:2 final size:2
Alignment explanation
Indices: 136772--136807 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
136762 TAAAATAATA
136772 AT AT A- AT AT AT 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 AT AT AT AT AT AT A
136808 AATCGGGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:137790 original size:20 final size:20
Alignment explanation
Indices: 137765--137807 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
137755 GCTGTTTGGT
*
137765 GCCGTTAATGATTGATTTGA
1 GCCGTTAAGGATTGATTTGA
*
137785 GCCGTTGAGGATTGATTTGA
1 GCCGTTAAGGATTGATTTGA
137805 GCC
1 GCC
137808 ATTGGAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (20 bp):
GCCGTTAAGGATTGATTTGA
Found at i:138352 original size:17 final size:16
Alignment explanation
Indices: 138324--138366 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
138314 TCCCCCTAAG
*
138324 TAAAATATTTTTTGGC
1 TAAAAAATTTTTTGGC
138340 TAAAACAA-TTTTTGGC
1 TAAAA-AATTTTTTGGC
*
138356 TAGAAAATTTT
1 TAAAAAATTTT
138367 ACACTTTCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 20 0.87
17 1 0.04
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (16 bp):
TAAAAAATTTTTTGGC
Found at i:138364 original size:15 final size:16
Alignment explanation
Indices: 138332--138366 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
138322 AGTAAAATAT
138332 TTTTTGGCTAAAACAA
1 TTTTTGGCTAAAACAA
*
138348 TTTTTGGCTAGAA-AA
1 TTTTTGGCTAAAACAA
138363 TTTT
1 TTTT
138367 ACACTTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (16 bp):
TTTTTGGCTAAAACAA
Found at i:141830 original size:12 final size:12
Alignment explanation
Indices: 141813--141839 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
141803 ATATATATAT
141813 GTGTGTGTGTGA
1 GTGTGTGTGTGA
141825 GTGTGTGTGTGA
1 GTGTGTGTGTGA
141837 GTG
1 GTG
141840 ATGATTTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.52, T:0.41
Consensus pattern (12 bp):
GTGTGTGTGTGA
Done.