Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 45 of 65
Found at i:9088227 original size:235 final size:231
Alignment explanation
Indices: 9087815--9088308 Score: 739
Period size: 235 Copynumber: 2.1 Consensus size: 231
9087805 GTTCCACTCG
*
9087815 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTCCCAATCC
1 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAACTTCCCAATCC
* *
9087880 AATTTCAACTTCATAGCGAAGGATATTGGAATTCAAGACAACACAAGTTCAACTTCACAACGAAG
66 AATTTCAACTTCACAGCGAAGGATATTGGAACTCAAGACAACACAAGTTCAACTTCACAACGAAG
* * *
9087945 GGGCCGCTGGTTGTTAACAAAAATTTCCCAGTATCAGACAACACAAGTTCAACTTCACAACGAAG
131 GGGCCGCTGGTTGTCAACAAAAATTCCCCAGTATAAGACAACACAAGTTCAACTTCACAACGAAG
* * *
9088010 GGGCCGCTGGTTGTCAAC-AA-AATTTCCCAGTTTA
196 GGGCCGCTGGCTATCAACAAACAACTTCCCAGTTTA
* *
9088044 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
1 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAACTTCCCAA--T
9088109 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG-ACTCAAGACAACACAAGTTCAACTTCAC
64 -----CCAATTTCAACTTCACAGCGAAGGATATTGGAACTCAAGACAACACAAGTTCAACTTCAC
* *
9088173 AACGAAGGGGCCGCTGGTTGTCAACAAAAATTCCCCAGTTTAAGACAGCACAAGTTCAACTTCAC
124 AACGAAGGGGCCGCTGGTTGTCAACAAAAATTCCCCAGTATAAGACAACACAAGTTCAACTTCAC
*
9088238 AACGAAGGGGCCGCTGGCTATCAACAAACAACTTCCCAGTTTC
189 AACGAAGGGGCCGCTGGCTATCAACAAACAACTTCCCAGTTTA
* *
9088281 AG--AG-TCAATTTCAACTTCACAGCGAAGG
1 AGACAGCTCAAGTTCAACTTCACAACGAAGG
9088309 ATATTGGCCT
Statistics
Matches: 239, Mismatches: 17, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
229 59 0.25
231 1 0.00
234 21 0.09
235 112 0.47
236 32 0.13
237 14 0.06
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (231 bp):
AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAACTTCCCAATCC
AATTTCAACTTCACAGCGAAGGATATTGGAACTCAAGACAACACAAGTTCAACTTCACAACGAAG
GGGCCGCTGGTTGTCAACAAAAATTCCCCAGTATAAGACAACACAAGTTCAACTTCACAACGAAG
GGGCCGCTGGCTATCAACAAACAACTTCCCAGTTTA
Found at i:9088229 original size:65 final size:66
Alignment explanation
Indices: 9088149--9088308 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 66
9088139 TATTGGACTC
* * *
9088149 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA-AA-TTCCCCAGT
1 AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTATCAACAAACAACTT-CCCAGT
9088212 TT
65 TT
9088214 AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTATCAACAAACAACTTCCCAGTT
1 AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTATCAACAAACAACTTCCCAGTT
9088279 T
66 T
* * * *
9088280 CAG--AG-TCAATTTCAACTTCACAGCGAAGG
1 AAGACAGCACAAGTTCAACTTCACAACGAAGG
9088309 ATATTGGCCT
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
63 21 0.24
64 2 0.02
65 49 0.57
66 12 0.14
67 2 0.02
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (66 bp):
AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTATCAACAAACAACTTCCCAGTT
T
Found at i:9088263 original size:106 final size:105
Alignment explanation
Indices: 9088042--9088245 Score: 277
Period size: 106 Copynumber: 1.9 Consensus size: 105
9088032 TTTCCCAGTT
*
9088042 TAAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAAT
1 TAAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAAT
* * * * *
9088107 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
66 TTAAGAGCCAAGTTCAACTTCACAACGAAGGACACTGGAC
*
9088147 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA-AA-TTCCCCA
1 T-AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTT-CCCA
*
9088210 GTTTAAGACAGCACAAGTTCAACTTCACAACGAAGG
64 ATTTAAG--AGC-CAAGTTCAACTTCACAACGAAGG
9088246 GGCCGCTGGC
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
104 2 0.02
105 12 0.14
106 50 0.57
107 3 0.03
108 21 0.24
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (105 bp):
TAAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAAT
TTAAGAGCCAAGTTCAACTTCACAACGAAGGACACTGGAC
Found at i:9088264 original size:171 final size:170
Alignment explanation
Indices: 9087980--9088315 Score: 627
Period size: 171 Copynumber: 2.0 Consensus size: 170
9087970 TCCCAGTATC
*
9087980 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTAA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTCCCCAGTTTAA
*
9088045 GACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTTC
66 GACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTATCAACAAACAACTTCCCAATTTC
9088110 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
131 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
9088150 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAATTCCCCAGTTTA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAAC-AAAATTCCCCAGTTTA
*
9088215 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTATCAACAAACAACTTCCCAGTTT
65 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTATCAACAAACAACTTCCCAATTT
*
9088280 CAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
130 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
9088316 CCTCGAAACA
Statistics
Matches: 161, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
170 48 0.30
171 113 0.70
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (170 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTCCCCAGTTTAA
GACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTATCAACAAACAACTTCCCAATTTC
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
Found at i:9090846 original size:19 final size:19
Alignment explanation
Indices: 9090822--9090947 Score: 76
Period size: 19 Copynumber: 6.2 Consensus size: 19
9090812 AATCGCAACG
9090822 CGAACTTCAACTATCGCAA
1 CGAACTTCAACTATCGCAA
* *
9090841 CGAACTTGGAA-TAAATCACAA
1 CGAACTT-CAACT--ATCGCAA
*
9090862 CGCGAACTTCGACTATCGCAA
1 --CGAACTTCAACTATCGCAA
* *
9090883 CGAATTTGGAA-TAAATCGCAACA
1 CGAACTT-CAACT--ATCGC-A-A
*
9090906 CGAACTTCGACTATCGCAA
1 CGAACTTCAACTATCGCAA
**
9090925 CGAACTTGGACTATCGCAA
1 CGAACTTCAACTATCGCAA
9090944 CGAA
1 CGAA
9090948 TTTGGAATAA
Statistics
Matches: 83, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
19 38 0.46
20 4 0.05
21 22 0.27
22 3 0.04
23 16 0.19
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (19 bp):
CGAACTTCAACTATCGCAA
Found at i:9090850 original size:42 final size:42
Alignment explanation
Indices: 9090788--9090934 Score: 240
Period size: 42 Copynumber: 3.5 Consensus size: 42
9090778 TGCGATTTTG
* *
9090788 GACTATCGTAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
9090830 AACTATCGCAACGAACTTGGAATAAATCACAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
9090872 GACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
9090914 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
9090935 CTATCGCAAC
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 96 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:9090947 original size:61 final size:61
Alignment explanation
Indices: 9090855--9090995 Score: 219
Period size: 61 Copynumber: 2.3 Consensus size: 61
9090845 CTTGGAATAA
*
9090855 ATCACAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTCGACT
1 ATCACAA--CGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTCGACT
* * *
9090918 ATCGCAACGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACT
1 ATCACAACGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTCGACT
*
9090979 ATCACAACGAATTTGGA
1 ATCACAACGAACTTGGA
9090996 AAATCGCATT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
61 66 0.92
63 6 0.08
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (61 bp):
ATCACAACGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTCGACT
Found at i:9090966 original size:103 final size:102
Alignment explanation
Indices: 9090813--9091003 Score: 294
Period size: 103 Copynumber: 1.9 Consensus size: 102
9090803 TTTGGAATAA
9090813 ATCGCAACGCGAACTTCAACTATCGCAACGAACTTGGAATAAATCACAACGCGAACTTCGACTAT
1 ATCGCAAC-CGAACTTCAACTATCGCAACGAACTTGGAATAAATCACAACGCGAACTTCGACTAT
*
9090878 CGCAACGAATTTGGAATAAATCGCAACACGAACTTCGACT
65 CACAACGAATTTGG-A-AAATCGCAACACGAACTTCGACT
** * * *
9090918 ATCGCAA-CGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATC
1 ATCGCAACCGAACTTCAACTATCGCAACGAACTTGGAATAAATCACAACGCGAACTTCGACTATC
9090982 ACAACGAATTTGGAAAATCGCA
66 ACAACGAATTTGGAAAATCGCA
9091004 TTGCGATAGT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
101 8 0.10
102 1 0.01
103 64 0.80
105 7 0.09
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (102 bp):
ATCGCAACCGAACTTCAACTATCGCAACGAACTTGGAATAAATCACAACGCGAACTTCGACTATC
ACAACGAATTTGGAAAATCGCAACACGAACTTCGACT
Found at i:9090972 original size:42 final size:38
Alignment explanation
Indices: 9090918--9091003 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 38
9090908 AACTTCGACT
*
9090918 ATCGCAACGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGACTATCACAACGAATTTGG-A-AA
9090958 ATCGCAACGCGAACTTGGACTATCACAACGAATTTGGAAA
1 ATCGCAA--CGAACTTGGACTATCACAACGAATTTGGAAA
9090998 ATCGCA
1 ATCGCA
9091004 TTGCGATAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
40 15 0.35
41 1 0.02
42 27 0.63
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (38 bp):
ATCGCAACGAACTTGGACTATCACAACGAATTTGGAAA
Found at i:9091028 original size:21 final size:21
Alignment explanation
Indices: 9090999--9091051 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
9090989 ATTTGGAAAA
* *
9090999 TCGCATTGCGATAGTTGAAGT
1 TCGCGTTGCGATAGTCGAAGT
*
9091020 TCGCGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
9091041 TCGCGTTGCGA
1 TCGCGTTGCGA
9091052 ATCTGGAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.32
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:9092090 original size:17 final size:19
Alignment explanation
Indices: 9092045--9092091 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
9092035 GAAAACCTTG
9092045 TATCCCAAAACCCTGTATA
1 TATCCCAAAACCCTGTATA
**
9092064 TATCTTAAAACCC-G-ATA
1 TATCCCAAAACCCTGTATA
9092081 TATCCCAAAAC
1 TATCCCAAAAC
9092092 ACCCTTCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 12 0.50
18 1 0.04
19 11 0.46
ACGTcount: A:0.40, C:0.30, G:0.04, T:0.26
Consensus pattern (19 bp):
TATCCCAAAACCCTGTATA
Found at i:9093626 original size:19 final size:19
Alignment explanation
Indices: 9093602--9093664 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
9093592 TATTGAAATT
9093602 TTATAAATGAATAATAATA
1 TTATAAATGAATAATAATA
* *
9093621 TTATAAA-GCATTAAAAAT-
1 TTATAAATG-AATAATAATA
*
9093639 TTATAAATGAATAATAGTA
1 TTATAAATGAATAATAATA
9093658 TTATAAA
1 TTATAAA
9093665 ACATTAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (19 bp):
TTATAAATGAATAATAATA
Found at i:9093642 original size:37 final size:37
Alignment explanation
Indices: 9093585--9093678 Score: 143
Period size: 37 Copynumber: 2.5 Consensus size: 37
9093575 ATATATATTA
* * *
9093585 TATAAAATATTGAAATTTTATAAATGAATAATAATAT
1 TATAAAACATTAAAAATTTATAAATGAATAATAATAT
* *
9093622 TATAAAGCATTAAAAATTTATAAATGAATAATAGTAT
1 TATAAAACATTAAAAATTTATAAATGAATAATAATAT
9093659 TATAAAACATTAAAAATTTA
1 TATAAAACATTAAAAATTTA
9093679 ATAATAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.37
Consensus pattern (37 bp):
TATAAAACATTAAAAATTTATAAATGAATAATAATAT
Found at i:9098692 original size:18 final size:17
Alignment explanation
Indices: 9098657--9098691 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
9098647 ACAAAACACG
9098657 TAAAAAAATAATAAAAA
1 TAAAAAAATAATAAAAA
9098674 TAAACAAAATGAATAAAA
1 TAAA-AAAAT-AATAAAA
9098692 TGTTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (17 bp):
TAAAAAAATAATAAAAA
Found at i:9098919 original size:16 final size:17
Alignment explanation
Indices: 9098887--9098942 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
9098877 TATTAAGAAA
9098887 AAAATAATAGAAAAAAT
1 AAAATAATAGAAAAAAT
*
9098904 AAAATAA-AGTAAAAAT
1 AAAATAATAGAAAAAAT
* *
9098920 ATAATATATATAAATAAAT
1 AAAATA-ATAGAAA-AAAT
9098939 AAAA
1 AAAA
9098943 ACAATAGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 13 0.42
17 8 0.26
18 3 0.10
19 7 0.23
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (17 bp):
AAAATAATAGAAAAAAT
Found at i:9099000 original size:37 final size:39
Alignment explanation
Indices: 9098922--9099005 Score: 113
Period size: 36 Copynumber: 2.3 Consensus size: 39
9098912 GTAAAAATAT
9098922 AATATATATAAATAAATAAAAACAATAGAATATTAAGAA
1 AATATATATAAATAAATAAAAACAATAGAATATTAAGAA
** *
9098961 AATATATATAAA-ACGT-AAAA-AATATAATATTAAGAA
1 AATATATATAAATAAATAAAAACAATAGAATATTAAGAA
9098997 AA-ATATATA
1 AATATATATA
9099006 CATAGTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 7 0.17
36 17 0.40
37 4 0.10
38 2 0.05
39 12 0.29
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (39 bp):
AATATATATAAATAAATAAAAACAATAGAATATTAAGAA
Found at i:9100650 original size:110 final size:110
Alignment explanation
Indices: 9100514--9100720 Score: 335
Period size: 110 Copynumber: 1.9 Consensus size: 110
9100504 GCTCTGGAAA
* *
9100514 TTGTTTGTTGACAGTCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTGTCTCGAGTTCAATA
1 TTGTTTGTTGACAATCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
9100579 TC-CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
66 TCAC-TCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
* * ** *
9100624 TTGTTTGTTGACAATCAGTCGTCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATA
1 TTGTTTGTTGACAATCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
9100689 TCACTCGCTGTGAAGTTGAAATTGACTCTGAA
66 TCACTCGCTGTGAAGTTGAAATTGACTCTGAA
9100721 ACTGGGAAGC
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
110 88 0.99
111 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (110 bp):
TTGTTTGTTGACAATCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
TCACTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
Found at i:9101749 original size:16 final size:17
Alignment explanation
Indices: 9101730--9101765 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9101720 ACACTAAACG
9101730 TTTTTCA-TTTTTGTTT
1 TTTTTCATTTTTTGTTT
*
9101746 TTTTTTATTTTTTGTTT
1 TTTTTCATTTTTTGTTT
9101763 TTT
1 TTT
9101766 GTTTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.86
Consensus pattern (17 bp):
TTTTTCATTTTTTGTTT
Found at i:9101757 original size:24 final size:25
Alignment explanation
Indices: 9101730--9101776 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
9101720 ACACTAAACG
9101730 TTTTTCATTTTTGTTTTT-TTTTAT
1 TTTTTCATTTTTGTTTTTATTTTAT
**
9101754 TTTTTGTTTTTTGTTTTTATTTT
1 TTTTTCATTTTTGTTTTTATTTT
9101777 TTTGACTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.06, C:0.02, G:0.06, T:0.85
Consensus pattern (25 bp):
TTTTTCATTTTTGTTTTTATTTTAT
Found at i:9112175 original size:25 final size:26
Alignment explanation
Indices: 9112126--9112195 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
9112116 TGCAAACGTG
9112126 AGAATAATAAATAAAACAAG-AAAAAAT
1 AGAA-AAT-AATAAAACAAGAAAAAAAT
* *
9112153 AGAAAATAATAAAACACGTAAAAAAT
1 AGAAAATAATAAAACAAGAAAAAAAT
*
9112179 A-ATAATAATATAAACAA
1 AGAAAATAATA-AAACAA
9112196 AATGAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 18 0.47
26 16 0.42
27 4 0.11
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (26 bp):
AGAAAATAATAAAACAAGAAAAAAAT
Found at i:9112193 original size:26 final size:25
Alignment explanation
Indices: 9112128--9112195 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
9112118 CAAACGTGAG
9112128 AATAATAA-ATAAAACAAGAAAAAAT
1 AATAATAATAT-AAACAAGAAAAAAT
* *
9112153 AGAAAATAATA-AAACACGTAAAAAAT
1 A-ATAATAATATAAACAAG-AAAAAAT
9112179 AATAATAATATAAACAA
1 AATAATAATATAAACAA
9112196 AATGAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
25 15 0.43
26 19 0.54
27 1 0.03
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.18
Consensus pattern (25 bp):
AATAATAATATAAACAAGAAAAAAT
Found at i:9114792 original size:33 final size:33
Alignment explanation
Indices: 9114750--9114834 Score: 161
Period size: 33 Copynumber: 2.6 Consensus size: 33
9114740 TCCGGTGCTC
*
9114750 CTGGATTTGTTAAAGGATTGGGTCCCTTTGTTT
1 CTGGATTTGTAAAAGGATTGGGTCCCTTTGTTT
9114783 CTGGATTTGTAAAAGGATTGGGTCCCTTTGTTT
1 CTGGATTTGTAAAAGGATTGGGTCCCTTTGTTT
9114816 CTGGATTTGTAAAAGGATT
1 CTGGATTTGTAAAAGGATT
9114835 AGGGCAATCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.42
Consensus pattern (33 bp):
CTGGATTTGTAAAAGGATTGGGTCCCTTTGTTT
Found at i:9115715 original size:21 final size:21
Alignment explanation
Indices: 9115689--9115735 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
9115679 TGGATTTGAC
9115689 GTCGTCACGACTGATCAAGAT
1 GTCGTCACGACTGATCAAGAT
*
9115710 GTCGTCACGACTGATTAAGAT
1 GTCGTCACGACTGATCAAGAT
9115731 GTCGT
1 GTCGT
9115736 TTATTTGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (21 bp):
GTCGTCACGACTGATCAAGAT
Found at i:9118013 original size:17 final size:19
Alignment explanation
Indices: 9117991--9118039 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
9117981 ATTTAAAGGT
9117991 TATATAATTA-TATAA-AA
1 TATATAATTATTATAATAA
9118008 TATATAATTATTATAATAA
1 TATATAATTATTATAATAA
*
9118027 TA-ATATTTATTAT
1 TATATAATTATTAT
9118040 TTAAAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 10 0.34
18 15 0.52
19 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATATAATTATTATAATAA
Found at i:9119280 original size:19 final size:19
Alignment explanation
Indices: 9119256--9119292 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9119246 ATGACCAACA
*
9119256 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
9119275 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
9119293 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:9119422 original size:20 final size:21
Alignment explanation
Indices: 9119398--9119459 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
9119388 CGAATATGTA
*
9119398 AATCGAAACGCGATTCTGACT
1 AATCGCAACGCGATTCTGACT
* **
9119419 -ATCGCAATGCGATAAT-ACAT
1 AATCGCAACGCGATTCTGAC-T
9119439 AATCGCAACGCGATTCTGACT
1 AATCGCAACGCGATTCTGACT
9119460 GTCACAACGT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
19 2 0.06
20 13 0.42
21 14 0.45
22 2 0.06
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (21 bp):
AATCGCAACGCGATTCTGACT
Found at i:9120315 original size:24 final size:24
Alignment explanation
Indices: 9120288--9120341 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
9120278 GTATTCAAAA
9120288 TTTGATCCTT-GTCAATACCCGGAC
1 TTTGAT-CTTGGTCAATACCCGGAC
* *
9120312 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
9120336 TTTGAT
1 TTTGAT
9120342 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:9120560 original size:14 final size:14
Alignment explanation
Indices: 9120541--9120567 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9120531 GAATAACAAA
9120541 TCCCCGAAGAAAAG
1 TCCCCGAAGAAAAG
9120555 TCCCCGAAGAAAA
1 TCCCCGAAGAAAA
9120568 TGCCACGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.19, T:0.07
Consensus pattern (14 bp):
TCCCCGAAGAAAAG
Found at i:9122618 original size:12 final size:12
Alignment explanation
Indices: 9122603--9122641 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9122593 AAGAAAAAGG
9122603 CAATCAAAATCA
1 CAATCAAAATCA
9122615 CAATCAAAATCA
1 CAATCAAAATCA
* **
9122627 AAATCCCAATCA
1 CAATCAAAATCA
9122639 CAA
1 CAA
9122642 CCGGCTTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATCAAAATCA
Found at i:9122627 original size:18 final size:18
Alignment explanation
Indices: 9122604--9122638 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9122594 AGAAAAAGGC
9122604 AATCAAAATCACAATCAA
1 AATCAAAATCACAATCAA
*
9122622 AATCAAAATCCCAATCA
1 AATCAAAATCACAATCA
9122639 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (18 bp):
AATCAAAATCACAATCAA
Found at i:9122948 original size:140 final size:140
Alignment explanation
Indices: 9122696--9122978 Score: 557
Period size: 140 Copynumber: 2.0 Consensus size: 140
9122686 ACAAACGTTA
9122696 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
9122761 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
9122826 CGAATTTGAC
131 CGAATTTGAC
9122836 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
9122901 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
*
9122966 TGAATTTGAC
131 CGAATTTGAC
9122976 TAT
1 TAT
9122979 CGCAACGCGA
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 142 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:9122974 original size:20 final size:20
Alignment explanation
Indices: 9122949--9123065 Score: 180
Period size: 20 Copynumber: 5.8 Consensus size: 20
9122939 TTACACATTC
* *
9122949 ATTTGAATATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
9122969 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
9122989 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
9123009 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
* * *
9123029 ATTTGATTATCGCAACACAA
1 ATTTGACTATCGCAACGCGA
9123049 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
9123066 ATAAAATCGC
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 90 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:9123004 original size:40 final size:40
Alignment explanation
Indices: 9122949--9123105 Score: 182
Period size: 40 Copynumber: 4.1 Consensus size: 40
9122939 TTACACATTC
*
9122949 ATTTGAATATCGCAACGTGAATTTGACTATCGCAACGCGA
1 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGA
* *
9122989 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACACGA
1 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGA
* * *
9123029 ATTTGATTATCGCAACACAAATTTGACTATCGCAA--CG-
1 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGA
* * * *
9123066 A--T-AAAATCGCAAAGCGTATTAGACTATCGCAACGCGA
1 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGA
9123103 ATT
1 ATT
9123106 GACTTTCGCG
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
34 23 0.23
35 1 0.01
36 2 0.02
37 2 0.02
38 2 0.02
40 69 0.70
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (40 bp):
ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGA
Found at i:9123167 original size:20 final size:20
Alignment explanation
Indices: 9123104--9123181 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
9123094 GCAACGCGAA
*
9123104 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTGCGATT
*
9123124 TTGGCTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
9123144 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
* * *
9123164 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
9123182 AAGTGTACCT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.44
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:9123297 original size:36 final size:36
Alignment explanation
Indices: 9123256--9123341 Score: 145
Period size: 36 Copynumber: 2.4 Consensus size: 36
9123246 TTACATTTCA
* * *
9123256 ATCAATTAAATAAGCATAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACACAAATAAGAATTATTTACAC
9123292 ATCAATTAAACAAACACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACACAAATAAGAATTATTTACAC
9123328 ATCAATTAAACAAA
1 ATCAATTAAACAAA
9123342 TCAACTTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (36 bp):
ATCAATTAAACAAACACAAATAAGAATTATTTACAC
Found at i:9123354 original size:16 final size:17
Alignment explanation
Indices: 9123333--9123369 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
9123323 TACACATCAA
9123333 TTAAACAAATCA-ACTT
1 TTAAACAAATCAGACTT
9123349 TTAAACAAATCAGACTT
1 TTAAACAAATCAGACTT
9123366 TTAA
1 TTAA
9123370 GAATCAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.32
Consensus pattern (17 bp):
TTAAACAAATCAGACTT
Found at i:9124739 original size:42 final size:42
Alignment explanation
Indices: 9124680--9124802 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
9124670 ATGAATCGGG
* *
9124680 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
** *
9124722 CTCTTGAACGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACCTCTTGAACGATGACAGGGGC
* * *
9124764 CTCTTGAACGATAGGAAAGG-CCTCTTGAACGATGACAGG
1 CTCTTGAACGGT-GGGAGGGACCTCTTGAACGATGACAGG
9124803 TGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 60 0.90
43 7 0.10
ACGTcount: A:0.24, C:0.19, G:0.37, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:9124740 original size:21 final size:21
Alignment explanation
Indices: 9124680--9124794 Score: 88
Period size: 21 Copynumber: 5.5 Consensus size: 21
9124670 ATGAATCGGG
* *
9124680 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGGTGGGAGGGGC
* * **
9124701 CTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
*
9124722 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGC
* **
9124743 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGGGGC
* * **
9124764 CTCTTGAACGATAGGAAAGGC
1 CTCTTGAACGGTGGGAGGGGC
9124785 CTCTTGAACG
1 CTCTTGAACG
9124795 ATGACAGGTG
Statistics
Matches: 70, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
20 3 0.04
21 65 0.93
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:9125313 original size:20 final size:20
Alignment explanation
Indices: 9125288--9125331 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
9125278 AATAGTTTCT
9125288 GAAACTTAAAATCACAACAC
1 GAAACTTAAAATCACAACAC
*
9125308 GAAACTTAAAATCACAACGC
1 GAAACTTAAAATCACAACAC
9125328 GAAA
1 GAAA
9125332 ATGACTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.23, G:0.09, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCACAACAC
Found at i:9125376 original size:20 final size:19
Alignment explanation
Indices: 9125322--9125386 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 19
9125312 CTTAAAATCA
*
9125322 CAACGCGAAAATGACTATTG
1 CAACGCG-AAATGACTATCG
*
9125342 CAATGCGGAAATGACTATCG
1 CAACGC-GAAATGACTATCG
*
9125362 CAACGCGAATTTGACTATCG
1 CAACGCGAA-ATGACTATCG
9125382 CAACG
1 CAACG
9125387 GGATAATCGC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.08
20 35 0.90
21 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (19 bp):
CAACGCGAAATGACTATCG
Found at i:9125415 original size:19 final size:20
Alignment explanation
Indices: 9125391--9125429 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9125381 GCAACGGGAT
*
9125391 AATCGCAATGCGAAA-TAAA
1 AATCGCAACGCGAAACTAAA
9125410 AATCGCAACGCGAAACTAAA
1 AATCGCAACGCGAAACTAAA
9125430 TTCGCATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.51, C:0.21, G:0.15, T:0.13
Consensus pattern (20 bp):
AATCGCAACGCGAAACTAAA
Found at i:9127074 original size:64 final size:64
Alignment explanation
Indices: 9126976--9127101 Score: 157
Period size: 64 Copynumber: 2.0 Consensus size: 64
9126966 CGATGCATTG
** *
9126976 GTAGTGCATCGATGCACTCTTTTAAAATAAAAACATCGAATTCAATTCATGCATCCATGCATAA
1 GTAGTGCATCGATGCACTCCATTAAAATAAAAACATCGAATGCAATTCATGCATCCATGCATAA
* ** *
9127040 GTAGTGCATCGATGCA-TCCCATTAATAAT-GAAACATCGAATGCAATTGGTGCATCGATGCAT
1 GTAGTGCATCGATGCACT-CCATTAA-AATAAAAACATCGAATGCAATTCATGCATCCATGCAT
9127102 CCCAGCAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
63 1 0.02
64 49 0.92
65 3 0.06
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (64 bp):
GTAGTGCATCGATGCACTCCATTAAAATAAAAACATCGAATGCAATTCATGCATCCATGCATAA
Found at i:9127143 original size:45 final size:45
Alignment explanation
Indices: 9127044--9127147 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
9127034 GCATAAGTAG
** * *
9127044 TGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATCCCAGCAATAATGAAACATCGAATACAATTGA
** *
9127089 TGCATCGATGCATCCCAGCAATAAT-AATACATCGAATACCTTTTA
1 TGCATCGATGCATCCCAGCAATAATGAA-ACATCGAATACAATTGA
*
9127134 TGCACCGATGCATC
1 TGCATCGATGCATC
9127148 AGTAGTGCAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
44 2 0.04
45 48 0.96
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (45 bp):
TGCATCGATGCATCCCAGCAATAATGAAACATCGAATACAATTGA
Found at i:9127491 original size:12 final size:12
Alignment explanation
Indices: 9127473--9127508 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
9127463 TATATATGTT
9127473 CATGTGATATGA
1 CATGTGATATGA
*
9127485 TATGTGATATGA
1 CATGTGATATGA
9127497 CATGTGATATGA
1 CATGTGATATGA
9127509 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:9127530 original size:23 final size:26
Alignment explanation
Indices: 9127473--9127541 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
9127463 TATATATGTT
**
9127473 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
9127497 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
9127522 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
9127542 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:9135596 original size:64 final size:64
Alignment explanation
Indices: 9135516--9135732 Score: 215
Period size: 64 Copynumber: 3.4 Consensus size: 64
9135506 TTGAAGTTGT
** **
9135516 ATCGATGCATTGGTAGTGCATCGATACA-CTCTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCATAAGTAGTGCATCGATACATC-CCATTAATAAT-AAAACATCGAATGCAATTCATG
9135579 C
64 C
* * **
9135580 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGTAGTGCATCGATACATCCCATTAATAATAAAACATCGAATGCAATTCATGC
* * ** * * ** *
9135644 ATCGATGCATAA-TAAGTGCATCGATGCAACCCAGCAATAATAATACATCGAATACCTTTTATGC
1 ATCGATGCATAAGT-AGTGCATCGATACATCCCATTAATAATAAAACATCGAATGCAATTCATGC
* *
9135708 ACCGATGCATCAGTAGTGCATCGAT
1 ATCGATGCATAAGTAGTGCATCGAT
9135733 GCATACCTTC
Statistics
Matches: 129, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
63 1 0.01
64 123 0.95
65 5 0.04
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATACATCCCATTAATAATAAAACATCGAATGCAATTCATGC
Found at i:9136062 original size:12 final size:12
Alignment explanation
Indices: 9136044--9136079 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
9136034 TATATATGTT
9136044 CATGTGATATGA
1 CATGTGATATGA
*
9136056 TATGTGATATGA
1 CATGTGATATGA
9136068 CATGTGATATGA
1 CATGTGATATGA
9136080 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:9136101 original size:23 final size:26
Alignment explanation
Indices: 9136044--9136112 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
9136034 TATATATGTT
**
9136044 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
9136068 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
9136093 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
9136113 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:9140278 original size:24 final size:24
Alignment explanation
Indices: 9140224--9140318 Score: 100
Period size: 24 Copynumber: 4.0 Consensus size: 24
9140214 ATTTCCGACT
* *** *
9140224 TGAATTTTGTTCTGATAAATGACC
1 TGAATTCTGTTCTGATTTCTGATC
*
9140248 TGAATTCTATTCTGATTTCTGATC
1 TGAATTCTGTTCTGATTTCTGATC
* * *
9140272 TGGATTCTGTTCTGATATCTGTTC
1 TGAATTCTGTTCTGATTTCTGATC
*
9140296 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATTTCTGAT
9140319 ATCTTCGTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATC
Found at i:9140304 original size:12 final size:12
Alignment explanation
Indices: 9140247--9140316 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
9140237 GATAAATGAC
*
9140247 CTGAATTCTATT
1 CTGAATTCTGTT
* *
9140259 CTGATTTCTGAT
1 CTGAATTCTGTT
*
9140271 CTGGATTCTGTT
1 CTGAATTCTGTT
9140283 CTG-ATATCTGTT
1 CTGAAT-TCTGTT
9140295 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
9140307 TTGATTTCTG
1 CTGAATTCTG
9140317 ATATCTTCGT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 2 0.04
12 44 0.92
13 2 0.04
ACGTcount: A:0.16, C:0.16, G:0.17, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:9143547 original size:24 final size:24
Alignment explanation
Indices: 9143515--9143567 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
9143505 AAGTGATAAA
9143515 AGAATCAACCATGGATTGTAGATT
1 AGAATCAACCATGGATTGTAGATT
9143539 AGAATCAACCATGGATTGTAGATT
1 AGAATCAACCATGGATTGTAGATT
9143563 AGAAT
1 AGAAT
9143568 TTATCTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (24 bp):
AGAATCAACCATGGATTGTAGATT
Found at i:9145445 original size:24 final size:24
Alignment explanation
Indices: 9145391--9145485 Score: 91
Period size: 24 Copynumber: 4.0 Consensus size: 24
9145381 ATTTCCGACT
* *** *
9145391 TGAATTCTGTTCTGATAAATGACC
1 TGAATTCTGTTATGATTTCTGATC
* *
9145415 TGAATTCTATTCTGATTTCTGATC
1 TGAATTCTGTTATGATTTCTGATC
* * *
9145439 TGGATTCTGTTATGATATCTGTTC
1 TGAATTCTGTTATGATTTCTGATC
*
9145463 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTATGATTTCTGAT
9145486 ATCTTCGTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTGATC
Found at i:9145471 original size:12 final size:12
Alignment explanation
Indices: 9145414--9145483 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
9145404 GATAAATGAC
*
9145414 CTGAATTCTATT
1 CTGAATTCTGTT
* *
9145426 CTGATTTCTGAT
1 CTGAATTCTGTT
*
9145438 CTGGATTCTGTT
1 CTGAATTCTGTT
*
9145450 ATG-ATATCTGTT
1 CTGAAT-TCTGTT
9145462 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
9145474 TTGATTTCTG
1 CTGAATTCTG
9145484 ATATCTTCGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:9147866 original size:20 final size:20
Alignment explanation
Indices: 9147809--9147880 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
9147799 AAACTTAAAT
**
9147809 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGACTA
*
9147829 TCGCAACACGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
**
9147849 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
* *
9147869 TCACAAAGCGAA
1 TCGCAACGCGAA
9147881 TTTAACTATC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:9147881 original size:20 final size:20
Alignment explanation
Indices: 9147843--9147890 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
9147833 AACACGAAAA
* *
9147843 TGACTATCGCAACGCGAATT
1 TGACTATCACAAAGCGAATT
9147863 TGACTATCACAAAGCGAATT
1 TGACTATCACAAAGCGAATT
*
9147883 TAACTATC
1 TGACTATC
9147891 GTTGCGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (20 bp):
TGACTATCACAAAGCGAATT
Found at i:9148283 original size:22 final size:22
Alignment explanation
Indices: 9148256--9148313 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
9148246 GATGGAGATA
9148256 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
9148278 GACGGATTTTGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
9148300 GACGGATGTCGCCG
1 GACGGATTTCGCCG
9148314 TAGAGAGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.45, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:9148519 original size:20 final size:20
Alignment explanation
Indices: 9148494--9148542 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
9148484 ATAGTCAGAA
9148494 TCGCGTTGCTATTTACATAT
1 TCGCGTTGCTATTTACATAT
9148514 TCGCGTTGCTATTTACATAT
1 TCGCGTTGCTATTTACATAT
*
9148534 TCGCATTGC
1 TCGCGTTGC
9148543 GAATCTGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCTATTTACATAT
Found at i:9150266 original size:21 final size:21
Alignment explanation
Indices: 9150234--9150275 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9150224 TAATTTTTCC
9150234 TTTTTTCTTTTA-AAAATAATA
1 TTTTTTCTTTTATAAAA-AATA
9150255 TTTTTT-TATTTATAAAAAATA
1 TTTTTTCT-TTTATAAAAAATA
9150276 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.05
21 14 0.74
22 4 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTTCTTTTATAAAAAATA
Found at i:9150731 original size:23 final size:24
Alignment explanation
Indices: 9150698--9150751 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
9150688 AATTATAATA
* *
9150698 AAATTTAAATTAAT-TATCA-ATT
1 AAATTTGAATTAATATATAACATT
9150720 AGAATTTGAATTAATATATAACATT
1 A-AATTTGAATTAATATATAACATT
9150745 AAATTTG
1 AAATTTG
9150752 TTGTTTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 12 0.44
24 10 0.37
25 4 0.15
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (24 bp):
AAATTTGAATTAATATATAACATT
Found at i:9152224 original size:5 final size:5
Alignment explanation
Indices: 9152193--9152234 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
9152183 TATTATCTTC
* *
9152193 TTTTC TTTTC TTTTA -TTTA TTTATA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA TTTTA TT
9152235 ATTTTTTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:9152236 original size:20 final size:19
Alignment explanation
Indices: 9152198--9152240 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
9152188 TCTTCTTTTC
*
9152198 TTTTCTTTTATTTATTTAT
1 TTTTATTTTATTTATTTAT
9152217 ATTTTATTTTATTT-TATTAT
1 -TTTTATTTTATTTAT-TTAT
9152237 TTTT
1 TTTT
9152241 TTCTTTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTTATTTATTTAT
Found at i:9152247 original size:20 final size:21
Alignment explanation
Indices: 9152198--9152263 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
9152188 TCTTCTTTTC
9152198 TTTTCTTT-TATTTATTTATATT
1 TTTTCTTTATATTTA-TTAT-TT
*
9152220 TTAT-TTTAT-TTTATTATTT
1 TTTTCTTTATATTTATTATTT
* * *
9152239 TTTTCTTTATCTTTACTCTTT
1 TTTTCTTTATATTTATTATTT
9152260 TTTT
1 TTTT
9152264 TCTCTTTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
19 5 0.14
20 9 0.24
21 19 0.51
22 4 0.11
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTCTTTATATTTATTATTT
Found at i:9152456 original size:11 final size:10
Alignment explanation
Indices: 9152436--9152505 Score: 52
Period size: 11 Copynumber: 6.6 Consensus size: 10
9152426 TTATCTCACC
9152436 ATTTTATTTTT
1 ATTTT-TTTTT
9152447 ATTTGTTTTTT
1 ATTT-TTTTTT
*
9152458 ATATTTTCTTT
1 AT-TTTTTTTT
9152469 ATTTTAATTTTT
1 ATTTT--TTTTT
* *
9152481 -TTTCTTATT
1 ATTTTTTTTT
*
9152490 ATTTTTTTTA
1 ATTTTTTTTT
9152500 ATTTTT
1 ATTTTT
9152506 ATCTGACACG
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
9 4 0.09
10 15 0.32
11 21 0.45
12 7 0.15
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:9154783 original size:57 final size:57
Alignment explanation
Indices: 9154714--9154838 Score: 205
Period size: 57 Copynumber: 2.2 Consensus size: 57
9154704 GATGACTTCT
* * *
9154714 CAGAATGCATAAGCCATATAAGAAGCTTGATAGACAAGAAAAATAAGTGTAGAGATG
1 CAGAATGCATAAGCCATATAAAAAGCTGGATAAACAAGAAAAATAAGTGTAGAGATG
*
9154771 CAGAATGCATAAGCCATATAAAAAGCTGGATAAACAAGAAAAATAAGTGTAGATATG
1 CAGAATGCATAAGCCATATAAAAAGCTGGATAAACAAGAAAAATAAGTGTAGAGATG
*
9154828 CATAATGCATA
1 CAGAATGCATA
9154839 TATGTTCCCA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (57 bp):
CAGAATGCATAAGCCATATAAAAAGCTGGATAAACAAGAAAAATAAGTGTAGAGATG
Found at i:9155123 original size:25 final size:25
Alignment explanation
Indices: 9155089--9155154 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
9155079 AAGCCAAATC
9155089 TTAGTATCTTGTTATGGTTCTTCAG
1 TTAGTATCTTGTTATGGTTCTTCAG
9155114 TTAGTATCTTGTTATGGTTCTTCAG
1 TTAGTATCTTGTTATGGTTCTTCAG
9155139 TTAGTATCTTGTTATG
1 TTAGTATCTTGTTATG
9155155 AAAACCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.17, C:0.11, G:0.20, T:0.53
Consensus pattern (25 bp):
TTAGTATCTTGTTATGGTTCTTCAG
Found at i:9156759 original size:20 final size:20
Alignment explanation
Indices: 9156723--9156760 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9156713 ATCCTATTCC
*
9156723 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTCATTCCCA
9156743 CTGGTAAT-TTTACATTCC
1 CTGGTAATCTTT-CATTCC
9156761 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTTCATTCCCA
Found at i:9157211 original size:13 final size:13
Alignment explanation
Indices: 9157193--9157226 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
9157183 AGAGCCCACC
9157193 CAAACCCTCATTT
1 CAAACCCTCATTT
*
9157206 CAAACCCCCATTT
1 CAAACCCTCATTT
9157219 CAAACCCT
1 CAAACCCT
9157227 AGGCTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (13 bp):
CAAACCCTCATTT
Found at i:9160705 original size:20 final size:21
Alignment explanation
Indices: 9160681--9160726 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
9160671 TTTAAATAGT
9160681 AATAAAAATGATTAAA-TAAA
1 AATAAAAATGATTAAAGTAAA
* * *
9160701 TATAAAAGTTATTAAAGTAAA
1 AATAAAAATGATTAAAGTAAA
9160722 AATAA
1 AATAA
9160727 GAGAATAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (21 bp):
AATAAAAATGATTAAAGTAAA
Found at i:9176844 original size:14 final size:13
Alignment explanation
Indices: 9176819--9176865 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
9176809 CTAAATTGAA
9176819 AAAAAGAGAAAAAG
1 AAAAA-AGAAAAAG
9176833 AATAAAAGAAAAAG
1 AA-AAAAGAAAAAG
* *
9176847 AGAAAAGGAAAAG
1 AAAAAAGAAAAAG
9176860 AAAAAA
1 AAAAAA
9176866 TAATGTGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 15 0.52
14 11 0.38
15 3 0.10
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:9178061 original size:185 final size:185
Alignment explanation
Indices: 9177804--9178199 Score: 560
Period size: 185 Copynumber: 2.1 Consensus size: 185
9177794 GTCATCCACG
* * * **
9177804 ATTTCAACTTCACGACGAAGGATATCGTGCTCACATGCAGCATTGGATTTCAACTTCACGGCGAA
1 ATTTCAACTTCACGAAGAAAGATATCGTGCTCACATGAAGCATTGGATTTCAACTTCACAACGAA
* * *
9177869 AGATATCCAATTCAAAGCTCAATTTCACAGCGAAGGGGCTTCCCAGTTTCATTTAGAGCTAATTT
66 AGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGCTTCCCAGTTTCATTCAGAGCCAATTT
* * *
9177934 CAACTTTACGGTGAAGGATATTGGACTCGAAACAATACAACTTACAAAAGATTGA
131 CAACTTCACGGTAAAGGATATTGAACTCGAAACAATACAACTTACAAAAGATTGA
* *
9177989 ATTTCAACTTCACGAAGAAAGATATTGTGCTCACAAT-AAGCATTGGATTTCAACTTCACAATGA
1 ATTTCAACTTCACGAAGAAAGATATCGTGCTCAC-ATGAAGCATTGGATTTCAACTTCACAACGA
* * *
9178053 AGGATATCCAATTCAAAGCTCAACTTCACGGCGAATGGGCTTCCCAGTTTCATTCAGAGCCAATT
65 AAGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGCTTCCCAGTTTCATTCAGAGCCAATT
* * * * *
9178118 TCAACTTCATGGTAAAGGATATTGAACTCGAAACAATGCAACTTGCACAAGATTGG
130 TCAACTTCACGGTAAAGGATATTGAACTCGAAACAATACAACTTACAAAAGATTGA
* * *
9178174 ATTTCAACTTCATGACGAATGATATC
1 ATTTCAACTTCACGAAGAAAGATATC
9178200 CAATTCAAAG
Statistics
Matches: 185, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
185 183 0.99
186 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (185 bp):
ATTTCAACTTCACGAAGAAAGATATCGTGCTCACATGAAGCATTGGATTTCAACTTCACAACGAA
AGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGCTTCCCAGTTTCATTCAGAGCCAATTT
CAACTTCACGGTAAAGGATATTGAACTCGAAACAATACAACTTACAAAAGATTGA
Found at i:9179558 original size:277 final size:277
Alignment explanation
Indices: 9179064--9179629 Score: 1105
Period size: 277 Copynumber: 2.0 Consensus size: 277
9179054 TGTAATCGAA
9179064 CCCATTTGAGGGACACGATTAATATACAAAGAATAGTCGAAATTTCATGCAAGAAATACGAACAA
1 CCCATTTGAGGGACACGATTAATATACAAAGAATAGTCGAAATTTCATGCAAGAAATACGAACAA
9179129 CCTTAGAGTGAAACCGGAGCAATTTATTTATTTTTTTTGCAAAACTTTCGAAGAGAACCAAAGGT
66 CCTTAGAGTGAAACCGGAGCAATTTATTTATTTTTTTTGCAAAACTTTCGAAGAGAACCAAAGGT
9179194 AAAGTTCGTACCTTTTTTTTCATTTTTGAGGCTTGCATGCTTTAGTCTTGTTGCTTTTGATTTGA
131 AAAGTTCGTACCTTTTTTTTCATTTTTGAGGCTTGCATGCTTTAGTCTTGTTGCTTTTGATTTGA
9179259 AGAACACAAAATAAAACAATTTTTAGCCGATGAACGGGAAGGTTTTTTTAGATCTATCTTTTTAG
196 AGAACACAAAATAAAACAATTTTTAGCCGATGAACGGGAAGGTTTTTTTAGATCTATCTTTTTAG
9179324 ATCTAGCAATCTCGAGG
261 ATCTAGCAATCTCGAGG
*
9179341 CCCATTTGAGGGACACGATTAATATACAAAGAATAGTCGAAATTTCATGCAAGAAATACGAGCAA
1 CCCATTTGAGGGACACGATTAATATACAAAGAATAGTCGAAATTTCATGCAAGAAATACGAACAA
*
9179406 CCTTAGAGTGAAACCGGAGTAATTTATTTATTTTTTTTGCAAAACTTTCGAAGAGAACCAAAGGT
66 CCTTAGAGTGAAACCGGAGCAATTTATTTATTTTTTTTGCAAAACTTTCGAAGAGAACCAAAGGT
9179471 AAAGTTCGTACCTTTTTTTTCATTTTTGAGGCTTGCATGCTTTAGTCTTGTTGCTTTTGATTTGA
131 AAAGTTCGTACCTTTTTTTTCATTTTTGAGGCTTGCATGCTTTAGTCTTGTTGCTTTTGATTTGA
9179536 AGAACACAAAATAAAACAATTTTTAGCCGATGAACGGGAAGGTTTTTTTAGATCTATCTTTTTAG
196 AGAACACAAAATAAAACAATTTTTAGCCGATGAACGGGAAGGTTTTTTTAGATCTATCTTTTTAG
9179601 ATCTAGCAATCTCGAGG
261 ATCTAGCAATCTCGAGG
9179618 CCCATTTTGAGG
1 CCCA-TTTGAGG
9179630 AAGAGAACTT
Statistics
Matches: 286, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
277 279 0.98
278 7 0.02
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (277 bp):
CCCATTTGAGGGACACGATTAATATACAAAGAATAGTCGAAATTTCATGCAAGAAATACGAACAA
CCTTAGAGTGAAACCGGAGCAATTTATTTATTTTTTTTGCAAAACTTTCGAAGAGAACCAAAGGT
AAAGTTCGTACCTTTTTTTTCATTTTTGAGGCTTGCATGCTTTAGTCTTGTTGCTTTTGATTTGA
AGAACACAAAATAAAACAATTTTTAGCCGATGAACGGGAAGGTTTTTTTAGATCTATCTTTTTAG
ATCTAGCAATCTCGAGG
Found at i:9180210 original size:16 final size:17
Alignment explanation
Indices: 9180177--9180214 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
9180167 TATGTATACA
9180177 TATTTTATCATTTGTTT
1 TATTTTATCATTTGTTT
9180194 TATTTT-TCATGTT-TTT
1 TATTTTATCAT-TTGTTT
9180210 TATTT
1 TATTT
9180215 ATATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (17 bp):
TATTTTATCATTTGTTT
Found at i:9180419 original size:30 final size:31
Alignment explanation
Indices: 9180343--9180420 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
9180333 TTAATTTCTC
*
9180343 TATTTATTTTTATTTTACTATTGATTTTATT
1 TATTTATTTTTATCTTACTATTGATTTTATT
*
9180374 TATTTAATATATTATCTT-C-ATT-ATTTTATTT
1 TATTT-AT-TTTTATCTTACTATTGATTTTA-TT
9180405 TACTTTATTTTTATCT
1 TA-TTTATTTTTATCT
9180421 GTTTTTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
30 13 0.32
31 14 0.35
32 6 0.15
33 7 0.17
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.68
Consensus pattern (31 bp):
TATTTATTTTTATCTTACTATTGATTTTATT
Found at i:9180528 original size:15 final size:15
Alignment explanation
Indices: 9180501--9180558 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
9180491 TATCTCACCA
9180501 TTTTATTTTTATTTG
1 TTTTATTTTTATTTG
9180516 TTTT-TTTTATATTT-
1 TTTTATTTT-TATTTG
*
9180530 TCTTTATTTTAATTT-
1 T-TTTATTTTTATTTG
* *
9180545 TTTTCTTATTATTT
1 TTTTATTTTTATTT
9180559 TCTTTTCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 15 0.42
15 17 0.47
16 4 0.11
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTATTTTTATTTG
Found at i:9180539 original size:29 final size:30
Alignment explanation
Indices: 9180502--9180563 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
9180492 ATCTCACCAT
* *
9180502 TTTATTTTTATTTGTTTTTTTTA-TATTTTC
1 TTTATTTTTAATT-TTTTTCTTATTATTTTC
9180532 TTTA-TTTTAATTTTTTTCTTATTATTTTC
1 TTTATTTTTAATTTTTTTCTTATTATTTTC
9180561 TTT
1 TTT
9180564 TCTTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.28
29 17 0.59
30 4 0.14
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (30 bp):
TTTATTTTTAATTTTTTTCTTATTATTTTC
Found at i:9182557 original size:2 final size:2
Alignment explanation
Indices: 9182550--9182576 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9182540 AATAGGTGTT
9182550 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 T
9182577 CACTTTACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9187251 original size:26 final size:26
Alignment explanation
Indices: 9187222--9187271 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
9187212 ATAAATTAAA
* **
9187222 TTAATAGTATTTAATTGTGCTCGTTG
1 TTAATAATATTTAATAATGCTCGTTG
9187248 TTAATAATATTTAATAATGCTCGT
1 TTAATAATATTTAATAATGCTCGT
9187272 CGAATATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (26 bp):
TTAATAATATTTAATAATGCTCGTTG
Found at i:9192682 original size:13 final size:13
Alignment explanation
Indices: 9192664--9192701 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
9192654 ACCTGGCCAA
9192664 TGACTTTGACTGT
1 TGACTTTGACTGT
*
9192677 TGACTTTGAATGT
1 TGACTTTGACTGT
9192690 TGACCTTTGACT
1 TGA-CTTTGACT
9192702 TCAACCATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (13 bp):
TGACTTTGACTGT
Found at i:9195582 original size:23 final size:23
Alignment explanation
Indices: 9195551--9195638 Score: 140
Period size: 23 Copynumber: 3.8 Consensus size: 23
9195541 AACCGATCTC
* * *
9195551 GACCCGTTGAGTTTGATCGACTT
1 GACCTGTTGACTTTGATCGACCT
*
9195574 GTCCTGTTGACTTTGATCGACCT
1 GACCTGTTGACTTTGATCGACCT
9195597 GACCTGTTGACTTTGATCGACCT
1 GACCTGTTGACTTTGATCGACCT
9195620 GACCTGTTGACTTTGATCG
1 GACCTGTTGACTTTGATCG
9195639 TTGACTTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (23 bp):
GACCTGTTGACTTTGATCGACCT
Found at i:9196333 original size:29 final size:29
Alignment explanation
Indices: 9196289--9196402 Score: 122
Period size: 29 Copynumber: 3.9 Consensus size: 29
9196279 ATCCTCGTCA
* * * *
9196289 TGATTTTGCATGGGATTTATTCCCCATTC
1 TGATTCTGCATAGGACTTATTCCCCATCC
*
9196318 TGATTCTGCATAGGATTTATTCCCCATCC
1 TGATTCTGCATAGGACTTATTCCCCATCC
* * *
9196347 TAATTATGCAT-GGACTTAGTCCCCATCC
1 TGATTCTGCATAGGACTTATTCCCCATCC
* *
9196375 TGATTCTGTATAGGACCTCATTCCCCAT
1 TGATTCTGCATAGGA-CTTATTCCCCAT
9196403 TCTAACATCT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
28 23 0.32
29 38 0.54
30 10 0.14
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (29 bp):
TGATTCTGCATAGGACTTATTCCCCATCC
Found at i:9196388 original size:57 final size:59
Alignment explanation
Indices: 9196295--9196407 Score: 149
Period size: 57 Copynumber: 1.9 Consensus size: 59
9196285 GTCATGATTT
* * * * *
9196295 TGCATGGGATTTATTCCCCATTCTGATTCTGCATAGGA-TTTATTCCCCATCCTAATTA
1 TGCATGGGACTTAGTCCCCATCCTGATTCTGCATAGGACCTCATTCCCCATCCTAATTA
* *
9196353 TGCAT-GGACTTAGTCCCCATCCTGATTCTGTATAGGACCTCATTCCCCATTCTAA
1 TGCATGGGACTTAGTCCCCATCCTGATTCTGCATAGGACCTCATTCCCCATCCTAA
9196408 CATCTACATG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
57 28 0.60
58 19 0.40
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.36
Consensus pattern (59 bp):
TGCATGGGACTTAGTCCCCATCCTGATTCTGCATAGGACCTCATTCCCCATCCTAATTA
Found at i:9196441 original size:30 final size:30
Alignment explanation
Indices: 9196401--9196467 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
9196391 CTCATTCCCC
*
9196401 ATTCTAACATCTACATGAGATAAACTCTCT
1 ATTCTGACATCTACATGAGATAAACTCTCT
** * *
9196431 ATTCTGACATCTGTATGGGATAAATTCTCT
1 ATTCTGACATCTACATGAGATAAACTCTCT
9196461 ATTCTGA
1 ATTCTGA
9196468 TATTTTCATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (30 bp):
ATTCTGACATCTACATGAGATAAACTCTCT
Found at i:9196479 original size:30 final size:31
Alignment explanation
Indices: 9196401--9196481 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
9196391 CTCATTCCCC
* * *
9196401 ATTCTAACATCT-ACATGAGATAAACTCTCT
1 ATTCTGACATCTGTCATGGGATAAACTCTCT
*
9196431 ATTCTGACATCTGT-ATGGGATAAATTCTCT
1 ATTCTGACATCTGTCATGGGATAAACTCTCT
* *
9196461 ATTCTGATAT-TTTCATGGGAT
1 ATTCTGACATCTGTCATGGGAT
9196482 TATGTGTCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.05
30 41 0.95
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (31 bp):
ATTCTGACATCTGTCATGGGATAAACTCTCT
Found at i:9197764 original size:20 final size:20
Alignment explanation
Indices: 9197739--9197787 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
9197729 CTTATGTAAT
9197739 TGTTTTATTAAACATCGAGA
1 TGTTTTATTAAACATCGAGA
9197759 TGTTTTATTAAACATCGAGA
1 TGTTTTATTAAACATCGAGA
*
9197779 TGTATTATT
1 TGTTTTATT
9197788 TTGGTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGTTTTATTAAACATCGAGA
Found at i:9202887 original size:2 final size:2
Alignment explanation
Indices: 9202880--9202959 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
9202870 GACATGTTTA
9202880 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
9202922 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
9202960 GTGTGTGTAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9204654 original size:28 final size:28
Alignment explanation
Indices: 9204622--9204679 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
9204612 GTAAGCTTTG
*
9204622 TGGTACACATTGATAGTTGGTAAATGCA
1 TGGTACACATTGATAGTTGGTAAATACA
9204650 TGGTACACATTGATAGTTGGTAAATACA
1 TGGTACACATTGATAGTTGGTAAATACA
9204678 TG
1 TG
9204680 AATAAGTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (28 bp):
TGGTACACATTGATAGTTGGTAAATACA
Found at i:9206189 original size:32 final size:32
Alignment explanation
Indices: 9206153--9206217 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
9206143 AAGGTGACCT
* *
9206153 TTGGGTAGGCTCTT-AGGCCCCAAGGTACTCCC
1 TTGGGTAGGAT-TTAAGGCCCCAAGGCACTCCC
9206185 TTGGGTAGGATTTAAGGCCCCAAGGCACTCCC
1 TTGGGTAGGATTTAAGGCCCCAAGGCACTCCC
9206217 T
1 T
9206218 CAGGTTGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 2 0.07
32 28 0.93
ACGTcount: A:0.18, C:0.29, G:0.28, T:0.25
Consensus pattern (32 bp):
TTGGGTAGGATTTAAGGCCCCAAGGCACTCCC
Found at i:9206581 original size:31 final size:31
Alignment explanation
Indices: 9206491--9206585 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 31
9206481 CGAGATGTTC
* * *** *
9206491 CCTTGGGCAGGCTCTCAGGCCCCAAAATAATC
1 CCTTGGGTAGGCTCTAAGG-CCCAAAGGCATT
**
9206523 CCTTGGGTAGGCTCTAAGGCTTAAAGGCATT
1 CCTTGGGTAGGCTCTAAGGCCCAAAGGCATT
* *
9206554 CCTTGGGTAGGCTTTAAGGCCCCAAGGCATT
1 CCTTGGGTAGGCTCTAAGGCCCAAAGGCATT
9206585 C
1 C
9206586 ACGTAGGTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
31 34 0.67
32 17 0.33
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.24
Consensus pattern (31 bp):
CCTTGGGTAGGCTCTAAGGCCCAAAGGCATT
Found at i:9207935 original size:16 final size:17
Alignment explanation
Indices: 9207902--9207935 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9207892 CCTTTTGTTT
*
9207902 TTATTTTATATTTTAAA
1 TTATTTTATATATTAAA
9207919 TTATTTT-TATATTAAA
1 TTATTTTATATATTAAA
9207935 T
1 T
9207936 AATAGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTTATATATTAAA
Found at i:9212238 original size:20 final size:20
Alignment explanation
Indices: 9212213--9212269 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
9212203 TCCAAAGTGA
9212213 GTAGTATCGATACTCTATTT
1 GTAGTATCGATACTCTATTT
9212233 GTAGTATCGATACTCTATTT
1 GTAGTATCGATACTCTATTT
9212253 GTAGTATCGATACTCTA
1 GTAGTATCGATACTCTA
9212270 GGGTCTAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (20 bp):
GTAGTATCGATACTCTATTT
Found at i:9213089 original size:21 final size:21
Alignment explanation
Indices: 9213063--9213114 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
9213053 AATTTCGGCT
9213063 AATTAGGCCCTAATCCAACCC
1 AATTAGGCCCTAATCCAACCC
9213084 AATTAGGCCCTAATCCAACCC
1 AATTAGGCCCTAATCCAACCC
*
9213105 AATTAAGCCC
1 AATTAGGCCC
9213115 GACAACTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.37, G:0.10, T:0.19
Consensus pattern (21 bp):
AATTAGGCCCTAATCCAACCC
Found at i:9220025 original size:3 final size:3
Alignment explanation
Indices: 9220019--9220043 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9220009 TACACAAATT
9220019 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
9220044 ATTCAAAAAT
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):
ATA
Found at i:9223742 original size:21 final size:21
Alignment explanation
Indices: 9223718--9223827 Score: 100
Period size: 20 Copynumber: 5.4 Consensus size: 21
9223708 AAATTCGCGT
* * *
9223718 TGCGATTTTCCTAATTCGCAA
1 TGCGATTTACGTAAATCGCAA
*
9223739 TGCGA-ATACGTAAATCGCAA
1 TGCGATTTACGTAAATCGCAA
*
9223759 TGCGA-ATACGTAAATCGCAA
1 TGCGATTTACGTAAATCGCAA
* * * *
9223779 TGCGAATTAGGAAAATCGCAT
1 TGCGATTTACGTAAATCGCAA
* *
9223800 TGTGATTTACGT-AATCGCAT
1 TGCGATTTACGTAAATCGCAA
9223820 TGCGATTT
1 TGCGATTT
9223828 TCCTAATTCG
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
20 51 0.68
21 24 0.32
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (21 bp):
TGCGATTTACGTAAATCGCAA
Found at i:9223758 original size:20 final size:20
Alignment explanation
Indices: 9223733--9223785 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
9223723 TTTTCCTAAT
9223733 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
9223753 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
9223773 TCGCAATGCGAAT
1 TCGCAATGCGAAT
9223786 TAGGAAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:9223795 original size:41 final size:40
Alignment explanation
Indices: 9223733--9223824 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 40
9223723 TTTTCCTAAT
*
9223733 TCGCAATGCGAATACGTAAATCGCAATGCGA-ATACGTAAA
1 TCGCAATGCGAATACGAAAATCGCAATGCGATATACGT-AA
* * * *
9223773 TCGCAATGCGAATTAGGAAAATCGCATTGTGATTTACGTAA
1 TCGCAATGCGAA-TACGAAAATCGCAATGCGATATACGTAA
*
9223814 TCGCATTGCGA
1 TCGCAATGCGA
9223825 TTTTCCTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 12 0.27
41 27 0.61
42 5 0.11
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (40 bp):
TCGCAATGCGAATACGAAAATCGCAATGCGATATACGTAA
Found at i:9223834 original size:20 final size:20
Alignment explanation
Indices: 9223792--9223839 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
9223782 GAATTAGGAA
* *
9223792 AATCGCATTGTGATTTACGT
1 AATCGCATTGCGATTTACCT
*
9223812 AATCGCATTGCGATTTTCCT
1 AATCGCATTGCGATTTACCT
9223832 AATTCGCA
1 AA-TCGCA
9223840 ACGAGATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (20 bp):
AATCGCATTGCGATTTACCT
Found at i:9227295 original size:20 final size:19
Alignment explanation
Indices: 9227267--9227310 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
9227257 CAATCATCTT
* *
9227267 AATGTCTATCGTAACGCGGA
1 AATGACTATCGCAACGC-GA
*
9227287 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
9227306 AATGA
1 AATGA
9227311 AAATCACAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:9227309 original size:19 final size:19
Alignment explanation
Indices: 9227294--9227424 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
9227284 GGAAATGACT
9227294 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
9227313 ATCACAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
9227327 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9227346 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
9227360 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
9227379 ATCGCAAT--G--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
9227393 ATCGCAAAGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9227412 ATCGCAACGCGAA
1 ATCGCAATGCGAA
9227425 TTTAGTTTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
14 28 0.33
15 3 0.04
16 5 0.06
17 5 0.06
18 3 0.04
19 41 0.48
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:9227336 original size:33 final size:33
Alignment explanation
Indices: 9227294--9227420 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
9227284 GGAAATGACT
*
9227294 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
9227327 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
9227360 ATCGCAATGCGAAATGAAAATCGCAATGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
9227393 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
9227421 CGAATTTAGT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:9227455 original size:19 final size:19
Alignment explanation
Indices: 9227420--9227514 Score: 105
Period size: 19 Copynumber: 5.3 Consensus size: 19
9227410 AAATCGCAAC
*
9227420 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
9227439 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
9227458 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
9227472 GCGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
9227491 GCGATTTTCA-TTTCGCATT
1 GCGATTTT-AGTTTCGCGTT
9227510 GCGAT
1 GCGAT
9227515 AGTCATTTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
14 12 0.18
16 1 0.01
17 1 0.01
18 1 0.01
19 53 0.78
ACGTcount: A:0.13, C:0.18, G:0.24, T:0.45
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:9227477 original size:33 final size:33
Alignment explanation
Indices: 9227435--9227498 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
9227425 TTTAGTTTCG
9227435 CGTTGCGATTTT-AGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCGTTGCGATTTTGT
9227468 CGTTGCGATTTTCATTTCGCGTTGCGATTTT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTTT
9227499 CATTTCGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.09, C:0.17, G:0.25, T:0.48
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTTTGT
Found at i:9227520 original size:19 final size:19
Alignment explanation
Indices: 9227479--9227522 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
9227469 GTTGCGATTT
* **
9227479 TCATTTCGCGTTGCGATTT
1 TCATTTCGCATTGCGATAG
9227498 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
9227517 TCATTT
1 TCATTT
9227523 TTGCCTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:9227640 original size:14 final size:14
Alignment explanation
Indices: 9227621--9227657 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
9227611 CATCAATTAA
9227621 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
9227635 ACAAATCATCTTTT
1 ACAAATCAACTTTT
9227649 ACAAATCAA
1 ACAAATCAA
9227658 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:9229076 original size:21 final size:21
Alignment explanation
Indices: 9229010--9229076 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
9229000 ATGAATCGGG
*
9229010 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
9229030 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
9229052 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
9229073 CTCT
1 CTCT
9229077 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:9229095 original size:42 final size:41
Alignment explanation
Indices: 9229010--9229132 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
9229000 ATGAATCGGG
* * * *
9229010 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
9229052 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
9229094 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
9229133 CGATTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:9229575 original size:19 final size:19
Alignment explanation
Indices: 9229553--9229674 Score: 128
Period size: 19 Copynumber: 6.6 Consensus size: 19
9229543 AAAAATAACT
9229553 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
9229572 ATCGCAACGAGAGAATGAAA
1 ATCGCAACGCGA-AATGAAA
* *
9229592 ATCGTAACGCGAAACGAAA
1 ATCGCAACGCGAAATGAAA
*
9229611 ATCGCAACGCGAAATAAAA
1 ATCGCAACGCGAAATGAAA
*
9229630 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
* *
9229644 ATCGCAATGCGAAATTAAA
1 ATCGCAACGCGAAATGAAA
*
9229663 ATTGCAACGCGA
1 ATCGCAACGCGA
9229675 TTATAGTTTC
Statistics
Matches: 84, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
14 9 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 52 0.62
20 17 0.20
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:9229611 original size:39 final size:38
Alignment explanation
Indices: 9229529--9229638 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 38
9229519 TCTGGAACTT
* *
9229529 AAAATCGCAACGTGAAA-AATAACTATCGCAACGCGAAATG
1 AAAATCGCAACGAGAAATAA-AA--ATCGCAACGCGAAACG
* *
9229569 AAAATCGCAACGAGAGAATGAAAATCGTAACGCGAAACG
1 AAAATCGCAACGAGA-AATAAAAATCGCAACGCGAAACG
*
9229608 AAAATCGCAACGCGAAATAAAAATCGCAACG
1 AAAATCGCAACGAGAAATAAAAATCGCAACG
9229639 AGAGAATCGC
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
38 14 0.23
39 28 0.46
40 14 0.23
41 4 0.07
42 1 0.02
ACGTcount: A:0.49, C:0.20, G:0.19, T:0.12
Consensus pattern (38 bp):
AAAATCGCAACGAGAAATAAAAATCGCAACGCGAAACG
Found at i:9229718 original size:19 final size:20
Alignment explanation
Indices: 9229680--9229722 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
9229670 CGCGATTATA
9229680 GTTTCGCGTTGCGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
9229700 GTTTCGCGTTGCG-TTTTTG
1 GTTTCGCGTTGCGATTTTTG
9229719 GTTT
1 GTTT
9229723 TTCATTTCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.02, C:0.14, G:0.30, T:0.53
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTG
Found at i:9229984 original size:94 final size:93
Alignment explanation
Indices: 9229873--9230248 Score: 555
Period size: 94 Copynumber: 4.1 Consensus size: 93
9229863 ATGGATTGTA
* * * *
9229873 TTACTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACGGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
* *
9229938 TAACAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
* *
9229966 TTACTTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACATTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
9230031 TTAGCAGAATTGGTAGCAACCGAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
9230060 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
9230125 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
9230154 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACACTGTTAATA-AAT----AG
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAA-AGAATACACAG
* * *
9230214 TTTAGCAGTATTGGCAGCAACCTAATAAAT
64 TTTAGCAGAATTGGCAGCAACCGAACAAAT
9230244 TTACT
1 TTACT
9230249 AAGCAATCTA
Statistics
Matches: 266, Mismatches: 14, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
90 35 0.13
93 23 0.09
94 207 0.78
95 1 0.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:9231094 original size:21 final size:22
Alignment explanation
Indices: 9231053--9231095 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
9231043 AATAACAAAC
*
9231053 ATTAGTAATTGTTAAATAATTA
1 ATTAGTAATTGTTAAAAAATTA
9231075 ATTA-TAATT-TTGAAAAAATTA
1 ATTAGTAATTGTT-AAAAAATTA
9231096 TATAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 13 0.68
22 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTAGTAATTGTTAAAAAATTA
Found at i:9231971 original size:20 final size:20
Alignment explanation
Indices: 9231946--9232008 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
9231936 TTTTGGTTGA
9231946 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
9231966 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
9231985 AAATGACTATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
9232006 AAT
1 AAT
9232009 CGCAACAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 35 0.95
21 1 0.03
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:9232012 original size:14 final size:14
Alignment explanation
Indices: 9231993--9232081 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
9231983 GGAAATGACT
9231993 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
9232007 ATCGCAACAAGAAATGAAA
1 ATCGCAAC--G--A-GAGA
*
9232026 AGCGCAACGAGAGA
1 ATCGCAACGAGAGA
* *
9232040 ATCACAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
9232057 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
9232073 ATCGCAACG
1 ATCGCAACG
9232082 CGAAATGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
14 25 0.44
15 1 0.02
16 7 0.12
17 7 0.12
18 1 0.02
19 16 0.28
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:9232032 original size:33 final size:33
Alignment explanation
Indices: 9231944--9232098 Score: 175
Period size: 33 Copynumber: 4.5 Consensus size: 33
9231934 TCTTTTGGTT
9231944 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
** **
9231983 GGAAATGACTATCGCAACGAGAGAATCGCAACAA
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
9232017 GAAATGAAAAGCGCAACGAGAGAATCACAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
9232050 GAAATGACTATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
9232083 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
9232099 TGCGATTTTG
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
33 70 0.71
34 9 0.09
36 1 0.01
37 1 0.01
38 3 0.03
40 15 0.15
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:9232087 original size:66 final size:67
Alignment explanation
Indices: 9231972--9232098 Score: 211
Period size: 66 Copynumber: 1.9 Consensus size: 67
9231962 AGAGAATGAA
*
9231972 AATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAACAAGAAATGAAAAGCGCAACGAG
1 AATCACAACGCGGAAATGACTATCGCAACGAGAGAATCGCAACAAGAAATGAAAAGCGCAACGAG
9232037 AG
66 AG
** *
9232039 AATCACAACGC-GAAATGACTATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAA
1 AATCACAACGCGGAAATGACTATCGCAACGAGAGAATCGCAACAAGAAATGAAAAGCGCAA
9232099 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
66 46 0.82
67 10 0.18
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.10
Consensus pattern (67 bp):
AATCACAACGCGGAAATGACTATCGCAACGAGAGAATCGCAACAAGAAATGAAAAGCGCAACGAG
AG
Found at i:9232153 original size:19 final size:20
Alignment explanation
Indices: 9232129--9232183 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
9232119 GCGATTCTCT
9232129 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATTTTCATTTCCG
**
9232148 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCCG
9232168 CGTTGCGATTTTCATT
1 CGTTGCGATTTTCATT
9232184 CTCGAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCCG
Found at i:9232171 original size:20 final size:19
Alignment explanation
Indices: 9232129--9232176 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
9232119 GCGATTCTCT
**
9232129 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
9232148 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
9232168 CGTTGCGAT
1 CGTTGCGAT
9232177 TTTCATTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.12, C:0.23, G:0.25, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:9232772 original size:21 final size:20
Alignment explanation
Indices: 9232726--9232820 Score: 109
Period size: 20 Copynumber: 4.7 Consensus size: 20
9232716 CGATAGTCAG
* *
9232726 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACCT
*
9232746 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACCT
*
9232766 AATTCGCATTGCGATTTACGT
1 -ATTCGCATTGCGATTTACCT
* *
9232787 ATTCGCGTTGCGATTTTCCT
1 ATTCGCATTGCGATTTACCT
*
9232807 AATTCGCAATGCGA
1 -ATTCGCATTGCGA
9232821 ATTAGAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
20 34 0.54
21 29 0.46
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACCT
Found at i:9232779 original size:41 final size:41
Alignment explanation
Indices: 9232726--9232820 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
9232716 CGATAGTCAG
*
9232726 ATTCGCGTTGCGATTTACGTATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTA
*
9232767 ATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTA
*
9232808 ATTCGCAATGCGA
1 ATTCGCATTGCGA
9232821 ATTAGAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTA
Found at i:9236501 original size:24 final size:24
Alignment explanation
Indices: 9236463--9236525 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
9236453 ACGTTCATGA
* *
9236463 ATGTTTG-GTATGTTCGTATGTTT
1 ATGTTTGTTTATGTTCGTATGTTC
*
9236486 ATGTTTGTTTATGTTCGTTTGTTC
1 ATGTTTGTTTATGTTCGTATGTTC
*
9236510 AT-TTTCATTTATGTTC
1 ATGTTT-GTTTATGTTC
9236526 TTCATAATCC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.29
24 24 0.71
ACGTcount: A:0.13, C:0.08, G:0.19, T:0.60
Consensus pattern (24 bp):
ATGTTTGTTTATGTTCGTATGTTC
Found at i:9239142 original size:22 final size:22
Alignment explanation
Indices: 9239117--9239183 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
9239107 GGCCCTATGC
* * *
9239117 AAATTATTAAAAAGAGACCCTT
1 AAATTCTTATAAAGAGGCCCTT
*
9239139 AAATTCTTATAAAGAGGCTCTT
1 AAATTCTTATAAAGAGGCCCTT
9239161 AAATTCTTATAAAGAGGCCCTT
1 AAATTCTTATAAAGAGGCCCTT
9239183 A
1 A
9239184 GTAAAAACTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (22 bp):
AAATTCTTATAAAGAGGCCCTT
Done.