Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001985.1 Hibiscus syriacus cultivar Beakdansim tig00004046_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: 712196
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:580135 original size:22 final size:23
Alignment explanation
Indices: 580098--580145 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
580088 TATTTAGATT
580098 TTTAACTAATTTATAA-TTATACG
1 TTTAACTAATTTATAATTTA-ACG
*
580121 TTTAA-TATTTTATAATTTAACG
1 TTTAACTAATTTATAATTTAACG
580143 TTT
1 TTT
580146 TATAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTAACTAATTTATAATTTAACG
Found at i:583511 original size:15 final size:16
Alignment explanation
Indices: 583473--583513 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
583463 AGAGAGCCTC
* *
583473 TGAATCATTCAGCATT
1 TGAATCATTCAACACT
583489 TGAATCATTCAACACT
1 TGAATCATTCAACACT
583505 T-AATCATTC
1 TGAATCATTC
583514 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAACACT
Found at i:583837 original size:36 final size:36
Alignment explanation
Indices: 583767--583873 Score: 137
Period size: 36 Copynumber: 2.9 Consensus size: 36
583757 AAACAATCGG
* *
583767 TTTTT-AAAAATATATAATATATAATTTTTTGAAAACA
1 TTTTTGAAAACTATATAATATAT-A-GTTTTGAAAACA
*
583804 -TTTTGAAAACTTATATAATATATAGTTTAGAAAACA
1 TTTTTGAAAAC-TATATAATATATAGTTTTGAAAACA
*
583840 TTTTTGGAAACTATATAATATATAGTTTTGAAAA
1 TTTTTGAAAACTATATAATATATAGTTTTGAAAA
583874 ATATATAGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
36 36 0.58
37 14 0.23
38 12 0.19
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (36 bp):
TTTTTGAAAACTATATAATATATAGTTTTGAAAACA
Found at i:583863 original size:38 final size:37
Alignment explanation
Indices: 583714--583863 Score: 117
Period size: 36 Copynumber: 3.9 Consensus size: 37
583704 TCCGAGGCTC
** *
583714 GTTTAGAAAACGGTTTGAAAAAC-ATATAATATATACTT
1 GTTTAGAAAACATTTTG-AAAACTATATAATATATA-AT
* * * * *
583752 TTTTAAAACAATCGGTTTTTAAAAATATATAATATATAAT
1 GTTTAGAA-AA-C-ATTTTGAAAACTATATAATATATAAT
* *
583792 TTTTTGAAAACATTTTGAAAACTTATATAATATAT-A-
1 GTTTAGAAAACATTTTGAAAAC-TATATAATATATAAT
*
583828 GTTTAGAAAACATTTTTGGAAACTATATAATATATA
1 GTTTAGAAAACA-TTTTGAAAACTATATAATATATA
583864 GTTTTGAAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
36 22 0.24
37 18 0.20
38 19 0.21
39 4 0.04
40 12 0.13
41 16 0.18
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (37 bp):
GTTTAGAAAACATTTTGAAAACTATATAATATATAAT
Found at i:583893 original size:16 final size:17
Alignment explanation
Indices: 583856--583890 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
583846 GAAACTATAT
583856 AATATATAGTTTTGAAA
1 AATATATAGTTTTGAAA
583873 AATATATAGTTTTGAAA
1 AATATATAGTTTTGAAA
583890 A
1 A
583891 TATTTGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (17 bp):
AATATATAGTTTTGAAA
Found at i:583922 original size:37 final size:37
Alignment explanation
Indices: 583873--584035 Score: 155
Period size: 37 Copynumber: 4.4 Consensus size: 37
583863 AGTTTTGAAA
583873 AATATATAGTTTTGAAAATA-TTTGAATATATATATAT
1 AATATATAGTTTTGAAAATATTTTGAA-ATATATATAT
583910 AATATATAGTTTT-AAAATATTTTTTGAAA-ATATATAT
1 AATATATAGTTTTGAAAATA--TTTTGAAATATATATAT
*
583947 ATTATATAGTTTTGAAAATATTTTTGAAA-ATATATAT
1 AATATATAGTTTTGAAAATA-TTTTGAAATATATATAT
583984 --TATATAG--TTGAAAAATAATTTTTTTGAAA-ATATATAT
1 AATATATAGTTTTG-AAAAT-A---TTTTGAAATATATATAT
* *
584021 ATTATATGGTTTTGA
1 AATATATAGTTTTGA
584036 CAACCATTTT
Statistics
Matches: 112, Mismatches: 2, Indels: 21
0.83 0.01 0.16
Matches are distributed among these distances:
33 3 0.03
34 5 0.04
35 8 0.07
36 6 0.05
37 67 0.60
38 7 0.06
39 12 0.11
40 1 0.01
41 3 0.03
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.48
Consensus pattern (37 bp):
AATATATAGTTTTGAAAATATTTTGAAATATATATAT
Found at i:583962 original size:74 final size:73
Alignment explanation
Indices: 583875--584035 Score: 229
Period size: 74 Copynumber: 2.2 Consensus size: 73
583865 TTTTGAAAAA
**
583875 TATATAGTTTTGAAAATA-TTTGAATATATATATATAATATATAGTTTTAAAAT-A-TTTTTTGA
1 TATATAGTTTTGAAAATATTTTGAA-A-ATATATAT--TATATAGTTGAAAAATAATTTTTTTGA
583937 AAATATATATAT
62 AAATATATATAT
583949 TATATAGTTTTGAAAATATTTTTGAAAATATATATTATATAGTTGAAAAATAATTTTTTTGAAAA
1 TATATAGTTTTGAAAATA-TTTTGAAAATATATATTATATAGTTGAAAAATAATTTTTTTGAAAA
584014 TATATATAT
65 TATATATAT
*
584023 TATATGGTTTTGA
1 TATATAGTTTTGA
584036 CAACCATTTT
Statistics
Matches: 80, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
72 14 0.17
73 1 0.01
74 58 0.73
75 1 0.01
76 6 0.08
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (73 bp):
TATATAGTTTTGAAAATATTTTGAAAATATATATTATATAGTTGAAAAATAATTTTTTTGAAAAT
ATATATAT
Found at i:583984 original size:90 final size:88
Alignment explanation
Indices: 583815--583979 Score: 230
Period size: 89 Copynumber: 1.9 Consensus size: 88
583805 TTTGAAAACT
*
583815 TATATAATATATAGTTTAGAAAACATTTTTGGAAACTATATAATATATAGTTTTGAAAAATATAT
1 TATATAATATATAGTTTAGAAAACATTTTTGGAAAATATATAATATATAGTTTTG-AAAATATAT
583880 AGTTTTGAAAATATTTGAATATATA
65 A-TTTTGAAAATATTTGAATATATA
* * *
583905 TATATAATATATAGTTT-TAAAATATTTTTTGAAAATATATATATTATATAGTTTTG-AAA-ATA
1 TATATAATATATAGTTTAGAAAACATTTTTGGAAAATATATA-A-TATATAGTTTTGAAAATATA
583967 T-TTTTGAAAATAT
64 TATTTTGAAAATAT
583980 ATATTATATA
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
86 12 0.17
88 4 0.06
89 23 0.33
90 18 0.26
91 12 0.17
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.45
Consensus pattern (88 bp):
TATATAATATATAGTTTAGAAAACATTTTTGGAAAATATATAATATATAGTTTTGAAAATATATA
TTTTGAAAATATTTGAATATATA
Found at i:584082 original size:74 final size:73
Alignment explanation
Indices: 583875--584082 Score: 206
Period size: 74 Copynumber: 2.8 Consensus size: 73
583865 TTTTGAAAAA
* * * *
583875 TATATAGTTTTGAAAATA-TTTGAATATATATATATAATATATAGTTTT-AAAATATTTTTTGAA
1 TATATAGTTTTGAAAACATTTTCAA-AAACATATATAATAT-T-GTTTTAAAAATATTTTTTGAA
583938 AATATATATAT
63 AATATATATAT
* ** * * * *
583949 TATATAGTTTTGAAAATATTTTTGAAAATATATATTATATAG-TTGAAAAATAATTTTTTTGAAA
1 TATATAGTTTTGAAAACATTTTCAAAAACATATATAATATTGTTTTAAAAAT-A-TTTTTTGAAA
584013 ATATATATAT
64 ATATATATAT
* * *
584023 TATATGGTTTTGACAACCATTTTCAAAAACGTATATAATATTGTTTTAAAAATGATTTTT
1 TATATAGTTTTGA-AAACATTTTCAAAAACATATATAATATTGTTTTAAAAAT-ATTTTT
584083 ATTATATTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
71 2 0.02
72 6 0.05
73 1 0.01
74 63 0.57
75 30 0.27
76 9 0.08
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.47
Consensus pattern (73 bp):
TATATAGTTTTGAAAACATTTTCAAAAACATATATAATATTGTTTTAAAAATATTTTTTGAAAAT
ATATATAT
Found at i:584092 original size:5 final size:5
Alignment explanation
Indices: 584082--584137 Score: 55
Period size: 5 Copynumber: 11.2 Consensus size: 5
584072 AAATGATTTT
584082 TATTA TATTA TATTATA TATTA TATTAA TATTA T-TTA TATT- TATT-
1 TATTA TATTA TA-T-TA TATTA TATT-A TATTA TATTA TATTA TATTA
*
584127 TATTA TTTTA T
1 TATTA TATTA T
584138 TAATATTTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
4 12 0.27
5 22 0.49
6 7 0.16
7 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TATTA
Found at i:584116 original size:31 final size:31
Alignment explanation
Indices: 584084--584144 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
584074 ATGATTTTTA
584084 TTATA-TTATATTATATATTATATTAATATTAT
1 TTATATTTAT-TTAT-TATTATATTAATATTAT
*
584116 TTATATTTATTTATTATTTTATTAATATT
1 TTATATTTATTTATTATTATATTAATATT
584145 TTCTTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.52
32 9 0.33
33 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (31 bp):
TTATATTTATTTATTATTATATTAATATTAT
Found at i:584144 original size:28 final size:27
Alignment explanation
Indices: 584079--584145 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
584069 TAAAAATGAT
584079 TTTTATT-ATA-TTATATTATATATTA
1 TTTTATTAATATTTATATTATATATTA
* * * *
584104 TATTAATATTATTTATATTTATTTATTA
1 TTTTATTAATATTTATA-TTATATATTA
584132 TTTTATTAATATTT
1 TTTTATTAATATTT
584146 TCTTTTCTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
25 5 0.16
26 2 0.06
27 5 0.16
28 20 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTTATTAATATTTATATTATATATTA
Found at i:587753 original size:14 final size:14
Alignment explanation
Indices: 587734--587764 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
587724 AAACACTGAA
587734 GGCTCCTTACTTCG
1 GGCTCCTTACTTCG
587748 GGCTCCTTACTTCG
1 GGCTCCTTACTTCG
587762 GGC
1 GGC
587765 ACCTAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.35, G:0.26, T:0.32
Consensus pattern (14 bp):
GGCTCCTTACTTCG
Found at i:590657 original size:85 final size:85
Alignment explanation
Indices: 590388--590796 Score: 529
Period size: 85 Copynumber: 4.8 Consensus size: 85
590378 GGAACTATTC
* * * * *
590388 ACAGCATAGCTCAAGGCGAGAATGGCTATCTGTCAGCAAAAAAATCTTCGAGTTCAATTACATTC
1 ACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCA--ATAAAAACCTTCGAGTTCGATTACATTC
*
590453 AGCTCAA-GG-ACATCAAATTT
64 AGCTCAAGGGCATATCAAATTT
* *
590473 ATAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAATAAAAAACCTTCGAGTTCGATTACATTCA
1 ACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAT-AAAAACCTTCGAGTTCGATTACATTCA
*
590538 GCTCAAGGACATATCAAATTT
65 GCTCAAGGGCATATCAAATTT
* * * * *
590559 ACATCATAACTCAAGGCGAGAAGGGTTATATGTCAATAAAAACCTTCCAGTTCGATTACATTCAT
1 ACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAATAAAAACCTTCGAGTTCGATTACATTCAG
590624 CTCAAGGGCATATCAAATTT
66 CTCAAGGGCATATCAAATTT
* * *
590644 ATAGCATAGCTCAAGGCGAGAATGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAG
1 ACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAATAAAAACCTTCGAGTTCGATTACATTCAG
590709 CTCAAGGGCATATCAAATTT
66 CTCAAGGGCATATCAAATTT
* * * ** * *
590729 ACAGCATAGCTTAAGTCAAGAAAAGTTATCTGTCAACAAAAA-TTGTCGAGTTCGATT-CTATTC
1 ACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAATAAAAACCT-TCGAGTTCGATTAC-ATTC
590792 AGCTC
64 AGCTC
590797 GATAACATAT
Statistics
Matches: 289, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
83 1 0.00
84 33 0.11
85 211 0.73
86 44 0.15
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (85 bp):
ACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAATAAAAACCTTCGAGTTCGATTACATTCAG
CTCAAGGGCATATCAAATTT
Found at i:592017 original size:49 final size:49
Alignment explanation
Indices: 591964--592092 Score: 172
Period size: 50 Copynumber: 2.6 Consensus size: 49
591954 CAATTAGTAT
591964 TAGGCACCTAAGATACCTCCTTGAACATGAGA-TTTAGCACAATAAATGC
1 TAGGCACC-AAGATACCTCCTTGAACATGAGATTTTAGCACAATAAATGC
* * * *
592013 TAGGCACACAATGA-ACCACCTAGAACATGAGATTTTAGCACAATTAGTGC
1 TAGGCAC-CAA-GATACCTCCTTGAACATGAGATTTTAGCACAATAAATGC
592063 TAGGCATCCAAGATACCTCCTTGAACATGA
1 TAGGCA-CCAAGATACCTCCTTGAACATGA
592093 AGTGCTGGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
49 27 0.39
50 41 0.59
51 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (49 bp):
TAGGCACCAAGATACCTCCTTGAACATGAGATTTTAGCACAATAAATGC
Found at i:592068 original size:50 final size:49
Alignment explanation
Indices: 591948--592092 Score: 161
Period size: 50 Copynumber: 2.9 Consensus size: 49
591938 ACATGAAACC
** * *
591948 TTAGCACAATTAGTATTAGGCACCTAAGATACCTCCTTGAACATGAGAT
1 TTAGCACAATTAGTGCTAGGCACCTAAGATACCACCTAGAACATGAGAT
* *
591997 TTAGCACAATAAATGCTAGGCACAC-AATGA-ACCACCTAGAACATGAGATT
1 TTAGCACAATTAGTGCTAGGCAC-CTAA-GATACCACCTAGAACATGAGA-T
* *
592047 TTAGCACAATTAGTGCTAGGCATCC-AAGATACCTCCTTGAACATGA
1 TTAGCACAATTAGTGCTAGGCA-CCTAAGATACCACCTAGAACATGA
592093 AGTGCTGGTT
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
49 39 0.48
50 41 0.51
51 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (49 bp):
TTAGCACAATTAGTGCTAGGCACCTAAGATACCACCTAGAACATGAGAT
Found at i:604212 original size:14 final size:16
Alignment explanation
Indices: 604173--604213 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
604163 AATTTTGACC
604173 AAAAATCATTATGATG
1 AAAAATCATTATGATG
604189 AACAAA-CATT-T-ATG
1 AA-AAATCATTATGATG
604203 AAAAATCATTA
1 AAAAATCATTA
604214 AAACTTTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.14
14 9 0.41
15 1 0.05
16 6 0.27
17 3 0.14
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (16 bp):
AAAAATCATTATGATG
Found at i:604835 original size:20 final size:21
Alignment explanation
Indices: 604807--604845 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
604797 AACTTTAAAT
604807 TTTGAAATTAATT-TCTTATA
1 TTTGAAATTAATTGTCTTATA
* *
604827 TTTGGAATTCATTGTCTTA
1 TTTGAAATTAATTGTCTTA
604846 AATTCCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTGAAATTAATTGTCTTATA
Found at i:607500 original size:21 final size:22
Alignment explanation
Indices: 607474--607514 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
607464 CTAAACTTTA
*
607474 AAATCA-AGATTTTGTTTTTCC
1 AAATCATAGATTTTGATTTTCC
*
607495 AAATCATTGATTTTGATTTT
1 AAATCATAGATTTTGATTTT
607515 AGAAAGCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (22 bp):
AAATCATAGATTTTGATTTTCC
Found at i:610226 original size:21 final size:21
Alignment explanation
Indices: 610200--610245 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
610190 TAATAATATA
610200 TATTTTTAATTTTTAGCAATT
1 TATTTTTAATTTTTAGCAATT
* * *
610221 TATTTTTTATTTTTGGCATTT
1 TATTTTTAATTTTTAGCAATT
610242 TATT
1 TATT
610246 ATATTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (21 bp):
TATTTTTAATTTTTAGCAATT
Found at i:610552 original size:2 final size:2
Alignment explanation
Indices: 610545--610577 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
610535 TTCGAGGATC
610545 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
610578 CACACGAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:629746 original size:12 final size:12
Alignment explanation
Indices: 629729--629753 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
629719 ATATAAATTT
629729 GGCCCGATACCC
1 GGCCCGATACCC
629741 GGCCCGATACCC
1 GGCCCGATACCC
629753 G
1 G
629754 TTTAAATAAC
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:0.16, C:0.48, G:0.28, T:0.08
Consensus pattern (12 bp):
GGCCCGATACCC
Found at i:630503 original size:41 final size:41
Alignment explanation
Indices: 630449--630533 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
630439 CTCTGACGGT
* *
630449 GGGGTTCATGTCTTCGAGTCC-CTCGAGTCCGAAAACAGGTG
1 GGGGTTCACGTCTTCGAG-CCACTCGAGTCCGAAAACAGATG
**
630490 GGGGTTCACGTCTTCGAGCCACTTTAGTCCGAAAACAGATG
1 GGGGTTCACGTCTTCGAGCCACTCGAGTCCGAAAACAGATG
630531 GGG
1 GGG
630534 AGTGCCTCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 2 0.05
41 37 0.95
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.24
Consensus pattern (41 bp):
GGGGTTCACGTCTTCGAGCCACTCGAGTCCGAAAACAGATG
Found at i:639814 original size:30 final size:30
Alignment explanation
Indices: 639780--639852 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
639770 CCCGAAAGAC
639780 CTATCCAGAGGTCATAAAGATCCTCGATAA
1 CTATCCAGAGGTCATAAAGATCCTCGATAA
*
639810 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGATAA
*
639840 CTATCCATAGGTC
1 CTATCCAGAGGTC
639853 CCGAAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGATAA
Found at i:639869 original size:30 final size:30
Alignment explanation
Indices: 639780--639879 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 30
639770 CCCGAAAGAC
* * * * *
639780 CTATCCAGAGGTCATAAAGATCCTCGATAA
1 CTATCCATAGGTCACAAAGAACCTAGGTAA
* * * *
639810 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCACAAAGAACCTAGGTAA
* *
639840 CTATCCATAGGTCCCGAAGAACCTAGGTAAA
1 CTATCCATAGGTCACAAAGAACCTAGGT-AA
*
639871 CTGTCCATA
1 CTATCCATA
639880 TATTCTTTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
30 51 0.84
31 10 0.16
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (30 bp):
CTATCCATAGGTCACAAAGAACCTAGGTAA
Found at i:644576 original size:30 final size:30
Alignment explanation
Indices: 644542--644614 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
644532 CCCGAAGGAC
644542 CTATCCAGAGGTCATAAAGATCCTCGATAA
1 CTATCCAGAGGTCATAAAGATCCTCGATAA
*
644572 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGATAA
* *
644602 CTGTCCATAGGTC
1 CTATCCAGAGGTC
644615 CCGAAGAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGATAA
Found at i:644638 original size:31 final size:31
Alignment explanation
Indices: 644600--644664 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
644590 GATCCTCGGT
*
644600 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAGAACATAGGTA
* * **
644631 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATAGGTCCCGAAGAACATAGGTA
644662 AAC
1 AAC
644665 CCTCGACTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAGAACATAGGTA
Found at i:657218 original size:6 final size:6
Alignment explanation
Indices: 657209--657238 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
657199 TACGAGTACA
657209 AACACG AACACG AACACG AACACG AACACG
1 AACACG AACACG AACACG AACACG AACACG
657239 TAGAAAGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.33, G:0.17, T:0.00
Consensus pattern (6 bp):
AACACG
Found at i:662773 original size:3 final size:3
Alignment explanation
Indices: 662765--662828 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
662755 CAAAAATTTG
* **
662765 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TAA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
662809 TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA
662829 CAAAAAAAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 5 0.10
3 43 0.84
4 3 0.06
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:662820 original size:32 final size:32
Alignment explanation
Indices: 662767--662829 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
662757 AAAATTTGTA
*
662767 ATAATAAATAATAATAAAATAATAAGATAACG
1 ATAATAAATAATAATAAAATAATAAAATAACG
662799 ATAAT-AATAATAATAATAATAATAAAATAAC
1 ATAATAAATAATAATAA-AATAATAAAATAAC
662830 AAAAAAAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (32 bp):
ATAATAAATAATAATAAAATAATAAAATAACG
Found at i:663048 original size:43 final size:44
Alignment explanation
Indices: 662979--663448 Score: 228
Period size: 40 Copynumber: 10.9 Consensus size: 44
662969 TTTGTTGGTG
* * ** *
662979 GGGACGACACTGCTCATACGCAATGAAGAGGTCTGGTCATCTAA
1 GGGATGACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAA
* * * * **
663023 GGG-CGACACGGCTCCTACGTGATGAAAAAATCTGG---TC-GG
1 GGGATGACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAA
* * **
663062 GGGATGACACGGCTCATACGTGACGAAGAGTTCTGG---TC-GG
1 GGGATGACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAA
*
663102 GGGATGACACGGCTCATACGTGATGAAGAGTTCTGGTCATCTTTAGGAA
1 GGGATGACACGGCTCATACGTGATGAAGAGATCTGGTCATC--T---AA
* * * * * *
663151 GGG-TGATAACTAGGTTCCTACGTGATGAGGACG-GCTGGTTATCT-A
1 GGGATGA-CAC--GGCTCATACGTGATGAAGA-GATCTGGTCATCTAA
* * * * * * *
663196 GGGGTGACCCGGTTCCTACGTGATGAGGAAATCTGG---TC-AG
1 GGGATGACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAA
* *
663236 GGGATGACACGGCTCATACGTGATGAAGAGGTCTGGCCATCTAAA
1 GGGATGACACGGCTCATACGTGATGAAGAGATCTGGTCATCT-AA
* * * * * *
663281 GGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTAA
1 GG-GATGACACGGCTCATACGTGATGAAGA-GATCTGGTCATCTAA
* * * * * *
663326 GGG-TGACCCGGTTCTTACGTGATGAGGAAATCTGG---TC-AG
1 GGGATGACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAA
* *
663365 GGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAA
1 GGGATGACACGGCTCATACGTGATGAAGAGATCTGGTCATCT-AA
* * *
663410 GGTGATAACACGGCTCCTACGTGATGAGGAGATCTGGTC
1 GG-GATGACACGGCTCATACGTGATGAAGAGATCTGGTC
663449 TGGGGATGAC
Statistics
Matches: 332, Mismatches: 62, Indels: 62
0.73 0.14 0.14
Matches are distributed among these distances:
39 7 0.02
40 126 0.38
43 80 0.24
44 4 0.01
45 15 0.05
46 65 0.20
47 1 0.00
48 3 0.01
49 6 0.02
51 24 0.07
52 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (44 bp):
GGGATGACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAA
Found at i:663446 original size:46 final size:45
Alignment explanation
Indices: 663242--663446 Score: 174
Period size: 46 Copynumber: 4.7 Consensus size: 45
663232 TCAGGGGATG
* *
663242 ACACGGCTCATACGTGATGAAGAGGTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCATACGTGATGAGGAGATCTGGCCATCT-AAGGTGATA
* * * ** *
663288 ACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTAAGG-G-TG
1 ACACGGCTCATACGTGATGAGGA-GATCTGGCCATCTAAGGTGATA
* * * * * *
663331 ACCCGGTTCTTACGTGATGAGGAAATCTGG---TC--AGGGGATG
1 ACACGGCTCATACGTGATGAGGAGATCTGGCCATCTAAGGTGATA
* *
663371 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCATACGTGATGAGGAGATCTGGCCATCT-AAGGTGATA
*
663417 ACACGGCTCCTACGTGATGAGGAGATCTGG
1 ACACGGCTCATACGTGATGAGGAGATCTGG
663447 TCTGGGGATG
Statistics
Matches: 127, Mismatches: 22, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
38 3 0.02
39 1 0.01
40 28 0.22
43 28 0.22
44 1 0.01
45 4 0.03
46 61 0.48
47 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
ACACGGCTCATACGTGATGAGGAGATCTGGCCATCTAAGGTGATA
Found at i:663447 original size:129 final size:129
Alignment explanation
Indices: 663093--663439 Score: 579
Period size: 129 Copynumber: 2.7 Consensus size: 129
663083 GACGAAGAGT
* *
663093 TCTGGTCGGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGTCATCTTTAGGAAGGGTGAT
1 TCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATC--TA--AA-GGTGAT
*
663158 AACTA-GGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGGTGACCCGGTTCCTACGTGATGA
61 AAC-ACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACCCGGTTCCTACGTGATGA
663222 GGAAA
125 GGAAA
*
663227 TCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGAGGTCTGGCCATCTAAAGGTGATAACAC
1 TCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
*
663292 GGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACCCGGTTCTTACGTGATGAGGAAA
66 GGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACCCGGTTCCTACGTGATGAGGAAA
663356 TCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
1 TCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
*
663421 GGCTCCTACGTGATGAGGA
66 GGTTCCTACGTGATGAGGA
663440 GATCTGGTCT
Statistics
Matches: 205, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
128 1 0.00
129 153 0.75
130 2 0.01
132 2 0.01
134 47 0.23
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (129 bp):
TCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
GGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACCCGGTTCCTACGTGATGAGGAAA
Found at i:663455 original size:86 final size:85
Alignment explanation
Indices: 663068--663479 Score: 270
Period size: 86 Copynumber: 4.7 Consensus size: 85
663058 TCGGGGGATG
* * * * * *
663068 ACACGGCTCATACGTGACGAAGAGTTCTGGTCGGGGGATGACACGGCTCATACGTGATGAAGAGT
1 ACACGGCTCATACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTACGTGATGAAGAGT
663133 TCTGGTCATCTTTAGGAAGGGTGATA
66 TCTGGTCATC--T---AA-GGTGATA
* * * *
663159 ACTA-GGTTCCTACGTGATGAGGACG-GCTGGTTATCTAGGGG-TGACCCGGTTCCTACGTGATG
1 AC-ACGGCTCATACGTGATGAGGA-GATCTGG---TCT-GGGGATGACACGGTTCCTACGTGATG
* ** * *
663221 AGGAAATCTGG---TC--AGGGGATG
60 AAGAGTTCTGGTCATCTAAGGTGATA
* * * *
663242 ACACGGCTCATACGTGATGAAGAGGTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATG
1 ACACGGCTCATACGTGATGAGGAGATCTGG---TCT---GGGGATGACACGGTTCCTACGTGATG
* * * *
663307 AGGACG-GCTGGTTATCTAAGG-G-TG
60 AAGA-GTTCTGGTCATCTAAGGTGATA
* * * * * * *
663331 ACCCGGTTCTTACGTGATGAGGAAATCTGGTCAGGGGATGACACGGCTCATACGTGATGAAGAGT
1 ACACGGCTCATACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTACGTGATGAAGAGT
*
663396 TCTGGCCATCTAAAGGTGATA
66 TCTGGTCATCT-AAGGTGATA
* *
663417 ACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGAAGA
1 ACACGGCTCATACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTACGTGATGAAGA
663480 CGGATGGCCA
Statistics
Matches: 251, Mismatches: 49, Indels: 47
0.72 0.14 0.14
Matches are distributed among these distances:
82 3 0.01
83 64 0.25
84 5 0.02
85 5 0.02
86 85 0.34
89 28 0.11
90 1 0.00
91 26 0.10
92 2 0.01
94 28 0.11
95 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.24
Consensus pattern (85 bp):
ACACGGCTCATACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTACGTGATGAAGAGT
TCTGGTCATCTAAGGTGATA
Found at i:663545 original size:28 final size:28
Alignment explanation
Indices: 663505--663567 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
663495 AGGAGTTATG
* *
663505 GTTTCAAGAGAAACCA-AATTAAAGATTT
1 GTTTCAAAAGAAA-CAGAATCAAAGATTT
*
663533 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGAATCAAAGATTT
663561 GTTTCAA
1 GTTTCAA
663568 GAAAACAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGAATCAAAGATTT
Found at i:663596 original size:30 final size:28
Alignment explanation
Indices: 663525--663600 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 28
663515 AAACCAAATT
663525 AAAGATTTGTTTCAAAAGAAACAGACTC
1 AAAGATTTGTTTCAAAAGAAACAGACTC
*
663553 AAAGATTTGTTTCAAGA-AAACA-AGCTC
1 AAAGATTTGTTTCAAAAGAAACAGA-CTC
663580 AAAGATAATGTGTTTCAAAAG
1 AAAGAT--T-TGTTTCAAAAG
663601 CAACTGTCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 1 0.02
27 14 0.34
28 16 0.39
29 1 0.02
30 9 0.22
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAGACTC
Found at i:663791 original size:66 final size:65
Alignment explanation
Indices: 663602--663791 Score: 154
Period size: 66 Copynumber: 2.9 Consensus size: 65
663592 TTTCAAAAGC
** ** *
663602 AACTGTCTCGAAAGAGACAAAATTCATTTCAAATGAAAC-AACTCAAAAGATG-ACGTTTAAAGG
1 AACTGTCTC-AAAGAGACAAAATTCATTTCAAGGGAAACGATTTC-AAAGATGTATGTTTAAAGG
663665 GA
64 GA
* * ** * * * * * *
663667 AATTGTCTCAAGCGAGACAAAATTTGTTTTTAAGGG-AACG-TTCTCAAATATCTGTGTTTCATG
1 AACTGTCTCAA-AGAGACAAAA-TTCATTTCAAGGGAAACGATT-TCAAAGATGTATGTTTAAAG
663730 GGA
63 GGA
*
663733 AACTGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATTTCAAAGATGTTTGTTT
1 AACTGTCTCAAA-GAGACAAAATTCATTTCAAGGGAAACGATTTCAAAGATGTATGTTT
663792 TGTTTCATGG
Statistics
Matches: 94, Mismatches: 23, Indels: 15
0.71 0.17 0.11
Matches are distributed among these distances:
64 2 0.02
65 35 0.37
66 55 0.59
67 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (65 bp):
AACTGTCTCAAAGAGACAAAATTCATTTCAAGGGAAACGATTTCAAAGATGTATGTTTAAAGGGA
Found at i:664245 original size:40 final size:40
Alignment explanation
Indices: 664201--664280 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
664191 GTTTTAATAG
664201 AAACGATCTCAAAGGTGGGTAGTTTT-AAAAGAAATTGTCT
1 AAACGATCTCAAAGGTGGGTA-TTTTCAAAAGAAATTGTCT
* *
664241 AAACGATCTCAAATGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAATTGTCT
664281 CGAGAGACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 4 0.11
40 33 0.89
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (40 bp):
AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAATTGTCT
Found at i:664361 original size:66 final size:65
Alignment explanation
Indices: 664262--664388 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 65
664252 AATGTGGGTA
* * *
664262 TTTTCAAAAGAAGTTGTCTCGAGAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTT
1 TTTTCAAAAGAAATTGTCTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTTTT
* * *
664327 TTTTCAAAAGAAATTGTCTTTAAGAGATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGAT
1 TTTTCAAAAGAAATTGTC-TCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGAT
664389 GGATCACATC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
65 17 0.31
66 38 0.69
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (65 bp):
TTTTCAAAAGAAATTGTCTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTTTT
Found at i:664438 original size:120 final size:121
Alignment explanation
Indices: 664284--664509 Score: 280
Period size: 120 Copynumber: 1.9 Consensus size: 121
664274 GTTGTCTCGA
** * *
664284 GAGACAAAATTTTGTTTCAAAGGAAACAAACTC-AAAGATTTTTTTTTCAAAAGAAATTGTCTTT
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAAG-TTAGTTTTTCAAAAGAAACTGTC-TC
*
664348 AAGAGATA-AA-ATTTTGTTTCAAAAGAAACAGACTCAAAGATGGATCACATCTTAAGT
64 AAGAGAGACAACA-TTTGTTTCAAAAGAAACAGACTCAAAGATGGATCACATCTTAAGT
* * * **
664405 GAGACCAAA-TTTGTTTCAAATGAAACAATCTCAAAAGTTAGTTTTTCATTAGAAACTGTCTCAA
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAAGTTAGTTTTTCAAAAGAAACTGTCTCAA
** *
664469 GAGAGACAACATTTGTTTTTAAAGAAATAGACTCAAAGATG
66 GAGAGACAACATTTGTTTCAAAAGAAACAGACTCAAAGATG
664510 ATTTTGTTAA
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
119 8 0.09
120 68 0.76
121 13 0.15
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (121 bp):
GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAAGTTAGTTTTTCAAAAGAAACTGTCTCAA
GAGAGACAACATTTGTTTCAAAAGAAACAGACTCAAAGATGGATCACATCTTAAGT
Found at i:664677 original size:37 final size:36
Alignment explanation
Indices: 664621--664747 Score: 106
Period size: 37 Copynumber: 3.6 Consensus size: 36
664611 GAAACAGATT
*
664621 CAAAGATTTT-TTTCAAAAGAAATTATCTTAAGATAGA
1 CAAA-ATTTTGTTTCAAAAGAAACTATCTTAAGA-AGA
* * * *
664658 CAAAATTTTGTTTCCAAAGAAACAAAC-TCA-AAG-
1 CAAAATTTTGTTTCAAAAGAAACTATCTTAAGAAGA
* *
664691 ---ATTTTTGTTTTAAAAGAAACTATCTTAAGAGAGA
1 CAAAATTTTGTTTCAAAAGAAACTATCTTAAGA-AGA
*
664725 CAAAATTTTGTTTCCAAAGAAAC
1 CAAAATTTTGTTTCAAAAGAAAC
664748 AAACTCAAAG
Statistics
Matches: 68, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
30 19 0.28
31 2 0.03
32 1 0.01
33 2 0.03
34 2 0.03
35 1 0.01
36 7 0.10
37 34 0.50
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (36 bp):
CAAAATTTTGTTTCAAAAGAAACTATCTTAAGAAGA
Found at i:664726 original size:67 final size:66
Alignment explanation
Indices: 664568--664779 Score: 256
Period size: 67 Copynumber: 3.3 Consensus size: 66
664558 AAAGATTTAC
* * * * * * *
664568 TTCAAGAGAAACTGTCTCAAGAGATACAAAATTCAT-TTT--AAGAGAAACAGATTCAAAGA-TT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATT-TTGTTTCCAA-AGAAACAAACTCAAAGATTT
664629 TTT
64 TTT
* *
664632 TTCAAAAGAAATTATCTTAAGATAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
664697 GT
66 -T
*
664699 TTTAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGA--TTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
664762 T
66 T
*
664763 TTCAAAAGAAACAATCT
1 TTCAAAAGAAACTATCT
664780 CAAAGATTTT
Statistics
Matches: 129, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
63 1 0.01
64 46 0.36
65 18 0.14
66 6 0.05
67 58 0.45
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (66 bp):
TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
T
Found at i:664789 original size:26 final size:27
Alignment explanation
Indices: 664735--664791 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
664725 CAAAATTTTG
*
664735 TTTCCAAAGAAACAAACTCAAAGATTT
1 TTTCAAAAGAAACAAACTCAAAGATTT
*
664762 TTTCAAAAGAAACAATCTCAAAGATTT
1 TTTCAAAAGAAACAAACTCAAAGATTT
664789 TTT
1 TTT
664792 TTCACAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTCAAAAGAAACAAACTCAAAGATTT
Found at i:664989 original size:56 final size:54
Alignment explanation
Indices: 664893--665106 Score: 279
Period size: 56 Copynumber: 3.9 Consensus size: 54
664883 CAATAAATAG
* *
664893 ACTCAAAGA-TTTTTCAAAAGAAAC-AACTCAAAGATATTTTTCAAAAGGAACAA
1 ACTCAAAGATTTTTTCAAGAGAAACAAACTCAAAGAT-TTTTTCAAGAGGAACAA
* * * *
664946 ACTCCAAGATTTTTATTCAAAAGGAGCAAACTCAAAGATTTTTTCAAGAGGAACAA
1 ACTCAAAGA-TTTT-TTCAAGAGAAACAAACTCAAAGATTTTTTCAAGAGGAACAA
* * *
665002 ACTCAAAGATTTTTTCCAGAGAAACAAACTCAAAGATTTTTTTTCAAGAGAAACTA
1 ACTCAAAGATTTTTTCAAGAGAAACAAACTCAAAGA--TTTTTTCAAGAGGAACAA
665058 ACTCAAAGATTTTTTCAAGAGAAACAAACTCAAAGATTTTTTTCAAGAG
1 ACTCAAAGATTTTTTCAAGAGAAACAAACTCAAAGA-TTTTTTCAAGAG
665107 AAACTGTCTC
Statistics
Matches: 143, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
53 8 0.06
54 19 0.13
55 20 0.14
56 85 0.59
57 11 0.08
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (54 bp):
ACTCAAAGATTTTTTCAAGAGAAACAAACTCAAAGATTTTTTCAAGAGGAACAA
Found at i:665031 original size:83 final size:83
Alignment explanation
Indices: 664893--665110 Score: 305
Period size: 83 Copynumber: 2.6 Consensus size: 83
664883 CAATAAATAG
* * * *
664893 ACTCAAAGA-TTTTTCAAAAGAAAC-AACTCAAAGATATTTTTCAAAAGGAACAAACTCCAAGAT
1 ACTCAAAGATTTTTTCAAGAGAAACAAACTCAAAGAT-TTTTTCAAGAGAAACAAACTCAAAGAT
* *
664956 TTTTATTCAAAAGGAGCAA
65 TTTTATTCAAAAGAAACAA
* *
664975 ACTCAAAGATTTTTTCAAGAGGAACAAACTCAAAGATTTTTTCCAGAGAAACAAACTCAAAGATT
1 ACTCAAAGATTTTTTCAAGAGAAACAAACTCAAAGATTTTTTCAAGAGAAACAAACTCAAAGATT
* * *
665040 TTTTTTCAAGAGAAACTA
66 TTTATTCAAAAGAAACAA
665058 ACTCAAAGATTTTTTCAAGAGAAACAAACTCAAAGATTTTTTTCAAGAGAAAC
1 ACTCAAAGATTTTTTCAAGAGAAACAAACTCAAAGA-TTTTTTCAAGAGAAAC
665111 TGTCTCAAGA
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
82 9 0.08
83 85 0.71
84 26 0.22
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (83 bp):
ACTCAAAGATTTTTTCAAGAGAAACAAACTCAAAGATTTTTTCAAGAGAAACAAACTCAAAGATT
TTTATTCAAAAGAAACAA
Found at i:665120 original size:27 final size:27
Alignment explanation
Indices: 664893--665110 Score: 278
Period size: 27 Copynumber: 7.9 Consensus size: 27
664883 CAATAAATAG
*
664893 ACTCAAAGA-TTTTTCAAAAGAAAC-A
1 ACTCAAAGATTTTTTCAAGAGAAACAA
* *
664918 ACTCAAAGATATTTTTCAAAAGGAACAA
1 ACTCAAAGAT-TTTTTCAAGAGAAACAA
* * * *
664946 ACTCCAAGATTTTTATTCAAAAGGAGCAA
1 ACTCAAAGA-TTTT-TTCAAGAGAAACAA
*
664975 ACTCAAAGATTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTCAAGAGAAACAA
*
665002 ACTCAAAGATTTTTTCCAGAGAAACAA
1 ACTCAAAGATTTTTTCAAGAGAAACAA
*
665029 ACTCAAAGATTTTTTTTCAAGAGAAACTA
1 ACTCAAAGA--TTTTTTCAAGAGAAACAA
665058 ACTCAAAGATTTTTTCAAGAGAAACAA
1 ACTCAAAGATTTTTTCAAGAGAAACAA
665085 ACTCAAAGATTTTTTTCAAGAGAAAC
1 ACTCAAAGA-TTTTTTCAAGAGAAAC
665111 TGTCTCAAGA
Statistics
Matches: 174, Mismatches: 11, Indels: 13
0.88 0.06 0.07
Matches are distributed among these distances:
25 9 0.05
27 86 0.49
28 32 0.18
29 47 0.27
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (27 bp):
ACTCAAAGATTTTTTCAAGAGAAACAA
Found at i:665401 original size:34 final size:36
Alignment explanation
Indices: 665354--665445 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 36
665344 AGAAAATGAT
*
665354 GTCTCAAGCGAGACAAAATTTG-CTTTA-AGATATA
1 GTCTCAAGCGAGACAAAATTTGTCTTTAGAGAAATA
** * *
665388 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAATTTGTCTTTAGAGAAATA
*
665424 GTCTCAAGCGAGACAAAGTTTG
1 GTCTCAAGCGAGACAAAATTTG
665446 AGAAAACGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 20 0.42
35 4 0.08
36 24 0.50
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTCTTTAGAGAAATA
Found at i:665575 original size:36 final size:35
Alignment explanation
Indices: 665535--665652 Score: 148
Period size: 36 Copynumber: 3.3 Consensus size: 35
665525 AGTGAGGCGG
665535 AATTTGTTTTTCAAGAAATTGTCTCAAACGAGACAA
1 AATTTGTTTTT-AAGAAATTGTCTCAAACGAGACAA
* *
665571 AATTTGTTTTT-AGAAAGCTGTCTCAATCGAGACAA
1 AATTTGTTTTTAAGAAA-TTGTCTCAAACGAGACAA
** *
665606 AATTTGCTTTGAAAGAAATTGTCTCAAGCGAGACAAA
1 AATTTG-TTTTTAAGAAATTGTCTCAAACGAGAC-AA
665643 AATTTGTTTT
1 AATTTGTTTT
665653 AAAATTCTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
34 5 0.07
35 22 0.31
36 31 0.44
37 13 0.18
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (35 bp):
AATTTGTTTTTAAGAAATTGTCTCAAACGAGACAA
Found at i:666209 original size:4 final size:4
Alignment explanation
Indices: 666200--666246 Score: 80
Period size: 4 Copynumber: 12.2 Consensus size: 4
666190 TTTATGTATC
666200 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
666246 A
1 A
666247 CTTTTCTCGA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
4 39 0.95
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:667465 original size:17 final size:17
Alignment explanation
Indices: 667422--667473 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
667412 ACTTTCTGTT
* *
667422 CTTTTTTTTTCACTTTG
1 CTTTTCTTTTCTCTTTG
667439 --TTTC-TTTCTCTTTG
1 CTTTTCTTTTCTCTTTG
*
667453 CTTTTCTTTTCTCTTCG
1 CTTTTCTTTTCTCTTTG
667470 CTTT
1 CTTT
667474 AATATGATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 9 0.31
15 3 0.10
16 4 0.14
17 13 0.45
ACGTcount: A:0.02, C:0.23, G:0.06, T:0.69
Consensus pattern (17 bp):
CTTTTCTTTTCTCTTTG
Found at i:670586 original size:31 final size:32
Alignment explanation
Indices: 670530--670591 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
670520 TGACAAAATG
670530 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
670562 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
670592 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:674455 original size:3 final size:3
Alignment explanation
Indices: 674447--674507 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
674437 CAAAAATTTG
* **
674447 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TAA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
674491 TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA
674508 CGAAAAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 5 0.10
3 40 0.83
4 3 0.06
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:679535 original size:37 final size:37
Alignment explanation
Indices: 679478--679577 Score: 137
Period size: 37 Copynumber: 2.7 Consensus size: 37
679468 CTTTTCGTCC
* * *
679478 TACTAGAATTCAAACTCCTAAAAATATGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
* *
679515 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTA
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
* *
679552 TACTATGATTTAAACTCCTAAAAATA
1 TACTAGGATTCAAACTCCTAAAAATA
679578 AGATCCACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
Found at i:680132 original size:19 final size:19
Alignment explanation
Indices: 680049--680141 Score: 57
Period size: 19 Copynumber: 4.6 Consensus size: 19
680039 TTTTTTTACA
680049 TTATATAT-TA-TTATTAT
1 TTATATATATATTTATTAT
*
680066 ATATACATATATATTT-TTAT
1 -T-TATATATATATTTATTAT
* *
680086 TTATTTATATTCATTTGGTTATT
1 TTATATATA-T-ATTT-ATTA-T
*
680109 TTTTAATACTATATTTATTAT
1 TTAT-ATA-TATATTTATTAT
680130 TTATATATATAT
1 TTATATATATAT
680142 ATATATACTT
Statistics
Matches: 58, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
18 7 0.12
19 13 0.22
20 13 0.22
21 6 0.10
22 6 0.10
23 8 0.14
24 3 0.05
25 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (19 bp):
TTATATATATATTTATTAT
Found at i:680521 original size:16 final size:16
Alignment explanation
Indices: 680445--680525 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 16
680435 TATATTAATA
*
680445 TTTCATTTATTTATTT
1 TTTCATTTATTCATTT
* * *
680461 ATTCCTTTATTCCTTT
1 TTTCATTTATTCATTT
**
680477 ATTTTTTTTACTT-A-TT
1 -TTTCATTTA-TTCATTT
*
680493 TTT-A-TTCTTCATTT
1 TTTCATTTATTCATTT
680507 TTTCATTTATTCATTT
1 TTTCATTTATTCATTT
680523 TTT
1 TTT
680526 TCCCTCTAAC
Statistics
Matches: 48, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
12 2 0.04
13 3 0.06
14 5 0.10
15 4 0.08
16 26 0.54
17 6 0.12
18 2 0.04
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTCATTTATTCATTT
Found at i:685002 original size:18 final size:16
Alignment explanation
Indices: 684972--685016 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
684962 AGAAATGAAG
684972 CAAAAGAAGAAGAAAAAA
1 CAAAAGAA-AAG-AAAAA
*
684990 CAAAGAGAAAAGAGAAA
1 CAAA-AGAAAAGAAAAA
685007 CAAAAGAAAA
1 CAAAAGAAAA
685017 AAAGAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 6 0.24
17 8 0.32
18 7 0.28
19 4 0.16
ACGTcount: A:0.76, C:0.07, G:0.18, T:0.00
Consensus pattern (16 bp):
CAAAAGAAAAGAAAAA
Found at i:685005 original size:20 final size:19
Alignment explanation
Indices: 684981--685045 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
684971 GCAAAAGAAG
*
684981 AAGAAAAAACAAAG-AGAA
1 AAGAAAAAACAAAGAAAAA
*
684999 AAG-AGAAACAAAAGAAAAA
1 AAGAAAAAAC-AAAGAAAAA
* *
685018 AAGAAAGAACAAAAATAAAA
1 AAGAAAAAACAAAGA-AAAA
685038 AAGAAAAA
1 AAGAAAAA
685046 GGGACAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.14
18 7 0.19
19 10 0.27
20 15 0.41
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.02
Consensus pattern (19 bp):
AAGAAAAAACAAAGAAAAA
Found at i:685017 original size:17 final size:17
Alignment explanation
Indices: 684972--685023 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
684962 AGAAATGAAG
*
684972 CAAAAGAAGAAGA-AAA
1 CAAAAGAAAAAGAGAAA
*
684988 AACAAAGAGAAAAGAGAAA
1 CA-AAAGA-AAAAGAGAAA
*
685007 CAAAAGAAAAAAAGAAA
1 CAAAAGAAAAAGAGAAA
685024 GAACAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 1 0.03
17 14 0.48
18 10 0.34
19 4 0.14
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (17 bp):
CAAAAGAAAAAGAGAAA
Found at i:686733 original size:106 final size:106
Alignment explanation
Indices: 686603--687870 Score: 1827
Period size: 106 Copynumber: 12.0 Consensus size: 106
686593 ATATCGTGCC
* * * * *
686603 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGCCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
686668 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
686709 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
686774 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
686815 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * *
686880 AATTTCAGAGCCAAATTCAACTTTACAGCGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
686921 ACTCCAGACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
686986 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
687027 AATCAAGACAACACAAGTTCAATTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * *
687091 AATTTCAGAGCTAGTTTCAACTTCGCAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
687132 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * *
687197 AATTTCAGAGCCAAATTCAACTTTACAGCGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
687238 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTGTCAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
687303 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
687344 AATCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * *
687408 AATTTCAGAGCCAGTTTCAACTTCGCAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
687449 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
687514 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
687555 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACAGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
687620 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * ** * *
687661 ACTCAAGATAACACAAGCCCAACTTCACGACGAAGGG-GCGACTGATTGTCAAC-AA-AATTT--
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAATTTCC
*
687721 C-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
687761 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
** * *
687826 GGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
687867 ACTC
1 ACTC
687871 GGAACAATGC
Statistics
Matches: 1042, Mismatches: 109, Indels: 22
0.89 0.09 0.02
Matches are distributed among these distances:
100 78 0.07
101 4 0.00
102 6 0.01
104 4 0.00
105 189 0.18
106 761 0.73
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:687212 original size:317 final size:317
Alignment explanation
Indices: 686603--687870 Score: 1963
Period size: 317 Copynumber: 4.0 Consensus size: 317
686593 ATATCGTGCC
* * * *
686603 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGCCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
686668 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAATCAAGACAACACAAGTTCAACT
* * *
686733 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTC
131 TCACAACGAAGGGACGGCTGGTTGTCAA-CAACAATTTCCCAATTTCAGAGCCAATTTCAACTTC
686798 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
195 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
*
686863 TCAATAAATAATTTCCCAATTTCAGAGCCAAATTCAACTTTACAGCGAAGAATATTGG
260 TCAATAAATAATTTCCCAATTTCAGAGCCAAATTCAACTTCACAGCGAAGAATATTGG
* *
686921 ACTCCAGACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
686986 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGAATCAAGACAACACAAGTTCAATT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAATCAAGACAACACAAGTTCAACT
* * *
687051 TCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCTAGTTTCAACTTCG
131 TCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCA
687116 CAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
196 CAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
*
687181 CAATAAATAATTTCCCAATTTCAGAGCCAAATTCAACTTTACAGCGAAGAATATTGG
261 CAATAAATAATTTCCCAATTTCAGAGCCAAATTCAACTTCACAGCGAAGAATATTGG
* * *
687238 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTGTCAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
687303 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGAAATCAAGACAACACAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAATCAAGACAACACAAGTTCAACT
* *
687368 TCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAGTTTCAACTTCG
131 TCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCA
* *
687433 CAGTGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
196 CAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * *
687498 CAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
261 CAATAAATAATTTCCCAATTTCAGAGCCAAATTCAACTTCACAGCGAAGAATATTGG
* *
687555 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACAGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * **
687620 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGGACTCAAGATAACACAAGCCCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAATCAAGACAACACAAGTTCAACT
* * * * *
687685 TCACGACGAAGGGGCGACTGATTGTCAACAA-AATTT--C-A-TTCAGAGTCAATTTCAACTTCA
131 TCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCA
* * * *
687745 CAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGT
196 CAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* *** * * * *
687810 CAACAAATAATTTCCTGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
261 CAATAAATAATTTCCCAATTTCAGAGCCAAATTCAACTTCACAG-CGAAGAATATTGG
687867 ACTC
1 ACTC
687871 GGAACAATGC
Statistics
Matches: 889, Mismatches: 60, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
311 1 0.00
312 130 0.15
313 1 0.00
314 1 0.00
316 5 0.01
317 607 0.68
318 144 0.16
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (317 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAATCAAGACAACACAAGTTCAACT
TCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCA
CAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
CAATAAATAATTTCCCAATTTCAGAGCCAAATTCAACTTCACAGCGAAGAATATTGG
Found at i:687509 original size:423 final size:421
Alignment explanation
Indices: 686603--687870 Score: 1888
Period size: 423 Copynumber: 3.0 Consensus size: 421
686593 ATATCGTGCC
* * *
686603 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGCCAACAAACAACTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAA-AAACAATTTCCC
*
686668 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
*
686733 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTC
130 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTT
*
686798 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
195 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTG
* * * * *
686863 TCAATAAATAATTTCCCAATTTCAGAGCCAAATTCAACTTTACAGCGAAGAATATTGGACTCCAG
260 TCAATAAA-AA-TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAG
* * * * * *
686928 ACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCA
323 ACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCA
686993 GAGCCAATTTCAACTTCACAGTGAAGGATATTGG
388 GAGCCAATTTCAACTTCACAGTGAAGGATATTGG
* * * *
687027 AATCAAGACAACACAAGTTCAATTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCA
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAAAAACAATTTCCCA
* * *
687092 ATTTCAGAGCTAGTTTCAACTTCGCAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* *
687157 CACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGCCAAATTCAACTTTA
131 CACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTTA
*
687222 CAGCGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTGT
196 CAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTGT
* * *
687287 CAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGAAATCAAGA
261 CAATAAA-AA-TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGA
687352 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAG
324 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
* *
687416 AGCCAGTTTCAACTTCGCAGTGAAGGATATTGG
389 AGCCAATTTCAACTTCACAGTGAAGGATATTGG
* ** *
687449 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAA-AAACAATTTCCC
687514 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* *
687579 TCACGACGAAGGGACAGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
130 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTT-
* * * * ** ** *
687644 T-CAGCGAAGGATCTTGGACTCAAGATAACACAAGCCCAACTTCACGACG-AAGGGGCGACTGAT
194 TACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCG-CTGGT
* * *
687707 TGTCAA-CAAAATT-TC-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAG
258 TGTCAATAAAAATTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAG
* *** *
687768 ACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCTGGTTCCA
323 ACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCA
687833 GAGCCAATTTCAACTTCACGACG-G-AGGATATTGG
388 GAGCCAATTTCAACTTCAC-A-GTGAAGGATATTGG
687867 ACTC
1 ACTC
687871 GGAACAATGC
Statistics
Matches: 766, Mismatches: 72, Indels: 18
0.89 0.08 0.02
Matches are distributed among these distances:
417 86 0.11
418 45 0.06
419 4 0.01
420 3 0.00
421 2 0.00
422 101 0.13
423 477 0.62
424 48 0.06
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (421 bp):
ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAAAAACAATTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
CACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTTA
CAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTGT
CAATAAAAATTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACA
ACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAG
CCAATTTCAACTTCACAGTGAAGGATATTGG
Found at i:688627 original size:37 final size:37
Alignment explanation
Indices: 688567--688673 Score: 124
Period size: 37 Copynumber: 2.9 Consensus size: 37
688557 CACCTTTTCG
* *
688567 TTCTACTAGAATTCAAGCTCCTAAAAATAGGATAGAA
1 TTCTACTAGGATTCAAACTCCTAAAAATAGGATAGAA
* * * *
688604 TTTTGCTAGGATTCAAACTCCTAAAAATAAGATAGAG
1 TTCTACTAGGATTCAAACTCCTAAAAATAGGATAGAA
* * * *
688641 TTCTACTATGATTTAAACTCCCAAAGATAGGAT
1 TTCTACTAGGATTCAAACTCCTAAAAATAGGAT
688674 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (37 bp):
TTCTACTAGGATTCAAACTCCTAAAAATAGGATAGAA
Found at i:689558 original size:12 final size:13
Alignment explanation
Indices: 689537--689615 Score: 51
Period size: 12 Copynumber: 6.4 Consensus size: 13
689527 TATATATTAA
689537 TATTTCATTTATT
1 TATTTCATTTATT
689550 TATTT-ATTTATT
1 TATTTCATTTATT
* *
689562 T-TTCCTTTTATT
1 TATTTCATTTATT
* *
689574 T-TTTTACTTATT
1 TATTTCATTTATT
* *
689586 TTTATTC-TTCATT
1 TAT-TTCATTTATT
689599 T-TTTCATTTATT
1 TATTTCATTTATT
*
689611 CATTT
1 TATTT
689616 TTTCCCTCTA
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
11 5 0.10
12 29 0.58
13 14 0.28
14 2 0.04
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTCATTTATT
Found at i:689579 original size:24 final size:23
Alignment explanation
Indices: 689544--689610 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
689534 TAATATTTCA
* *
689544 TTTATTTATTTATTTATTTTTCCT
1 TTTATTTTTTTATTTATTTTT-AT
*
689568 TTTATTTTTTTACTTATTTTTAT
1 TTTATTTTTTTATTTATTTTTAT
*
689591 TCTTCATTTTTTCATTTATT
1 T-TT-ATTTTTTTATTTATT
689611 CATTTTTTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.06
24 21 0.58
25 13 0.36
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTATTTTTTTATTTATTTTTAT
Found at i:690880 original size:28 final size:28
Alignment explanation
Indices: 690848--690915 Score: 136
Period size: 28 Copynumber: 2.4 Consensus size: 28
690838 TAAACATGGA
690848 TATAAAATTTTATGTTGGGAGATAAATT
1 TATAAAATTTTATGTTGGGAGATAAATT
690876 TATAAAATTTTATGTTGGGAGATAAATT
1 TATAAAATTTTATGTTGGGAGATAAATT
690904 TATAAAATTTTA
1 TATAAAATTTTA
690916 AAGAACATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (28 bp):
TATAAAATTTTATGTTGGGAGATAAATT
Found at i:695142 original size:86 final size:86
Alignment explanation
Indices: 694997--695178 Score: 337
Period size: 86 Copynumber: 2.1 Consensus size: 86
694987 CATTGCAGCC
*
694997 TTCTGACAATTTAACATACAGCATCCAGTAGCAGCAAACACTTATAAGTTAGAACTGATAGAATA
1 TTCTGTCAATTTAACATACAGCATCCAGTAGCAGCAAACACTTATAAGTTAGAACTGATAGAATA
695062 TTAGGTGAACAGAATATTGTA
66 TTAGGTGAACAGAATATTGTA
* *
695083 TTCTGTCAATTTAACATACAGCATCCAGTCGTAGCAAACACTTATAAGTTAGAACTGATAGAATA
1 TTCTGTCAATTTAACATACAGCATCCAGTAGCAGCAAACACTTATAAGTTAGAACTGATAGAATA
695148 TTAGGTGAACAGAATATTGTA
66 TTAGGTGAACAGAATATTGTA
695169 TTCTGTCAAT
1 TTCTGTCAAT
695179 GTTTTGAATT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 93 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.30
Consensus pattern (86 bp):
TTCTGTCAATTTAACATACAGCATCCAGTAGCAGCAAACACTTATAAGTTAGAACTGATAGAATA
TTAGGTGAACAGAATATTGTA
Found at i:709292 original size:14 final size:14
Alignment explanation
Indices: 709275--709302 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
709265 GTTAAGGATT
709275 GATGGTGATGGAAA
1 GATGGTGATGGAAA
709289 GATGGTGATGGAAA
1 GATGGTGATGGAAA
709303 TAATATCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.43, T:0.21
Consensus pattern (14 bp):
GATGGTGATGGAAA
Found at i:709669 original size:20 final size:19
Alignment explanation
Indices: 709641--709681 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
709631 AACCCCTTTA
*
709641 AAAACACATGATTTTTAATG
1 AAAACACAT-AATTTTAATG
*
709661 AAAATACATAATTTTAATG
1 AAAACACATAATTTTAATG
709680 AA
1 AA
709682 GATAAATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.34
Consensus pattern (19 bp):
AAAACACATAATTTTAATG
Found at i:711164 original size:2 final size:2
Alignment explanation
Indices: 711157--711205 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
711147 TGGCGTGGAA
711157 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT -T 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
711197 AT A- AT AT AT
1 AT AT AT AT AT
711206 CTGGGTTGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:711178 original size:13 final size:13
Alignment explanation
Indices: 711160--711205 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
711150 CGTGGAAATA
711160 TATATATATATAT
1 TATATATATATAT
711173 TATATATATATA-
1 TATATATATATAT
711185 TATATTATATATAT
1 TATA-TATATATAT
*
711199 AATATAT
1 TATATAT
711206 CTGGGTTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 4 0.13
13 23 0.77
14 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATATATAT
Found at i:711179 original size:17 final size:17
Alignment explanation
Indices: 711157--711205 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
711147 TGGCGTGGAA
711157 ATATATATATATATATT
1 ATATATATATATATATT
711174 ATATATATATATATATT
1 ATATATATATATATATT
711191 ATATATATA-ATATAT
1 ATATATATATATATAT
711206 CTGGGTTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 6 0.19
17 26 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATATATATATATATT
Done.