Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007733.1 Hibiscus syriacus cultivar Beakdansim tig00109987_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: 1979160
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:839127 original size:2 final size:2
Alignment explanation
Indices: 839120--839152 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
839110 TTGTTTTTCG
*
839120 AT AT AT AT AT AT AG 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 A
839153 AAGTCTTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:845952 original size:37 final size:38
Alignment explanation
Indices: 845902--846092 Score: 164
Period size: 37 Copynumber: 5.2 Consensus size: 38
845892 GTTATCTAAG
* * *
845902 AAACATCGGTACG-TCCCAGAATTCATAACATAGTTAA
1 AAACATCGATACGTTCCCAGCATGCATAACATAGTTAA
* *
845939 AAACATCGATACGTTCCCA-CATGCATAACATACTTCA
1 AAACATCGATACGTTCCCAGCATGCATAACATAGTTAA
** * *
845976 AAAGGTCGATATGTTCCC-GCATGCATAACAT-GCCTAA
1 AAACATCGATACGTTCCCAGCATGCATAACATAG-TTAA
* * *
846013 AAACATCGATACTTTACC-GCATGCATAACAT-GCCTAA
1 AAACATCGATACGTTCCCAGCATGCATAACATAG-TTAA
* * *
846050 AAACATCGATAC-TTGACC-GCATGCCTAACATACTTAA
1 AAACATCGATACGTT-CCCAGCATGCATAACATAGTTAA
846087 AAACAT
1 AAACAT
846093 TAAAATGTTC
Statistics
Matches: 130, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
36 2 0.02
37 123 0.95
38 5 0.04
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (38 bp):
AAACATCGATACGTTCCCAGCATGCATAACATAGTTAA
Found at i:846059 original size:74 final size:74
Alignment explanation
Indices: 845925--846092 Score: 185
Period size: 74 Copynumber: 2.3 Consensus size: 74
845915 TCCCAGAATT
** * * * **
845925 CATAACATAGTTAAAAACATCGATACGTTCCCACATGCATAACATACTTCAAAAGGTCGATA-TG
1 CATAACATACCTAAAAACATCGATACGTTACCACATGCATAACATACCTAAAAACATCGATACT-
**
845989 TTCCCGCATG
65 TGACCGCATG
* * * *
845999 CATAACATGCCTAAAAACATCGATACTTTACCGCATGCATAACATGCCTAAAAACATCGATACTT
1 CATAACATACCTAAAAACATCGATACGTTACCACATGCATAACATACCTAAAAACATCGATACTT
846064 GACCGCATG
66 GACCGCATG
* *
846073 CCTAACATACTTAAAAACAT
1 CATAACATACCTAAAAACAT
846093 TAAAATGTTC
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
74 76 0.99
75 1 0.01
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (74 bp):
CATAACATACCTAAAAACATCGATACGTTACCACATGCATAACATACCTAAAAACATCGATACTT
GACCGCATG
Found at i:846162 original size:37 final size:38
Alignment explanation
Indices: 846112--846262 Score: 157
Period size: 37 Copynumber: 4.0 Consensus size: 38
846102 CAACAGCAGT
* *
846112 ACATCGATACGTT-CCAGAATGCATAACATAGTTAAAA
1 ACATCGATACGTTCCCAGCATGCATAACATACTTAAAA
*
846149 ACATCGATACGTTCCCA-CATGCACAACATACTTCAAAA
1 ACATCGATACGTTCCCAGCATGCATAACATACTT-AAAA
* * *
846187 A-GTCGATATGTTCCCGCATGCATGCATAACATACCTAAAA
1 ACATCGATACGTT-CC-CA-GCATGCATAACATACTTAAAA
* * *
846227 ACATCGATACTTTACC-GCATGCATAACATACATAAA
1 ACATCGATACGTTCCCAGCATGCATAACATACTTAAA
846263 CAGTTGTTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
37 54 0.57
38 10 0.11
39 3 0.03
40 6 0.06
41 22 0.23
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.24
Consensus pattern (38 bp):
ACATCGATACGTTCCCAGCATGCATAACATACTTAAAA
Found at i:846234 original size:41 final size:40
Alignment explanation
Indices: 846130--846250 Score: 126
Period size: 41 Copynumber: 3.0 Consensus size: 40
846120 ACGTTCCAGA
* *
846130 ATGCATAACATAGTTAAAAACATCGATACGTTCC-CA--C
1 ATGCATAACATACTTAAAAACATCGATATGTTCCGCATGC
* *
846167 ATGCACAACATACTTCAAAAA-GTCGATATGTTCCCGCATGC
1 ATGCATAACATACTT-AAAAACATCGATATGTT-CCGCATGC
*
846208 ATGCATAACATACCTAAAAACATCGATACT-TTACCGCATGC
1 ATGCATAACATACTTAAAAACATCGATA-TGTT-CCGCATGC
846249 AT
1 AT
846251 AACATACATA
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
37 22 0.32
38 7 0.10
39 2 0.03
40 5 0.07
41 32 0.46
42 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.25
Consensus pattern (40 bp):
ATGCATAACATACTTAAAAACATCGATATGTTCCGCATGC
Found at i:846996 original size:31 final size:30
Alignment explanation
Indices: 846961--847018 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
846951 ATGATTTTGA
846961 CAAAATTAA-AAGTTTAGATATTGAAATGGAT
1 CAAAATTAATAA-TTTAGATATT-AAATGGAT
*
846992 CAAAATTAATAATTTAGGTATTAAATG
1 CAAAATTAATAATTTAGATATTAAATG
847019 TAAAATTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 5 0.20
31 18 0.72
32 2 0.08
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.34
Consensus pattern (30 bp):
CAAAATTAATAATTTAGATATTAAATGGAT
Found at i:852321 original size:38 final size:38
Alignment explanation
Indices: 852247--852325 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
852237 AATATTTTAG
* * * * *
852247 TTTCGGTTTAACTTAAAATATTATAATATTCTTAATAT
1 TTTCGGTTAAACTTAAAATATTAAAAGAATCATAATAT
852285 TTTCGGTTAAACTTAAAATATTACAAAGAAT-ATAATAT
1 TTTCGGTTAAACTTAAAATATTA-AAAGAATCATAATAT
852323 TTT
1 TTT
852326 TAATTGTCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 31 0.89
39 4 0.11
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (38 bp):
TTTCGGTTAAACTTAAAATATTAAAAGAATCATAATAT
Found at i:853415 original size:19 final size:19
Alignment explanation
Indices: 853391--853429 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
853381 TTCCTCGCTT
853391 AGATTTTGCACTTTGGATC
1 AGATTTTGCACTTTGGATC
*
853410 AGATTTTGCTCTTTGGATC
1 AGATTTTGCACTTTGGATC
853429 A
1 A
853430 AAGAAAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (19 bp):
AGATTTTGCACTTTGGATC
Found at i:854223 original size:24 final size:24
Alignment explanation
Indices: 854196--854278 Score: 58
Period size: 24 Copynumber: 3.2 Consensus size: 24
854186 TATTATATTA
854196 ATTTAATCGATTAATAAAAAATAT
1 ATTTAATCGATTAATAAAAAATAT
* ** *
854220 ATTTATATTCTATTATATGATATTAATTT
1 ATTTA-A-TCGATTA-AT-A-AAAAATAT
* *
854249 AATTTAATTGATTAATAAGAAATAT
1 -ATTTAATCGATTAATAAAAAATAT
854274 ATTTA
1 ATTTA
854279 TATTCTTTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
24 10 0.23
25 6 0.14
26 7 0.16
27 4 0.09
28 6 0.14
29 6 0.14
30 5 0.11
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (24 bp):
ATTTAATCGATTAATAAAAAATAT
Found at i:854278 original size:29 final size:29
Alignment explanation
Indices: 854189--854278 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 29
854179 AATATTATAT
* *
854189 TATA-TTAATTTAATCGATTAATAAAAAA
1 TATATTTAATTTAATTGATTAATAAGAAA
*
854217 TATATTTATATTCT-ATT-A-T-AT--GATA
1 TATATTTA-ATT-TAATTGATTAATAAGAAA
854242 T-TAATTTAATTTAATTGATTAATAAGAAA
1 TAT-ATTTAATTTAATTGATTAATAAGAAA
854271 TATATTTA
1 TATATTTA
854279 TATTCTTTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 21
0.65 0.06 0.29
Matches are distributed among these distances:
23 1 0.02
24 7 0.15
25 9 0.19
26 1 0.02
27 4 0.09
28 5 0.11
29 13 0.28
30 6 0.13
31 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (29 bp):
TATATTTAATTTAATTGATTAATAAGAAA
Found at i:854304 original size:54 final size:55
Alignment explanation
Indices: 854180--854284 Score: 169
Period size: 54 Copynumber: 1.9 Consensus size: 55
854170 TTAAAAAAAA
*
854180 ATATTATATTATA-TTAATTTAATCGATTAATAAAAAATATATTTATATTCTATT
1 ATATGATATTATATTTAATTTAATCGATTAATAAAAAATATATTTATATTCTATT
* *
854234 ATATGATATTA-ATTTAATTTAATTGATTAATAAGAAATATATTTATATTCT
1 ATATGATATTATATTTAATTTAATCGATTAATAAAAAATATATTTATATTCT
854285 TTTGTGATTC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
53 1 0.02
54 46 0.98
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.50
Consensus pattern (55 bp):
ATATGATATTATATTTAATTTAATCGATTAATAAAAAATATATTTATATTCTATT
Found at i:854557 original size:2 final size:2
Alignment explanation
Indices: 854550--854574 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
854540 GGAAATTACC
854550 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 T
854575 TAGGGTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:856949 original size:29 final size:29
Alignment explanation
Indices: 856908--856981 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 29
856898 TGAAAATAAT
856908 ATATATGGACTAAAGTCAATTAACATAGA
1 ATATATGGACTAAAGTCAATTAACATAGA
856937 ATATATGGACTAAAGTCAATTAACATAGA
1 ATATATGGACTAAAGTCAATTAACATAGA
* * *
856966 ATTTAGGGACCAAAGT
1 ATATATGGACTAAAGT
856982 TAAAACTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (29 bp):
ATATATGGACTAAAGTCAATTAACATAGA
Found at i:857569 original size:2 final size:2
Alignment explanation
Indices: 857562--857631 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
857552 TGACCTTTTA
857562 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
857604 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
857632 GTCTTATAAG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:858014 original size:24 final size:22
Alignment explanation
Indices: 857992--858036 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
857982 TAAACATATG
857992 TTTAAAATATTATATTTAAATA
1 TTTAAAATATTATATTTAAATA
858014 TTTAAAA-AGTTAATATTTAAATA
1 TTTAAAATA-TT-ATATTTAAATA
858037 ATATGAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 1 0.05
22 9 0.43
23 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTAAAATATTATATTTAAATA
Found at i:858259 original size:59 final size:59
Alignment explanation
Indices: 858179--858320 Score: 162
Period size: 59 Copynumber: 2.4 Consensus size: 59
858169 ATGCCCCTCA
** * *
858179 TTTTAAACATTTCAATTTTATCCTGAAACTATGACTATCATT-TTAATTATTCCTC-AAAC
1 TTTTAAACATTTCAATTTTATCCCCAAACTATGACT-TCATTCTAAATTAGTCC-CAAAAC
* * * *
858238 TTTTGAACATTTTATTTTTATCCCCAAACTATGTCTTCATTCTAAATTAGTCCCAAAAC
1 TTTTAAACATTTCAATTTTATCCCCAAACTATGACTTCATTCTAAATTAGTCCCAAAAC
*
858297 TTTTTAAATATTTCAATTTTATCC
1 -TTTTAAACATTTCAATTTTATCC
858321 TAAATTTTAT
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
58 6 0.09
59 43 0.63
60 19 0.28
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.46
Consensus pattern (59 bp):
TTTTAAACATTTCAATTTTATCCCCAAACTATGACTTCATTCTAAATTAGTCCCAAAAC
Found at i:859166 original size:21 final size:20
Alignment explanation
Indices: 859129--859191 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
859119 CAGTTAGATA
*
859129 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
*
859149 GGGGGAATCTGTTCCCCCTGG
1 GGGGGAATCTGTACCCCCT-G
859170 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
859190 GG
1 GG
859192 CAATCTGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
20 20 0.51
21 19 0.49
ACGTcount: A:0.13, C:0.29, G:0.40, T:0.19
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:861027 original size:55 final size:54
Alignment explanation
Indices: 860962--861073 Score: 172
Period size: 55 Copynumber: 2.1 Consensus size: 54
860952 AGACTCGTGT
* * *
860962 TCTAAATTGATTCTC-AACTCTTTTGAACTTCCCAAATTAATCCATAAACCATGAA
1 TCTAAATTGATTCCCAAAC-CTTTTGAACATCCCAAATTAATCCAT-AACAATGAA
861017 TCTAAATTGATTCCCAAACCTTTTGAACATCCCAAATTAATCCATAACAATGAA
1 TCTAAATTGATTCCCAAACCTTTTGAACATCCCAAATTAATCCATAACAATGAA
861071 TCT
1 TCT
861074 CATTCTAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
54 11 0.21
55 39 0.74
56 3 0.06
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (54 bp):
TCTAAATTGATTCCCAAACCTTTTGAACATCCCAAATTAATCCATAACAATGAA
Found at i:886692 original size:105 final size:105
Alignment explanation
Indices: 886477--887146 Score: 1083
Period size: 105 Copynumber: 6.4 Consensus size: 105
886467 ATATTGTTCC
* * * * * * ** *
886477 GAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATCGTCGGTTGACAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAA
* * ** * **** *
886542 TCAACGACCCCTTCGTCGTAAAGTTGAACTTATACTGTCTT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
886583 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
886648 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
886688 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AATTGAGAAACGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
886752 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
886792 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAACGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
886857 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
886897 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
886962 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
887002 GAGTCCAATATCCTTCGGTT-TGAAGTTGAAATTTGCTCTGAAATTGAGAGATTTTTGTGGACAA
1 GAGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
887066 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
887107 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
887147 GGTAAAACCT
Statistics
Matches: 535, Mismatches: 26, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
104 106 0.20
105 380 0.71
106 49 0.09
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:898469 original size:32 final size:32
Alignment explanation
Indices: 898424--898501 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
898414 TATAAAAAGT
*
898424 AAAAT-AATATAAAATAAAGGGGA-AGAAA-AA
1 AAAATAAAAATAAAA-AAAGGGGAAAGAAATAA
* *
898454 AAAATAAAAAGT-AAAAAGGGGGAAATAAATAA
1 AAAATAAAAA-TAAAAAAAGGGGAAAGAAATAA
898486 AAAATAAAAATAAAAA
1 AAAATAAAAATAAAAA
898502 TGGAATAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
30 12 0.30
31 11 0.28
32 17 0.43
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.13
Consensus pattern (32 bp):
AAAATAAAAATAAAAAAAGGGGAAAGAAATAA
Found at i:898512 original size:32 final size:32
Alignment explanation
Indices: 898452--898513 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
898442 GGGGAAGAAA
**
898452 AAAAAATAAAAAGTAAAAAGGGGGAAATAAAT
1 AAAAAATAAAAAGTAAAAAGGAAGAAATAAAT
*
898484 AAAAAATAAAAA-TAAAAATGGAATAAATAA
1 AAAAAATAAAAAGTAAAAA-GGAAGAAATAA
898514 TTAATGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.15
Consensus pattern (32 bp):
AAAAAATAAAAAGTAAAAAGGAAGAAATAAAT
Found at i:898595 original size:2 final size:2
Alignment explanation
Indices: 898588--898613 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
898578 GTAAAATGAG
898588 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
898614 CATACATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:924532 original size:20 final size:20
Alignment explanation
Indices: 924507--924599 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
924497 TTTTCCCAAT
924507 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
924527 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
924547 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
924568 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
924589 TCGCAATGCGA
1 TCGCAATGCGA
924600 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:924549 original size:41 final size:41
Alignment explanation
Indices: 924504--924599 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
924494 CGATTTTCCC
924504 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
924545 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
924586 AAATCGCAATGCGA
1 AATTCGCAATGCGA
924600 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:924553 original size:21 final size:20
Alignment explanation
Indices: 924507--924599 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
924497 TTTTCCCAAT
*
924507 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
924527 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
924547 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
924568 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
924589 TCGCAATGCGA
1 TCGCAATGCGA
924600 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:924612 original size:41 final size:41
Alignment explanation
Indices: 924526--924660 Score: 141
Period size: 41 Copynumber: 3.3 Consensus size: 41
924516 GAATAAGTAA
* * *
924526 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
924567 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** *
924608 ATCGCAATGCGATAAT-AAAAAATCGCAACGCGATACTGACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
924649 TTCGCAACGCGA
1 ATCGCAACGCGA
924661 TAATACATAA
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:924613 original size:20 final size:20
Alignment explanation
Indices: 924588--924682 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
924578 AATTGGGAAA
*
924588 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATAATGACT
* **
924608 ATCGCAATGCGATAATAAAAA
1 ATCGCAATGCGATAAT-GACT
* *
924629 ATCGCAACGCGATACTGACT
1 ATCGCAATGCGATAATGACT
* *
924649 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATAATGAC-T
924669 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
924683 TTTCAAAGCG
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
19 2 0.03
20 31 0.53
21 26 0.44
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAATGCGATAATGACT
Found at i:924634 original size:21 final size:20
Alignment explanation
Indices: 924507--924682 Score: 83
Period size: 20 Copynumber: 8.6 Consensus size: 20
924497 TTTTCCCAAT
*
924507 TCGCAATGCGAATAA-GTAAA
1 TCGCAATGCG-ATAATGAAAA
* * *
924527 TCGCAACGCGA-ATTGGGAAAT
1 TCGCAATGCGATAAT--GAAAA
*
924548 TCGCAATGCGAATAA-GTAAA
1 TCGCAATGCG-ATAATGAAAA
* *
924568 TCGCAACGCGA-ATTGGGAAAA
1 TCGCAATGCGATAAT--GAAAA
* **
924589 TCGCAATGCGATACTGACTA
1 TCGCAATGCGATAATGAAAA
*
924609 TCGCAATGCGATAATAAAAAA
1 TCGCAATGCGATAAT-GAAAA
* * ***
924630 TCGCAACGCGATACTGACTT
1 TCGCAATGCGATAATGAAAA
*
924650 TCGCAACGCGATAAT-ACATAA
1 TCGCAATGCGATAATGA-A-AA
924671 TCGCAATGCGAT
1 TCGCAATGCGAT
924683 TTTCAAAGCG
Statistics
Matches: 114, Mismatches: 30, Indels: 23
0.68 0.18 0.14
Matches are distributed among these distances:
18 2 0.02
19 3 0.03
20 53 0.46
21 52 0.46
22 3 0.03
23 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGATAATGAAAA
Found at i:924661 original size:41 final size:41
Alignment explanation
Indices: 924585--924682 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
924575 GCGAATTGGG
*
924585 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAA
* * *
924626 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAA
*
924667 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
924683 TTTCAAAGCG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.21
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAA
Found at i:924877 original size:22 final size:22
Alignment explanation
Indices: 924849--924891 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
924839 CACTCTCTCA
924849 CCCATCTCCGACGAAATCCGTT
1 CCCATCTCCGACGAAATCCGTT
*
924871 CCCATCTCCGGCGAAATCCGT
1 CCCATCTCCGACGAAATCCGT
924892 CTATCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.42, G:0.16, T:0.21
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTT
Found at i:926526 original size:18 final size:18
Alignment explanation
Indices: 926505--926549 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
926495 TCCACTTCGG
*
926505 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
926523 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
926541 GAGCCATCA
1 GAGCCATCA
926550 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:927076 original size:19 final size:20
Alignment explanation
Indices: 927033--927088 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
927023 TGCAACACGA
927033 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
927053 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
927072 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
927089 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:927096 original size:14 final size:14
Alignment explanation
Indices: 927077--927134 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
927067 ATGCGAAATG
927077 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
927091 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
927107 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
927123 AAAATCGCAACG
1 AAAATCGCAACG
927135 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:927119 original size:32 final size:33
Alignment explanation
Indices: 927061--927151 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
927051 GGAAATGGCT
*
927061 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
927094 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
927126 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
927152 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:927145 original size:19 final size:19
Alignment explanation
Indices: 927041--927156 Score: 83
Period size: 19 Copynumber: 6.6 Consensus size: 19
927031 GAAAATGACT
***
927041 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGAAA
*
927061 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
927080 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
927094 ATCGCAACGCGAAATG-AA
1 ATCGCAACGCGAAATGAAA
*
927112 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
927126 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
927145 ATCGCAATGCGA
1 ATCGCAACGCGA
927157 TTTGTGTTTC
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
14 20 0.26
15 1 0.01
16 6 0.08
17 2 0.03
18 11 0.14
19 27 0.36
20 9 0.12
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:927187 original size:14 final size:14
Alignment explanation
Indices: 927168--927225 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
927158 TTGTGTTTCG
927168 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
927182 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
927198 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
*
927214 CGTTGCTATTTT
1 CGTTGCGATTTT
927226 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 22 0.59
16 4 0.11
18 11 0.30
ACGTcount: A:0.09, C:0.17, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:927202 original size:32 final size:33
Alignment explanation
Indices: 927163--927241 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
927153 GCGATTTGTG
927163 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
927195 TTTCGCGTTGCGATTTTGTCGTTGCTATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
927228 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
927242 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:927260 original size:20 final size:19
Alignment explanation
Indices: 927226--927280 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
927216 TTGCTATTTT
*
927226 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
927245 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
927265 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
927281 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:929157 original size:14 final size:14
Alignment explanation
Indices: 929138--929173 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
929128 ATTGTTTAAT
929138 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
929152 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
929166 TGATTTGT
1 TGATTTGT
929174 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:929335 original size:19 final size:19
Alignment explanation
Indices: 929290--929356 Score: 83
Period size: 18 Copynumber: 3.8 Consensus size: 19
929280 ATCGCAACGA
*
929290 GAAAATCGTAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
929309 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
929327 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
929341 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
929357 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
14 11 0.26
15 1 0.02
16 2 0.05
17 2 0.05
18 17 0.40
19 10 0.23
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:929432 original size:20 final size:20
Alignment explanation
Indices: 929382--929432 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
929372 GCGATATTCT
* *
929382 CGTTGCGATAACCATTTTCG
1 CGTTGCGATAGCCATTTTCA
*
929402 CGTTGTGATAGCCATTTTCA
1 CGTTGCGATAGCCATTTTCA
929422 CGTTGCGATAG
1 CGTTGCGATAG
929433 TCAAATGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCA
Found at i:929814 original size:14 final size:14
Alignment explanation
Indices: 929795--929830 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
929785 ATTGTTTAAT
929795 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
929809 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
929823 TGATTTGT
1 TGATTTGT
929831 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:930329 original size:581 final size:581
Alignment explanation
Indices: 929395--930781 Score: 2650
Period size: 581 Copynumber: 2.4 Consensus size: 581
929385 TGCGATAACC
* * * *
929395 ATTTTCGCGTTGTGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCGTTGCGATAGTCAAATGAA----T--TAAGTGATGAC
929460 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
60 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
929525 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATACTCCTTTTGGTTTGAAAAT
125 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATACTCCTTTTGGTTTGAAAAT
929590 GTTTGGTTAAGTA-CTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTT
190 GTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTT
929654 GTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGG
255 GTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGG
929719 GGTCACAAAGTTGTTGATTCTTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTT
320 GGTCACAAAGTTGTTGATTCTTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTT
929784 GATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATA
385 GATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATA
929849 ATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACA
450 ATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACA
929914 GACTATCGCAACGCGAAATGGTTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTG
515 GACTATCGCAACGCGAAATGGTTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTG
929979 CG
580 CG
929981 ATTTTCTCGTTGCGATAACCATTTTCGCGTTGCGATAGTCAAATGAATTAAGTGATGACAACTGA
1 ATTTTCTCGTTGCGATAACCATTTTCGCGTTGCGATAGTCAAATGAATTAAGTGATGACAACTGA
930046 ACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGC
66 ACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGC
930111 ACACATAAAATACACATAATGCAAGTTTTGTTAACATATACTCCTTTTGGTTTGAAAATGTTTGG
131 ACACATAAAATACACATAATGCAAGTTTTGTTAACATATACTCCTTTTGGTTTGAAAATGTTTGG
930176 TTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGA
196 TTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGA
930241 GCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCAC
261 GCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCAC
930306 AAAGTTGTTGATTCTTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGT
326 AAAGTTGTTGATTCTTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGT
930371 TTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGT
391 TTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGT
930436 GTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTAT
456 GTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTAT
930501 CGCAACGCGAAATGGTTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCG
521 CGCAACGCGAAATGGTTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCG
930562 ATTTTCTCGTTGCGATAACCATTTTCGCGTTGCGATAGTCAAATGAATTAAGTGATGACAACTGA
1 ATTTTCTCGTTGCGATAACCATTTTCGCGTTGCGATAGTCAAATGAATTAAGTGATGACAACTGA
930627 ACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGC
66 ACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGC
*
930692 ACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGTTTTGAAAATGTTT
131 ACACATAAAATACACATAATGCAAGTTTTGTTAAC--ATATACTCCTTTTGGTTTGAAAATGTTT
930757 GGTTAAGTACCTAGAATTCAATAAT
194 GGTTAAGTACCTAGAATTCAATAAT
930782 AATTGTTAAA
Statistics
Matches: 793, Mismatches: 5, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
580 154 0.19
581 543 0.68
582 1 0.00
583 52 0.07
586 43 0.05
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (581 bp):
ATTTTCTCGTTGCGATAACCATTTTCGCGTTGCGATAGTCAAATGAATTAAGTGATGACAACTGA
ACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGC
ACACATAAAATACACATAATGCAAGTTTTGTTAACATATACTCCTTTTGGTTTGAAAATGTTTGG
TTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGA
GCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCAC
AAAGTTGTTGATTCTTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGT
TTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGT
GTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTAT
CGCAACGCGAAATGGTTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCG
Found at i:930395 original size:14 final size:14
Alignment explanation
Indices: 930376--930411 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
930366 ATTGTTTAAT
930376 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
930390 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
930404 TGATTTGT
1 TGATTTGT
930412 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:931704 original size:24 final size:24
Alignment explanation
Indices: 931648--931706 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
931638 AGTCAGTATT
* *
931648 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
931672 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
931696 CGAATTTTGAT
1 CGAAATTTGAT
931707 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:934215 original size:19 final size:19
Alignment explanation
Indices: 934193--934290 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
934183 GGAAATTACT
934193 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
934212 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
934226 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
934245 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
934259 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
934278 ATCGCAACGCGAA
1 ATCGCAATGCGAA
934291 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:934235 original size:33 final size:33
Alignment explanation
Indices: 934193--934286 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
934183 GGAAATTACT
934193 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
934226 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
934259 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
934287 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:934308 original size:19 final size:20
Alignment explanation
Indices: 934286--934328 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
934276 AAATCGCAAC
934286 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
934305 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
934325 GCGA
1 GCGA
934329 TTCTCTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:934488 original size:14 final size:14
Alignment explanation
Indices: 934469--934505 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
934459 CATCAATTAA
934469 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
934483 ACAAATCACCTTTT
1 ACAAATCAACTTTT
934497 ACAAATCAA
1 ACAAATCAA
934506 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:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:935946 original size:42 final size:41
Alignment explanation
Indices: 935891--935982 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 41
935881 CCTCTTCAAC
* * * * *
935891 GATGAAAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAG
1 GATGATAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAG
* *
935932 GAATGATAGGGGCCTCTTCAACGATAGGAGTGGACTCTTGAG
1 G-ATGATAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAG
935974 GATGATAGG
1 GATGATAGG
935983 CGAGTCGGGC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 9 0.21
42 34 0.79
ACGTcount: A:0.25, C:0.15, G:0.38, T:0.22
Consensus pattern (41 bp):
GATGATAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAG
Found at i:938012 original size:20 final size:19
Alignment explanation
Indices: 937981--938160 Score: 110
Period size: 19 Copynumber: 9.8 Consensus size: 19
937971 TCTTTTGGTT
937981 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
938000 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
938021 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
938040 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
938054 GAAATGACTATCG---TGA
1 GAAATGAAAATCGCAACGA
** * *
938070 CCAA--ACAATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
938087 GAAATGAAAATCGCAACCTC
1 GAAATGAAAATCGCAA-CGA
* *
938107 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
938126 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
938145 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
938161 TGCGATTTTG
Statistics
Matches: 126, Mismatches: 22, Indels: 26
0.72 0.13 0.15
Matches are distributed among these distances:
14 16 0.13
16 5 0.04
17 5 0.04
19 52 0.41
20 46 0.37
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:938100 original size:19 final size:19
Alignment explanation
Indices: 938076--938165 Score: 144
Period size: 19 Copynumber: 4.7 Consensus size: 19
938066 GTGACCAAAC
938076 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
938095 AATCGCAACCTCGAAATTAA
1 AATCGCAA-CGCGAAATGAA
938115 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
938134 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
938153 AATCGCAATGCGA
1 AATCGCAACGCGA
938166 TTTTGGTTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 48 0.74
20 17 0.26
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:938130 original size:39 final size:38
Alignment explanation
Indices: 937981--938165 Score: 156
Period size: 33 Copynumber: 5.1 Consensus size: 38
937971 TCTTTTGGTT
* *
937981 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** *
938020 GGAAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
** ** *
938054 GAAATGACTATCGTGAC-C--AA--ACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
* *
938087 GAAATGAAAATCGCAACCTCGAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCGCAACGC
*
938126 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
938164 GA
1 GA
938166 TTTTGGTTTC
Statistics
Matches: 123, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
33 38 0.31
34 17 0.14
35 2 0.02
37 2 0.02
38 22 0.18
39 28 0.23
40 14 0.11
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.14
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:938194 original size:19 final size:19
Alignment explanation
Indices: 938161--938205 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
938151 AAAATCGCAA
*
938161 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
938180 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
938199 TGCGATT
1 TGCGATT
938206 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:938843 original size:20 final size:20
Alignment explanation
Indices: 938758--938851 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
938748 CGCTAAGTAA
*
938758 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
938778 ATCGTGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
938798 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
938819 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
938839 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
938852 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:938870 original size:41 final size:41
Alignment explanation
Indices: 938840--938935 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
938830 ATAGTCAGTA
* * *
938840 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
938881 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
938922 TCGCATTGCGAATT
1 TCGCATTGCGAATT
938936 GTGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:938884 original size:20 final size:20
Alignment explanation
Indices: 938840--938932 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
938830 ATAGTCAGTA
* **
938840 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
938861 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
938881 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
938902 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
938922 TCGCATTGCGA
1 TCGCATTGCGA
938933 ATTGTGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:945870 original size:29 final size:29
Alignment explanation
Indices: 945795--945902 Score: 119
Period size: 30 Copynumber: 3.6 Consensus size: 29
945785 CAATAAAAAT
945795 TTTAAAAGTTCAAGTTTG-CTCCTTGAAAC
1 TTTAAAAGTTCAAGTTTGTC-CCTTGAAAC
* *
945824 TTTAAAAAGTTCCAGTTTGTCCCTTGAAAG
1 TTT-AAAAGTTCAAGTTTGTCCCTTGAAAC
* *
945854 TTTAAAAGTTCAAGTTTGTCCATTGATATATTT
1 TTTAAAAGTTCAAGTTTGTCCCTTGA-A-A--C
945887 TTTAAAAGTTCAAGTT
1 TTTAAAAGTTCAAGTT
945903 CACTTCTGAA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
29 24 0.35
30 26 0.38
31 2 0.03
33 16 0.24
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (29 bp):
TTTAAAAGTTCAAGTTTGTCCCTTGAAAC
Found at i:948894 original size:20 final size:20
Alignment explanation
Indices: 948843--948896 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
948833 TTAACTCTAC
* * *
948843 TCTTATAGCACGTTTCTTTG
1 TCTTATGGCATGTTTCCTTG
*
948863 TCTTATGACATGTTTCCTTG
1 TCTTATGGCATGTTTCCTTG
948883 TCTTATGGCATGTT
1 TCTTATGGCATGTT
948897 GTTCGCCTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.19, G:0.17, T:0.50
Consensus pattern (20 bp):
TCTTATGGCATGTTTCCTTG
Found at i:949396 original size:31 final size:32
Alignment explanation
Indices: 949361--949474 Score: 106
Period size: 31 Copynumber: 3.5 Consensus size: 32
949351 TTTAATTACC
*
949361 TAAAGTAT-TTTTTTTTATCAAAGTAAGTATT
1 TAAAGTATATTTTTTTTATCAAAATAAGTATT
* * * *
949392 TAAAGT-TATATTTTTAATCAAAATAGGTACT
1 TAAAGTATATTTTTTTTATCAAAATAAGTATT
* * *
949423 TAAAATATTATTTTTTTTATCAAAATAAATATC
1 TAAAGTA-TATTTTTTTTATCAAAATAAGTATT
*
949456 TAAATTATTATATTTTTTT
1 TAAAGTA-TAT-TTTTTTT
949475 CTTCCAAGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
30 1 0.02
31 29 0.44
33 29 0.44
34 7 0.11
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.51
Consensus pattern (32 bp):
TAAAGTATATTTTTTTTATCAAAATAAGTATT
Found at i:949406 original size:33 final size:33
Alignment explanation
Indices: 949369--949474 Score: 110
Period size: 33 Copynumber: 3.2 Consensus size: 33
949359 CCTAAAGTAT
*
949369 TTTTTTTTATCAAAGTAAGTATTTAAAGTTA-TA
1 TTTTTTTTATCAAAATAAGTATTTAAA-TTATTA
* * * *
949402 --TTTTTAATCAAAATAGGTACTTAAAATATTA
1 TTTTTTTTATCAAAATAAGTATTTAAATTATTA
* *
949433 TTTTTTTTATCAAAATAAATATCTAAATTATTA
1 TTTTTTTTATCAAAATAAGTATTTAAATTATTA
949466 TATTTTTTT
1 T-TTTTTTT
949475 CTTCCAAGTA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
30 2 0.03
31 23 0.40
33 26 0.45
34 7 0.12
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (33 bp):
TTTTTTTTATCAAAATAAGTATTTAAATTATTA
Found at i:949593 original size:31 final size:29
Alignment explanation
Indices: 949535--949601 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 29
949525 GAACTTAATG
*
949535 AAAAAAAATAATTTAAACATTATTTTGAC
1 AAAAAAAATAATTTAAACATTACTTTGAC
**
949564 AAAAAAAATAACTTTAATTATTAACTTTGAC
1 AAAAAAAATAA-TTTAAACATT-ACTTTGAC
*
949595 TAAAAAA
1 AAAAAAA
949602 TTCATTCAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 11 0.34
30 8 0.25
31 13 0.41
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAAAAAATAATTTAAACATTACTTTGAC
Found at i:950857 original size:36 final size:36
Alignment explanation
Indices: 950810--950880 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
950800 TTGTAATCCG
950810 CCATTGGATCTTGGTTGTTGAGGTTCCTTTTGATCA
1 CCATTGGATCTTGGTTGTTGAGGTTCCTTTTGATCA
950846 CCATTGGATCTTGGTTGTTGAGGTTCCTTTTGATC
1 CCATTGGATCTTGGTTGTTGAGGTTCCTTTTGATC
950881 TTGACATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (36 bp):
CCATTGGATCTTGGTTGTTGAGGTTCCTTTTGATCA
Found at i:952110 original size:22 final size:24
Alignment explanation
Indices: 952085--952130 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
952075 TCACCACAGC
952085 TCGTATA-AA-TTGCACCGAAGTG
1 TCGTATAGAATTTGCACCGAAGTG
* *
952107 TCGTGTAGAATTTGTACCGAAGTG
1 TCGTATAGAATTTGCACCGAAGTG
952131 ACACATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 2 0.10
24 12 0.60
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (24 bp):
TCGTATAGAATTTGCACCGAAGTG
Found at i:952158 original size:23 final size:23
Alignment explanation
Indices: 952123--952178 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
952113 AGAATTTGTA
952123 CCGAAGTGA-CACATAGA-AATATC
1 CCGAAG-GACCACATA-ATAATATC
* *
952146 CCGAAGGACCACATAATATTGTC
1 CCGAAGGACCACATAATAATATC
952169 CCGAAGGACC
1 CCGAAGGACC
952179 GCGTTGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 3 0.10
23 26 0.90
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.16
Consensus pattern (23 bp):
CCGAAGGACCACATAATAATATC
Found at i:952188 original size:46 final size:46
Alignment explanation
Indices: 952138--952228 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
952128 GTGACACATA
* *
952138 GAAATATCCCGAAGGACCACATA-ATATTGTCCCGAAGGACCGCGTT
1 GAAATATCCAGAAGGACCACATAGA-ATTGTCCCAAAGGACCGCGTT
* * * *
952184 GAAATGTCCAGAAGGACTACGTAGAATTGTCCCAAATGACCGCGT
1 GAAATATCCAGAAGGACCACATAGAATTGTCCCAAAGGACCGCGT
952229 AGAACTCTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 37 0.97
47 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (46 bp):
GAAATATCCAGAAGGACCACATAGAATTGTCCCAAAGGACCGCGTT
Found at i:952191 original size:23 final size:23
Alignment explanation
Indices: 952136--952232 Score: 79
Period size: 23 Copynumber: 4.2 Consensus size: 23
952126 AAGTGACACA
* * *
952136 TAGAAATATCCCGAAGGACCACA
1 TAGAAATGTCCCGAAGGACCGCG
*
952159 TA-ATATTGTCCCGAAGGACCGCG
1 TAGA-AATGTCCCGAAGGACCGCG
* * **
952182 TTGAAATGTCCAGAAGGACTACG
1 TAGAAATGTCCCGAAGGACCGCG
* * *
952205 TAGAATTGTCCCAAATGACCGCG
1 TAGAAATGTCCCGAAGGACCGCG
952228 TAGAA
1 TAGAA
952233 CTCTCGACTC
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
22 1 0.02
23 54 0.96
24 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (23 bp):
TAGAAATGTCCCGAAGGACCGCG
Found at i:952356 original size:30 final size:30
Alignment explanation
Indices: 952308--952380 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
952298 TTATATCATT
* * *
952308 TCACATAACTTATATCACATAGGCATGTAA
1 TCACATAGCTCATATCACATAGGCATATAA
* ***
952338 TCACATAGCTCATGTCACATTTTCATATAA
1 TCACATAGCTCATATCACATAGGCATATAA
*
952368 TCACATAGATCAT
1 TCACATAGCTCAT
952381 TTCCATATAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (30 bp):
TCACATAGCTCATATCACATAGGCATATAA
Found at i:952893 original size:20 final size:20
Alignment explanation
Indices: 952868--952969 Score: 82
Period size: 20 Copynumber: 5.6 Consensus size: 20
952858 TCTCTGAAAA
952868 TGGTATCGATACTTATAACC
1 TGGTATCGATACTTATAACC
952888 TGGTATCGATAC------CC
1 TGGTATCGATACTTATAACC
*
952902 TTGGTACCGATACTTATAACC
1 -TGGTATCGATACTTATAACC
* *
952923 TGGTATAGATACCT-T----
1 TGGTATCGATACTTATAACC
*
952938 TGGTACCGATACTTATAACC
1 TGGTATCGATACTTATAACC
952958 TGGTATCGATAC
1 TGGTATCGATAC
952970 CCTTGGTATC
Statistics
Matches: 62, Mismatches: 8, Indels: 24
0.66 0.09 0.26
Matches are distributed among these distances:
14 2 0.03
15 22 0.35
16 1 0.02
19 1 0.02
20 34 0.55
21 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (20 bp):
TGGTATCGATACTTATAACC
Found at i:952914 original size:35 final size:35
Alignment explanation
Indices: 952868--952985 Score: 200
Period size: 35 Copynumber: 3.4 Consensus size: 35
952858 TCTCTGAAAA
*
952868 TGGTATCGATACTTATAACCTGGTATCGATACCCT
1 TGGTACCGATACTTATAACCTGGTATCGATACCCT
* *
952903 TGGTACCGATACTTATAACCTGGTATAGATACCTT
1 TGGTACCGATACTTATAACCTGGTATCGATACCCT
952938 TGGTACCGATACTTATAACCTGGTATCGATACCCT
1 TGGTACCGATACTTATAACCTGGTATCGATACCCT
*
952973 TGGTATCGATACT
1 TGGTACCGATACT
952986 CTACTTTGGA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 77 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (35 bp):
TGGTACCGATACTTATAACCTGGTATCGATACCCT
Found at i:959760 original size:33 final size:33
Alignment explanation
Indices: 959726--959790 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
959716 AAAATTTAGT
**
959726 TTTTA-TTTCATTTTAGTACCCGTTGTTAAAAG
1 TTTTAGTTTCATTTTAGTACCCGCCGTTAAAAG
*
959758 TTTTAGTTTTATTTTAGTACCCGCCGTTAAAAG
1 TTTTAGTTTCATTTTAGTACCCGCCGTTAAAAG
959791 CTGAACACGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.48
Consensus pattern (33 bp):
TTTTAGTTTCATTTTAGTACCCGCCGTTAAAAG
Found at i:964930 original size:15 final size:15
Alignment explanation
Indices: 964910--964951 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
964900 AGGTCTTTCG
964910 ATTATTCTTATTCTT
1 ATTATTCTTATTCTT
*
964925 ATTATTCGTATTCTT
1 ATTATTCTTATTCTT
*
964940 ATTATTTTTATT
1 ATTATTCTTATT
964952 AATAGTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.67
Consensus pattern (15 bp):
ATTATTCTTATTCTT
Found at i:967940 original size:2 final size:2
Alignment explanation
Indices: 967933--968028 Score: 64
Period size: 2 Copynumber: 52.0 Consensus size: 2
967923 ATCGGGCCGG
* * * *
967933 TA TA TA TA TA TA TA TA TT TA AA T- TA AA TA TA TA AA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
967973 TA TA TA TA TA TA T- TA AA T- TA AA T- TA AA TT TA T- TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
968010 T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
968029 ATAATAATTA
Statistics
Matches: 70, Mismatches: 16, Indels: 16
0.69 0.16 0.16
Matches are distributed among these distances:
1 8 0.11
2 62 0.89
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:967972 original size:15 final size:15
Alignment explanation
Indices: 967954--967990 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
967944 ATATATTTAA
967954 ATTAAATATATAAAT
1 ATTAAATATATAAAT
* *
967969 ATTATATATATATAT
1 ATTAAATATATAAAT
967984 ATTAAAT
1 ATTAAAT
967991 TAAATTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATATATAAAT
Found at i:967994 original size:40 final size:39
Alignment explanation
Indices: 967933--968030 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 39
967923 ATCGGGCCGG
*
967933 TATATATATATATA-TATTTAAATTAAATATATAAATAT
1 TATATATATATATATTAATTAAATTAAATATATAAATAT
* *
967971 TATATATATATATATTAAATTAAATTAAATTTATTAATAT
1 TATATATATATATATT-AATTAAATTAAATATATAAATAT
968011 TATATATATATATATATAAT
1 TATATATATATATAT-TAAT
968031 AATAATTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
38 14 0.26
39 1 0.02
40 38 0.70
41 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (39 bp):
TATATATATATATATTAATTAAATTAAATATATAAATAT
Found at i:968461 original size:27 final size:28
Alignment explanation
Indices: 968420--968473 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
968410 CGTAAACTCT
*
968420 AAATGAAATAAATAAAAATAATTTAAAA
1 AAATGAAATAAATAAAAATAATATAAAA
*
968448 AAAT-AAATAAATAAACATAATATAAA
1 AAATGAAATAAATAAAAATAATATAAA
968474 TTTTTTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (28 bp):
AAATGAAATAAATAAAAATAATATAAAA
Found at i:968749 original size:26 final size:26
Alignment explanation
Indices: 968718--968787 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
968708 ATAAGAACGA
* **
968718 AAATAAACATAAATATCTTCAAAAAT
1 AAATAAACATAAATATATAAAAAAAT
* *
968744 AAATAAATA-AACATAAATAAAAAAAT
1 AAATAAACATAA-ATATATAAAAAAAT
968770 AAATAAACATAAATATAT
1 AAATAAACATAAATATAT
968788 TATTTTTCGT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
25 2 0.06
26 31 0.89
27 2 0.06
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (26 bp):
AAATAAACATAAATATATAAAAAAAT
Found at i:968761 original size:10 final size:10
Alignment explanation
Indices: 968746--968784 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
968736 TCAAAAATAA
968746 ATAAATAAAC
1 ATAAATAAAC
*
968756 ATAAATAAAAAA
1 ATAAAT--AAAC
968768 ATAAATAAAC
1 ATAAATAAAC
968778 ATAAATA
1 ATAAATA
968785 TATTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 16 0.64
12 9 0.36
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (10 bp):
ATAAATAAAC
Found at i:968772 original size:22 final size:23
Alignment explanation
Indices: 968739--968784 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
968729 AATATCTTCA
968739 AAAATAAATAAATAAACATAAAT
1 AAAATAAATAAATAAACATAAAT
968762 AAAA-AAATAAATAAACATAAAT
1 AAAATAAATAAATAAACATAAAT
968784 A
1 A
968785 TATTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAATAAATAAATAAACATAAAT
Found at i:977473 original size:60 final size:59
Alignment explanation
Indices: 977360--977477 Score: 139
Period size: 60 Copynumber: 2.0 Consensus size: 59
977350 AATAGTCGGG
* * * * *
977360 TGATATTTTTTAACTTTTAATAATCAAAAGACTTGATAAAGCAACATTATATAGTTGAA
1 TGATATTTTATAACTTTTAATAATCAAAACACTTAATAAAGCAAAACTATATAGTTGAA
* * *
977419 TGATCATTTTATAACTTTTAATAGTCAATACACTTAATAAAGTAATAACT-TATAGTTGA
1 TGAT-ATTTTATAACTTTTAATAATCAAAACACTTAATAAAGCAA-AACTATATAGTTGA
977478 GGGACTATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
59 4 0.08
60 43 0.88
61 2 0.04
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (59 bp):
TGATATTTTATAACTTTTAATAATCAAAACACTTAATAAAGCAAAACTATATAGTTGAA
Found at i:979993 original size:20 final size:20
Alignment explanation
Indices: 979970--980036 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
979960 CACAGAATGT
*
979970 AAGATTATCAGTGTGAATAA
1 AAGATTATCAGTGAGAATAA
979990 AAGATTATCAGTGAGAATAA
1 AAGATTATCAGTGAGAATAA
*
980010 AAGATTATCAGTGGGAATAA
1 AAGATTATCAGTGAGAATAA
980030 AAGATTA
1 AAGATTA
980037 CTGAGAATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.48, C:0.04, G:0.21, T:0.27
Consensus pattern (20 bp):
AAGATTATCAGTGAGAATAA
Found at i:982155 original size:23 final size:21
Alignment explanation
Indices: 982104--982202 Score: 69
Period size: 20 Copynumber: 4.7 Consensus size: 21
982094 ATGGTGTCAA
*
982104 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTAC
982125 AGTGCATCCATGCACCTGCC-AC
1 AGTGCATCCATGCACC--CCTAC
* * **
982147 TAGTGCATCGATGCA-CCATGT
1 -AGTGCATCCATGCACCCCTAC
* * **
982168 AGTGCATCGATGCA-CCATGT
1 AGTGCATCCATGCACCCCTAC
982188 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
982203 TCCGTTTCGA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
20 34 0.51
21 16 0.24
22 2 0.03
23 15 0.22
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAC
Found at i:982172 original size:20 final size:20
Alignment explanation
Indices: 982147--982202 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
982137 CACCTGCCAC
982147 TAGTGCATCGATGCACCATG
1 TAGTGCATCGATGCACCATG
982167 TAGTGCATCGATGCACCATG
1 TAGTGCATCGATGCACCATG
*
982187 TAGTGCATCCATGCAC
1 TAGTGCATCGATGCAC
982203 TCCGTTTCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (20 bp):
TAGTGCATCGATGCACCATG
Found at i:986602 original size:153 final size:153
Alignment explanation
Indices: 986182--986784 Score: 994
Period size: 154 Copynumber: 3.9 Consensus size: 153
986172 TGAATGACCA
986182 ATGATCATATTTTCATGTTTTACTCTGACCATGGGGGTCCTGGTGTTCTTGGTTAGGTCTCTTTA
1 ATGATCATATTTTCATGTTTTACTCTGACCAT-GGGGTCCTGGTGTTCTTGGTTAGGTCTCTTTA
*
986247 GCTGGCTCCTTGGCGATTCTAGTATGTTTTTTC-AGCTTGAAACGTAATATCGGTTTGTAGAGTT
65 GCTGGCTCCTTGGCGATTCTAGTATGTTTTTTCGA-CTTGAAACGTAATATCGATTTGTAGAGTT
* *
986311 GCGAATGAATGATGATTGTCGCCCC
129 GCTAATGAATGATGATTGTGGCCCC
* *
986336 AGTGATCATATCTTCATGTATTACTCTGACCATGGGGTCCTGGTGTTCTTGGTTAGGTCTCTTTA
1 A-TGATCATATTTTCATGTTTTACTCTGACCATGGGGTCCTGGTGTTCTTGGTTAGGTCTCTTTA
* *
986401 GCTGGCTCCTTGGCGATTCTAGTATGTTTTTTCGACTTGAAACTTAATATCGATTCGTAGAGTTG
65 GCTGGCTCCTTGGCGATTCTAGTATGTTTTTTCGACTTGAAACGTAATATCGATTTGTAGAGTTG
986466 CTAATGAATGATGATTGTGGCCCC
130 CTAATGAATGATGATTGTGGCCCC
986490 ATGATCATATTTTCATGTTTTACTCTGACCATGGAGGTCCTGGTGTTCTTGGTTAGGTCTCTTTA
1 ATGATCATATTTTCATGTTTTACTCTGACCATGG-GGTCCTGGTGTTCTTGGTTAGGTCTCTTTA
986555 -CTGGCTCCTTGGCGATTCTAGTATGTTTTTTCGACTTGAAACGTAATATCGATTTGTAGAGTTG
65 GCTGGCTCCTTGGCGATTCTAGTATGTTTTTTCGACTTGAAACGTAATATCGATTTGTAGAGTTG
*
986619 CTAATGAATGATGATTGTGGACCCA
130 CTAATGAATGATGATTGTGG-CCCC
** *
986644 ATGATCATATTTTCATGTTTTACTAAGACCATGGGGTCCTGGTTTTCTTGGTTAGGTCTCTTTAG
1 ATGATCATATTTTCATGTTTTACTCTGACCATGGGGTCCTGGTGTTCTTGGTTAGGTCTCTTTAG
* * * *
986709 CAGGCTCCTTGGCGATCCTAGTATGTTTTTTTTCGACTTGAAACGTAATATCGGTTTGTAGAGTA
66 CTGGCTCCTTGGCGATTCTAGTATG--TTTTTTCGACTTGAAACGTAATATCGATTTGTAGAGTT
986774 GCTAATGAATG
129 GCTAATGAATG
986785 CTTTTATTGT
Statistics
Matches: 423, Mismatches: 19, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
153 142 0.34
154 204 0.48
155 30 0.07
156 47 0.11
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (153 bp):
ATGATCATATTTTCATGTTTTACTCTGACCATGGGGTCCTGGTGTTCTTGGTTAGGTCTCTTTAG
CTGGCTCCTTGGCGATTCTAGTATGTTTTTTCGACTTGAAACGTAATATCGATTTGTAGAGTTGC
TAATGAATGATGATTGTGGCCCC
Found at i:986661 original size:307 final size:306
Alignment explanation
Indices: 985871--986784 Score: 1391
Period size: 307 Copynumber: 3.0 Consensus size: 306
985861 AGTTGTAGAT
* *
985871 AGTGGCCCCAATGATCATATTTTCATTTTTTACTCAGACCATGGGGGTCCTGGTGTTCTTGGTTA
1 AGTGGCCCC-ATGATCATATTTTCATGTTTTACTCTGACCATGGGGGTCCTGGTGTTCTTGGTTA
* * * * *
985936 GTTCTCTTTAGCTGGCTCCTTGGGCTATCCTAGTATGGTTTTTCCGACTTGAAACATAATATCGG
65 GGTCTCTTTAGCTGGCTCCTT-GGCGATTCTAGTAT-GTTTTTTCGACTTGAAACGTAATATCGG
986001 TTTGTAGAGTTGCTAATGAATGATGATTGTGGCCCCAATGATCATATTTTCAT-TTTTCACTCTG
128 TTTGTAGAGTTGCTAATGAATGATGATTGTGGCCCCAATGATCATATTTTCATGTTTT-ACTCTG
* * * *
986065 ACCATGGAGGTCCTGGTGTTCTTGGTTAGGTCTCTTTAGCTAGCTCCTTGGCAATGCTAATATGT
192 ACCATGG-GGTCCTGGTGTTCTTGGTTAGGTCTCTTTAGCTGGCTCCTTGGCGATCCTAGTATGT
*
986130 TTTTTGGACTTGAAACGTAATATCGGTTTGTAGAGTTGCTAATG-A--ATG
256 TTTTTCGACTTGAAACGTAATATCGGTTTGTAGAGTTGCTAATGAATGATG
*
986178 A-----CCAATGATCATATTTTCATGTTTTACTCTGACCATGGGGGTCCTGGTGTTCTTGGTTAG
1 AGTGGCCCCATGATCATATTTTCATGTTTTACTCTGACCATGGGGGTCCTGGTGTTCTTGGTTAG
986238 GTCTCTTTAGCTGGCTCCTTGGCGATTCTAGTATGTTTTTTC-AGCTTGAAACGTAATATCGGTT
66 GTCTCTTTAGCTGGCTCCTTGGCGATTCTAGTATGTTTTTTCGA-CTTGAAACGTAATATCGGTT
* * * * *
986302 TGTAGAGTTGCGAATGAATGATGATTGTCGCCCCAGTGATCATATCTTCATGTATTACTCTGACC
130 TGTAGAGTTGCTAATGAATGATGATTGTGGCCCCAATGATCATATTTTCATGTTTTACTCTGACC
*
986367 ATGGGGTCCTGGTGTTCTTGGTTAGGTCTCTTTAGCTGGCTCCTTGGCGATTCTAGTATGTTTTT
195 ATGGGGTCCTGGTGTTCTTGGTTAGGTCTCTTTAGCTGGCTCCTTGGCGATCCTAGTATGTTTTT
* * *
986432 TCGACTTGAAACTTAATATCGATTCGTAGAGTTGCTAATGAATGATG
260 TCGACTTGAAACGTAATATCGGTTTGTAGAGTTGCTAATGAATGATG
*
986479 ATTGTGGCCCCATGATCATATTTTCATGTTTTACTCTGACCATGGAGGTCCTGGTGTTCTTGGTT
1 A--GTGGCCCCATGATCATATTTTCATGTTTTACTCTGACCATGGGGGTCCTGGTGTTCTTGGTT
*
986544 AGGTCTCTTTA-CTGGCTCCTTGGCGATTCTAGTATGTTTTTTCGACTTGAAACGTAATATCGAT
64 AGGTCTCTTTAGCTGGCTCCTTGGCGATTCTAGTATGTTTTTTCGACTTGAAACGTAATATCGGT
* **
986608 TTGTAGAGTTGCTAATGAATGATGATTGTGGACCCAATGATCATATTTTCATGTTTTACTAAGAC
129 TTGTAGAGTTGCTAATGAATGATGATTGTGGCCCCAATGATCATATTTTCATGTTTTACTCTGAC
* *
986673 CATGGGGTCCTGGTTTTCTTGGTTAGGTCTCTTTAGCAGGCTCCTTGGCGATCCTAGTATGTTTT
194 CATGGGGTCCTGGTGTTCTTGGTTAGGTCTCTTTAGCTGGCTCCTTGGCGATCCTAGTATG--TT
*
986738 TTTTCGACTTGAAACGTAATATCGGTTTGTAGAGTAGCTAATGAATG
257 TTTTCGACTTGAAACGTAATATCGGTTTGTAGAGTTGCTAATGAATG
986785 CTTTTATTGT
Statistics
Matches: 553, Mismatches: 39, Indels: 28
0.89 0.06 0.05
Matches are distributed among these distances:
298 94 0.17
299 87 0.16
300 15 0.03
301 77 0.14
302 2 0.00
307 166 0.30
308 67 0.12
309 45 0.08
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.39
Consensus pattern (306 bp):
AGTGGCCCCATGATCATATTTTCATGTTTTACTCTGACCATGGGGGTCCTGGTGTTCTTGGTTAG
GTCTCTTTAGCTGGCTCCTTGGCGATTCTAGTATGTTTTTTCGACTTGAAACGTAATATCGGTTT
GTAGAGTTGCTAATGAATGATGATTGTGGCCCCAATGATCATATTTTCATGTTTTACTCTGACCA
TGGGGTCCTGGTGTTCTTGGTTAGGTCTCTTTAGCTGGCTCCTTGGCGATCCTAGTATGTTTTTT
CGACTTGAAACGTAATATCGGTTTGTAGAGTTGCTAATGAATGATG
Found at i:990349 original size:24 final size:24
Alignment explanation
Indices: 990322--990418 Score: 88
Period size: 24 Copynumber: 4.0 Consensus size: 24
990312 CGTTCATTTA
990322 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * *
990346 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * *
990370 CGTTCGGTTATGTTCGCTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * * *
990394 CATTCGGTTATGTTCGCTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
990418 C
1 C
990419 ATTCATTTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
24 65 0.97
25 2 0.03
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:990351 original size:14 final size:14
Alignment explanation
Indices: 990332--990409 Score: 91
Period size: 14 Copynumber: 6.1 Consensus size: 14
990322 CGTTCGTGAA
990332 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
990346 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
990360 CG-T---TTATGTT
1 CGTTCGGTTATGTT
990370 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
990384 CG--C--TTATGTT
1 CGTTCGGTTATGTT
*
990394 CATTCGGTTATGTT
1 CGTTCGGTTATGTT
990408 CG
1 CG
990410 CTTATGTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
10 17 0.31
11 1 0.02
12 2 0.04
13 1 0.02
14 33 0.61
ACGTcount: A:0.09, C:0.15, G:0.26, T:0.50
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:990374 original size:48 final size:48
Alignment explanation
Indices: 990309--990418 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 48
990299 CATAGGTCTC
* * *
990309 GTTCGTTCAT-TTACGTTC-GTGAACGTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTT-CGTTCGGT-AACGTTCGCTTATGTTCATTCGGTTAT
* *
990357 GTTCGTTTATGTTCGTTCGGTTATGTTCGCTTATGTTCATTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTAACGTTCGCTTATGTTCATTCGGTTAT
*
990405 GTTCGCTTATGTTC
1 GTTCGTTTATGTTC
990419 ATTCATTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
48 50 0.93
49 4 0.07
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (48 bp):
GTTCGTTTATGTTCGTTCGGTAACGTTCGCTTATGTTCATTCGGTTAT
Found at i:990419 original size:24 final size:24
Alignment explanation
Indices: 990333--990431 Score: 144
Period size: 24 Copynumber: 4.1 Consensus size: 24
990323 GTTCGTGAAC
* *
990333 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGCTTATGTTCATTCGGTTAT
* *
990357 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGCTTATGTTCATTCGGTTAT
990381 GTTCGCTTATGTTCATTCGGTTAT
1 GTTCGCTTATGTTCATTCGGTTAT
**
990405 GTTCGCTTATGTTCATTCATTTAT
1 GTTCGCTTATGTTCATTCGGTTAT
990429 GTT
1 GTT
990432 TAACACAATC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.11, C:0.14, G:0.22, T:0.53
Consensus pattern (24 bp):
GTTCGCTTATGTTCATTCGGTTAT
Found at i:991566 original size:16 final size:16
Alignment explanation
Indices: 991513--991567 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
991503 CCGACGTTTA
*
991513 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
991529 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
991545 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
991561 TGTTCGT
1 TGTTCGT
991568 ATATTCGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.07, C:0.11, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:991661 original size:16 final size:16
Alignment explanation
Indices: 991640--991672 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
991630 ACAAAAAATT
991640 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
991656 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
991672 T
1 T
991673 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:996120 original size:19 final size:19
Alignment explanation
Indices: 996074--996121 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
996064 TCTCTAATTT
996074 TTTTAATATTTTAATTTTAA
1 TTTTAA-ATTTTAATTTTAA
* * * *
996094 TCTCAAATTTTGATTTTTA
1 TTTTAAATTTTAATTTTAA
996113 TTTTAAATT
1 TTTTAAATT
996122 AATTTTTAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTAAATTTTAATTTTAA
Found at i:1010583 original size:39 final size:39
Alignment explanation
Indices: 1010516--1010609 Score: 118
Period size: 39 Copynumber: 2.3 Consensus size: 39
1010506 TTTATTTTGT
*
1010516 TCGGGTCGGGTTGGGTTTTTAAAGTGTGATATTCGGGTC-GAG
1 TCGGGTCGGGTT---TTTTTAAAGTGTGATATTAGGGTCAG-G
* *
1010558 TCGGTTCGGGTTTTTTTTAAGTGTGATATTAGGGTCAGG
1 TCGGGTCGGGTTTTTTTAAAGTGTGATATTAGGGTCAGG
1010597 TCGGGTCGGGTTT
1 TCGGGTCGGGTTT
1010610 GGGTTTAGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 35 0.74
40 1 0.02
42 11 0.23
ACGTcount: A:0.13, C:0.10, G:0.38, T:0.39
Consensus pattern (39 bp):
TCGGGTCGGGTTTTTTTAAAGTGTGATATTAGGGTCAGG
Found at i:1018361 original size:4 final size:4
Alignment explanation
Indices: 1018352--1018377 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1018342 GCATTGTTCT
1018352 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
1018378 AATACCACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:1030334 original size:60 final size:59
Alignment explanation
Indices: 1030233--1030380 Score: 145
Period size: 60 Copynumber: 2.5 Consensus size: 59
1030223 TGGAAGATTT
** * * ** *
1030233 AAAAGTTTTGGGACCAATTTAGAATGAGAGTCATAGTTTAGGGATGAAATTAAAATGTTC
1 AAAAGTTTAAGGACTAATTTAGAATGA-AATCATAACTTAGGGATAAAATTAAAATGTTC
** * *
1030293 AAAAGTTTAAGGACTAATTTAGAATGAAATACATAACTTAGGGATAAAATTGGAATTTTT
1 AAAAGTTTAAGGACTAATTTAGAATGAAAT-CATAACTTAGGGATAAAATTAAAATGTTC
* *
1030353 AAAAGTTTAAAGA-TCAATTTAAAATGAA
1 AAAAGTTTAAGGACT-AATTTAGAATGAA
1030381 GATTATAATT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
59 3 0.04
60 70 0.96
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (59 bp):
AAAAGTTTAAGGACTAATTTAGAATGAAATCATAACTTAGGGATAAAATTAAAATGTTC
Found at i:1032479 original size:30 final size:29
Alignment explanation
Indices: 1032445--1032502 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
1032435 AACAACAAAC
1032445 TTAACGAGCACAAGTCGAACAACAATTTTT
1 TTAACGAGCACAAGTCGAACAA-AATTTTT
** *
1032475 TTAACGAGCATGAGTCGATCAAAATTTT
1 TTAACGAGCACAAGTCGAACAAAATTTT
1032503 AACGAGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (29 bp):
TTAACGAGCACAAGTCGAACAAAATTTTT
Found at i:1032784 original size:2 final size:2
Alignment explanation
Indices: 1032777--1032808 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1032767 GAAGAGAAGC
*
1032777 AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1032809 TTGTCAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1040784 original size:12 final size:12
Alignment explanation
Indices: 1040767--1040791 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1040757 GGTTAATCGA
1040767 TTTTTTTATAAT
1 TTTTTTTATAAT
1040779 TTTTTTTATAAT
1 TTTTTTTATAAT
1040791 T
1 T
1040792 AGATTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTTATAAT
Found at i:1050689 original size:39 final size:39
Alignment explanation
Indices: 1050646--1050743 Score: 160
Period size: 39 Copynumber: 2.5 Consensus size: 39
1050636 GTACATCTGC
*
1050646 TGCTGAGGGTACATTGAACCCATCTGGCCTGCTGCCATT
1 TGCTGAGGGTACATTGAACCCATCTGGCCCGCTGCCATT
*
1050685 TGCTGAGGGTACATTGAACCCATCTGGCCCGCTGGCATT
1 TGCTGAGGGTACATTGAACCCATCTGGCCCGCTGCCATT
* *
1050724 TGCTGAGGATACATGGAACC
1 TGCTGAGGGTACATTGAACC
1050744 GGGATACATT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.20, C:0.27, G:0.28, T:0.26
Consensus pattern (39 bp):
TGCTGAGGGTACATTGAACCCATCTGGCCCGCTGCCATT
Found at i:1062067 original size:40 final size:40
Alignment explanation
Indices: 1062018--1062108 Score: 164
Period size: 40 Copynumber: 2.3 Consensus size: 40
1062008 TCAGTTGATG
1062018 AGTATCGATACCGTAGGTGGAGTATTGATACTCTAGGGTC
1 AGTATCGATACCGTAGGTGGAGTATTGATACTCTAGGGTC
*
1062058 AGTATCGATATCGTAGGTGGAGTATTGATACTCTAGGGTC
1 AGTATCGATACCGTAGGTGGAGTATTGATACTCTAGGGTC
*
1062098 AGTACCGATAC
1 AGTATCGATAC
1062109 TGAGATGCTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (40 bp):
AGTATCGATACCGTAGGTGGAGTATTGATACTCTAGGGTC
Found at i:1062094 original size:20 final size:21
Alignment explanation
Indices: 1062017--1062094 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 21
1062007 ATCAGTTGAT
1062017 GAGTATCGATAC-CGTAGGTG
1 GAGTATCGATACTCGTAGGTG
*
1062037 GAGTATTGATACTC-TAGG-G
1 GAGTATCGATACTCGTAGGTG
*
1062056 TCAGTATCGATA-TCGTAGGTG
1 -GAGTATCGATACTCGTAGGTG
*
1062077 GAGTATTGATACTC-TAGG
1 GAGTATCGATACTCGTAGG
1062095 GTCAGTACCG
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.06
20 41 0.85
21 4 0.08
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.31
Consensus pattern (21 bp):
GAGTATCGATACTCGTAGGTG
Found at i:1062101 original size:20 final size:20
Alignment explanation
Indices: 1062038--1062101 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
1062028 CCGTAGGTGG
1062038 AGTATTGATACTCTAGGGTC
1 AGTATTGATACTCTAGGGTC
* *
1062058 AGTATCGATA-TCGTA-GGTGG
1 AGTATTGATACTC-TAGGGT-C
1062078 AGTATTGATACTCTAGGGTC
1 AGTATTGATACTCTAGGGTC
1062098 AGTA
1 AGTA
1062102 CCGATACTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (20 bp):
AGTATTGATACTCTAGGGTC
Found at i:1062107 original size:20 final size:20
Alignment explanation
Indices: 1062038--1062109 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
1062028 CCGTAGGTGG
*
1062038 AGTATTGATACTCTAGGGTC
1 AGTATCGATACTCTAGGGTC
*
1062058 AGTATCGATA-TCGTA-GGTGG
1 AGTATCGATACTC-TAGGGT-C
*
1062078 AGTATTGATACTCTAGGGTC
1 AGTATCGATACTCTAGGGTC
*
1062098 AGTACCGATACT
1 AGTATCGATACT
1062110 GAGATGCTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 5 0.12
20 32 0.76
21 5 0.12
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (20 bp):
AGTATCGATACTCTAGGGTC
Found at i:1066229 original size:15 final size:15
Alignment explanation
Indices: 1066209--1066243 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1066199 TTCTATTTAA
1066209 TTTATAAGATAATAT
1 TTTATAAGATAATAT
1066224 TTTATAAGATAATAT
1 TTTATAAGATAATAT
1066239 TTTAT
1 TTTAT
1066244 TTAATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (15 bp):
TTTATAAGATAATAT
Found at i:1073453 original size:28 final size:29
Alignment explanation
Indices: 1073419--1073476 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
1073409 GAAAAAATTG
*
1073419 AATATTTTA-GTACCTATTTTGATCAAAA
1 AATATTTTAGGTACCTATTTTGACCAAAA
1073447 AATATTTTAGGTACCTATTTTGACCAAAA
1 AATATTTTAGGTACCTATTTTGACCAAAA
1073476 A
1 A
1073477 GACAACTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (29 bp):
AATATTTTAGGTACCTATTTTGACCAAAA
Found at i:1073777 original size:4 final size:4
Alignment explanation
Indices: 1073768--1073794 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1073758 TTCAACTATG
1073768 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
1073795 ACATGCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:1074794 original size:14 final size:13
Alignment explanation
Indices: 1074775--1074809 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
1074765 AGGAATTTAC
1074775 AAAAAAAATGTAG
1 AAAAAAAATGTAG
1074788 AAAAAAAATGTAG
1 AAAAAAAATGTAG
1074801 AAAAAAAAT
1 AAAAAAAAT
1074810 CAAATTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (13 bp):
AAAAAAAATGTAG
Found at i:1074947 original size:20 final size:20
Alignment explanation
Indices: 1074922--1074959 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1074912 TAATTCAGTT
*
1074922 AAATTTGGTTAAAAATAATC
1 AAATTTAGTTAAAAATAATC
*
1074942 AAATTTAGTTGAAAATAA
1 AAATTTAGTTAAAAATAA
1074960 ACTTAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.34
Consensus pattern (20 bp):
AAATTTAGTTAAAAATAATC
Found at i:1086959 original size:222 final size:220
Alignment explanation
Indices: 1086551--1087129 Score: 865
Period size: 222 Copynumber: 2.6 Consensus size: 220
1086541 GGGCCGTTAC
* * * *
1086551 AGTTTATGTACTAAATGTGTACTCTACCCTTATACTTATAGTTGACGTAAAATTTTTA-GGTAAA
1 AGTTTAGGTACTAAATGTGTACTTTACCCTTATATTTATAGTTGACGTAAAAGTTTTAGGGT-AA
* * *
1086615 AATATATAAATGGCTCCCTCAATTATATCGTGTTATTTTGTTGAGTTATATAACTATTAAAAAAG
65 AATATATAAATGGCTCCCCCAATTATATCATGTTATTTTGTTGAGTTAT-TTACTATT--AAAAG
* * * *
1086680 -TACAAAATGATACTAAAATGAAACAAAAAGGAAATGTTAGGTATGGTTTTGAAAAAATTGAAAG
127 TTATAAAATGATACTAAAATGAAACAAAAAGGAAACGTTAGGTATGATTTTGAAAAAATTAAAAG
*
1086744 TTTAGGTACTGAAACGGAACAAAAGTGAT
192 TTTAGGTACTAAAACGGAACAAAAGTGAT
* *
1086773 AGTTTAGGTACTAAATATGTACTTTACCCTTATATTTATAGTCGACGTAAAAGTTTTAGGGTAAA
1 AGTTTAGGTACTAAATGTGTACTTTACCCTTATATTTATAGTTGACGTAAAAGTTTTAGGGTAAA
* * *
1086838 ATATATAATTGGCTCCCCCAATTATATCATGTTATTTTGTTAAGTTATCTTACTATTAATAGTTA
66 ATATATAAATGGCTCCCCCAATTATATCATGTTATTTTGTTGAGTTAT-TTACTATTAAAAGTTA
* *
1086903 TAAAATGATGCTAAAATGAAACAAAAAGTAAACGTTAGGTATGATTTTGAAAAAAATTAAAAGTT
130 TAAAATGATACTAAAATGAAACAAAAAGGAAACGTTAGGTATGATTTTG-AAAAAATTAAAAGTT
* *
1086968 TAGGTACTAAAACGTAACAAGAGTGAT
194 TAGGTACTAAAACGGAACAAAAGTGAT
*
1086995 AGGTTAGGTACTAAATGTGTACTTTACCCTTATATTTATAGTTGACGTAAAAGTTTTAGGGTAAA
1 AGTTTAGGTACTAAATGTGTACTTTACCCTTATATTTATAGTTGACGTAAAAGTTTTAGGGTAAA
* *
1087060 ATCTATAAATGGCTCCCCTAATTATATCATGTTATTTTGTTGAGTTATTTGACTATTAAAAGTTA
66 ATATATAAATGGCTCCCCCAATTATATCATGTTATTTTGTTGAGTTATTT-ACTATTAAAAGTTA
1087125 TAAAA
130 TAAAA
1087130 ATGGTTATCT
Statistics
Matches: 323, Mismatches: 30, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
220 4 0.01
221 48 0.15
222 268 0.83
223 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.36
Consensus pattern (220 bp):
AGTTTAGGTACTAAATGTGTACTTTACCCTTATATTTATAGTTGACGTAAAAGTTTTAGGGTAAA
ATATATAAATGGCTCCCCCAATTATATCATGTTATTTTGTTGAGTTATTTACTATTAAAAGTTAT
AAAATGATACTAAAATGAAACAAAAAGGAAACGTTAGGTATGATTTTGAAAAAATTAAAAGTTTA
GGTACTAAAACGGAACAAAAGTGAT
Found at i:1087885 original size:21 final size:21
Alignment explanation
Indices: 1087860--1087903 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1087850 GGAAATGTTA
* * *
1087860 AAAAACATTGATATTTTATAT
1 AAAAACAATAATATTTTAGAT
*
1087881 AAAAATAATAATATTTTAGAT
1 AAAAACAATAATATTTTAGAT
1087902 AA
1 AA
1087904 TTTTTTACCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
AAAAACAATAATATTTTAGAT
Found at i:1089968 original size:2 final size:2
Alignment explanation
Indices: 1089961--1090041 Score: 63
Period size: 2 Copynumber: 45.0 Consensus size: 2
1089951 CCGCCCCAAT
*
1089961 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TT TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1090001 T- TT TA TA T- TA -A T- TA TA TA TA -A TA T- TT TA TA T- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1090036 TA TA TA
1 TA TA TA
1090042 AAATATTTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
1 9 0.14
2 56 0.86
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:1089997 original size:23 final size:22
Alignment explanation
Indices: 1089964--1090049 Score: 51
Period size: 23 Copynumber: 4.0 Consensus size: 22
1089954 CCCCAATTAT
*
1089964 ATATATATATA-TAT-ATATAT
1 ATATATATATATTATAATATTT
1089984 ATATA-ATAT-TTATAATATTT
1 ATATATATATATTATAATATTT
1090004 -TATAT-TAATTATATATAATATTT
1 ATATATAT-A-TAT-TATAATATTT
* *
1090027 -TATATTTTATATATAAAATATTT
1 ATATA-TATATAT-TATAATATTT
1090050 TCGGGTTCGG
Statistics
Matches: 55, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
19 12 0.22
20 11 0.20
21 1 0.02
22 1 0.02
23 27 0.49
24 2 0.04
25 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATATATATATTATAATATTT
Found at i:1090040 original size:32 final size:36
Alignment explanation
Indices: 1089962--1090041 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 36
1089952 CGCCCCAATT
*
1089962 ATATATATATATATATATATATATATAATATTTATA
1 ATATTTATATATATATATATATATATAATATTTATA
1089998 ATATTT-TATAT-TA-AT-TATATATAATATTT-T-
1 ATATTTATATATATATATATATATATAATATTTATA
1090028 ATATTT-TATATATA
1 ATATTTATATATATA
1090042 AAATATTTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
30 11 0.26
31 3 0.07
32 14 0.33
33 2 0.05
34 2 0.05
35 5 0.12
36 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (36 bp):
ATATTTATATATATATATATATATATAATATTTATA
Found at i:1093310 original size:21 final size:21
Alignment explanation
Indices: 1093268--1093310 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1093258 TTTCTGGGCT
* * *
1093268 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
1093289 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
1093310 A
1 A
1093311 ACGAACCAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:1093364 original size:22 final size:22
Alignment explanation
Indices: 1093334--1093376 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1093324 TACAGAATGT
*
1093334 CATGGGGGAACCGATACCCCCA
1 CATGAGGGAACCGATACCCCCA
*
1093356 CATGAGGGAACCGATTCCCCC
1 CATGAGGGAACCGATACCCCC
1093377 CTAAAGGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.12
Consensus pattern (22 bp):
CATGAGGGAACCGATACCCCCA
Found at i:1093882 original size:2 final size:2
Alignment explanation
Indices: 1093875--1093904 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1093865 AATCATTGAC
1093875 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
1093905 GAATATAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1094958 original size:103 final size:103
Alignment explanation
Indices: 1094779--1094986 Score: 380
Period size: 103 Copynumber: 2.0 Consensus size: 103
1094769 TACGCAGTCA
* *
1094779 TTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCTTG
1 TTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTA
*
1094844 GCATATGTATATGATTCTTAGGGAATGATATGTGGTCC
66 GCATATGTATATGATTCTTAAGGAATGATATGTGGTCC
1094882 TTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTA
1 TTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTA
*
1094947 GTATATGTATATGATTCTTAAGGAATGATATGTGGTCC
66 GCATATGTATATGATTCTTAAGGAATGATATGTGGTCC
1094985 TT
1 TT
1094987 ATGGACATTA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTA
GCATATGTATATGATTCTTAAGGAATGATATGTGGTCC
Found at i:1095036 original size:23 final size:23
Alignment explanation
Indices: 1095003--1095070 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
1094993 ATTATTATAT
1095003 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * * *
1095026 GGCACTCCGGTGTAATTCTATGT
1 GGCACTACGGTGCAATTCTACGC
* *
1095049 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
1095071 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1096916 original size:2 final size:2
Alignment explanation
Indices: 1096911--1096939 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1096901 TATGTGTGTG
1096911 TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1096940 AAGTTCAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1096931 original size:13 final size:13
Alignment explanation
Indices: 1096913--1096938 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1096903 TGTGTGTGTA
1096913 TATATATATATAT
1 TATATATATATAT
1096926 TATATATATATAT
1 TATATATATATAT
1096939 AAAGTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Done.