Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 50 of 91
Found at i:8215860 original size:27 final size:28
Alignment explanation
Indices: 8215790--8215910 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 28
8215780 AATTCAGAAC
*
8215790 AGATAAATAAATAAATAAATAATAATAATAAT
1 AGATAAAT-AATAAA-AAAT-AT-ATATTAAT
*
8215822 AGATAAAT-ATAAAAAATATACATTAAT
1 AGATAAATAATAAAAAATATATATTAAT
8215849 AGA-AAATAATAAAAAATA-ATATTAAT
1 AGATAAATAATAAAAAATATATATTAAT
* * * *
8215875 GGATAACTAAT-AAATATATATATTATT
1 AGATAAATAATAAAAAATATATATTAAT
8215902 AGATAAATA
1 AGATAAATA
8215911 TATATATATA
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
26 19 0.25
27 39 0.51
28 2 0.03
29 4 0.05
30 5 0.06
32 8 0.10
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (28 bp):
AGATAAATAATAAAAAATATATATTAAT
Found at i:8215894 original size:53 final size:54
Alignment explanation
Indices: 8215796--8215910 Score: 135
Period size: 53 Copynumber: 2.1 Consensus size: 54
8215786 GAACAGATAA
*
8215796 ATAAATAAATAAATAATAATAATAATAGATAAATATAAAAAATATACATTAATAG
1 ATAAAT-AATAAAAAATAATAATAATAGATAAATATAAAAAATATACATTAATAG
* * * * * *
8215851 A-AAATAATAAAAAATAATATTAATGGATAACTA-ATAAATATATATATTATTAG
1 ATAAATAATAAAAAATAATAATAATAGATAAATATA-AAAAATATACATTAATAG
8215904 ATAAATA
1 ATAAATA
8215911 TATATATATA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
52 1 0.02
53 40 0.78
54 9 0.18
55 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (54 bp):
ATAAATAATAAAAAATAATAATAATAGATAAATATAAAAAATATACATTAATAG
Found at i:8215938 original size:15 final size:15
Alignment explanation
Indices: 8215918--8215951 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8215908 ATATATATAT
*
8215918 ATAATAAAATTAAAA
1 ATAATAAAACTAAAA
8215933 ATAATAAAACTAAAA
1 ATAATAAAACTAAAA
8215948 ATAA
1 ATAA
8215952 AATAGGCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAATAAAACTAAAA
Found at i:8221217 original size:20 final size:22
Alignment explanation
Indices: 8221173--8221217 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
8221163 ACATGACAGG
* *
8221173 GAGAGAAAAGAAAGAAGAAATA
1 GAGAGAAAAAAAAAAAGAAATA
8221195 GAGA-AAAAAAAAAAAGAAA-A
1 GAGAGAAAAAAAAAAAGAAATA
8221215 GAG
1 GAG
8221218 GAATGCAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 13 0.62
22 4 0.19
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (22 bp):
GAGAGAAAAAAAAAAAGAAATA
Found at i:8226689 original size:19 final size:20
Alignment explanation
Indices: 8226663--8226706 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
8226653 TATCCTATAT
*
8226663 ATATATATATATAAATTATTA
1 ATATATATATA-AAATAATTA
*
8226684 ATATATATTTAAAATAATTA
1 ATATATATATAAAATAATTA
8226704 ATA
1 ATA
8226707 AATTAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATATATAAAATAATTA
Found at i:8239474 original size:41 final size:41
Alignment explanation
Indices: 8239413--8239495 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
8239403 TTTACTTCAC
8239413 TTCTATGTGATGCATAGCTAACCATTGGTAAAATCTATGAT
1 TTCTATGTGATGCATAGCTAACCATTGGTAAAATCTATGAT
* * * *
8239454 TTCTATTTGATGCATGGCTAACCATTGGTAACATTTATGAT
1 TTCTATGTGATGCATAGCTAACCATTGGTAAAATCTATGAT
8239495 T
1 T
8239496 AAGCTTACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (41 bp):
TTCTATGTGATGCATAGCTAACCATTGGTAAAATCTATGAT
Found at i:8242099 original size:19 final size:20
Alignment explanation
Indices: 8242063--8242106 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
8242053 CAGCTTTAAC
*
8242063 TTTAGTTCTTTGACAGTTCT
1 TTTAGTTCTTTCACAGTTCT
8242083 TTTAGTTCTTTCA-AGTTCT
1 TTTAGTTCTTTCACAGTTCT
8242102 TTTAG
1 TTTAG
8242107 CACATCGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.57
Consensus pattern (20 bp):
TTTAGTTCTTTCACAGTTCT
Found at i:8244157 original size:27 final size:27
Alignment explanation
Indices: 8244127--8244192 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
8244117 CACATGGATA
8244127 AATAATCATTTAAA-TATCATATTA-ATT
1 AATAAT-ATTTAAATTAT-ATATTATATT
8244154 AATAA-ATTTATAATTATATATTATATT
1 AATAATATTTA-AATTATATATTATATT
8244181 AA-AATATTTAAA
1 AATAATATTTAAA
8244193 ATTCACGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
25 5 0.14
26 12 0.34
27 18 0.51
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AATAATATTTAAATTATATATTATATT
Found at i:8244195 original size:27 final size:28
Alignment explanation
Indices: 8244144--8244217 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 28
8244134 ATTTAAATAT
*
8244144 CATATTA-ATTAATAA-ATTTATAATT-A
1 CATATTATATTAA-AATATTTAAAATTCA
*
8244170 TATATTATATTAAAATATTTAAAATTCA
1 CATATTATATTAAAATATTTAAAATTCA
* *
8244198 CGTATAATATTAAAAT-TTTA
1 CATATTATATTAAAATATTTA
8244218 CTGTAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.20
27 18 0.45
28 14 0.35
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (28 bp):
CATATTATATTAAAATATTTAAAATTCA
Found at i:8248681 original size:30 final size:29
Alignment explanation
Indices: 8248647--8248715 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
8248637 TTATTTGTCG
* *
8248647 ATATAATAATTTTTTATATGTAT-TTTATTC
1 ATATAATAATTTTTTA-A-GAATATTTATAC
*
8248677 ATATATACAATTTTTTAAGAATATTTATAC
1 ATATA-ATAATTTTTTAAGAATATTTATAC
8248707 ATATAATAA
1 ATATAATAA
8248716 AATTTCACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
29 6 0.18
30 17 0.52
31 10 0.30
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (29 bp):
ATATAATAATTTTTTAAGAATATTTATAC
Found at i:8248855 original size:2 final size:2
Alignment explanation
Indices: 8248848--8248876 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8248838 AATTGACGTG
8248848 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8248877 TTCTTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8250087 original size:12 final size:12
Alignment explanation
Indices: 8250070--8250096 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8250060 TTAGATGCAG
8250070 CATACACATAGA
1 CATACACATAGA
8250082 CATACACATAGA
1 CATACACATAGA
8250094 CAT
1 CAT
8250097 CAAAAGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.26, G:0.07, T:0.19
Consensus pattern (12 bp):
CATACACATAGA
Found at i:8256066 original size:189 final size:187
Alignment explanation
Indices: 8255717--8256097 Score: 699
Period size: 189 Copynumber: 2.0 Consensus size: 187
8255707 ATTATATATG
8255717 AAAAACTTTTCATTTACAAACAACAAATCAAGGCTAACAAATTTCCTTTTAGCACCAGGAAGAAT
1 AAAAACTTTTCATTTACAAACAACAAATCAAGGCTAACAAATTTCCTTTTAGCACCAGGAAGAAT
8255782 AGAATTTCAAATTCTGACTACATACTTTAATTCTCTGTGAATGCTCATGATGCTTCAACTAGTTT
66 AGAATTTCAAATTCTGACTACATACTTTAATTCTCTGTGAATGCTCATGATGCTTCAACTAGTTT
8255847 AAAACTTTGTAACTCATTGAAGCTACATAGTGATAAGTAATTATATTATGATGAAAT
131 AAAACTTTGTAACTCATTGAAGCTACATAGTGATAAGTAATTATATTATGATGAAAT
* ** * *
8255904 AAAAACTTTTCATTTAGAAACAGTAAATCAAGGCTAACGAATTTCCTTTTAGCACCAGTAAGAAT
1 AAAAACTTTTCATTTACAAACAACAAATCAAGGCTAACAAATTTCCTTTTAGCACCAGGAAGAAT
8255969 AGAATTTCAAATTCTGACTACACATACTTTAATTCTCTGTGAATGCTCATGATGCTTCAACTAGT
66 AGAATTTCAAATTCTGACT--ACATACTTTAATTCTCTGTGAATGCTCATGATGCTTCAACTAGT
8256034 TTAAAACTTTGTAACTCATTGAAGCTACATAGTGATAAGTAATTATATTATGATGAAAT
129 TTAAAACTTTGTAACTCATTGAAGCTACATAGTGATAAGTAATTATATTATGATGAAAT
8256093 AAAAA
1 AAAAA
8256098 ATCAACCATA
Statistics
Matches: 187, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
187 79 0.42
189 108 0.58
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (187 bp):
AAAAACTTTTCATTTACAAACAACAAATCAAGGCTAACAAATTTCCTTTTAGCACCAGGAAGAAT
AGAATTTCAAATTCTGACTACATACTTTAATTCTCTGTGAATGCTCATGATGCTTCAACTAGTTT
AAAACTTTGTAACTCATTGAAGCTACATAGTGATAAGTAATTATATTATGATGAAAT
Found at i:8261623 original size:21 final size:21
Alignment explanation
Indices: 8261585--8261627 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
8261575 AATACTTTAA
8261585 ATATTAAATATTATAAAATAAT
1 ATATTAAATATTATAAAA-AAT
8261607 ATATT-AATATT-TGAAAAAAT
1 ATATTAAATATTAT-AAAAAAT
8261627 A
1 A
8261628 ATGATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATTAAATATTATAAAAAAT
Found at i:8262994 original size:90 final size:90
Alignment explanation
Indices: 8262841--8263029 Score: 324
Period size: 90 Copynumber: 2.1 Consensus size: 90
8262831 CATATAGCTG
* * *
8262841 CGAATGGCTGCAGCAGTGCCCTGACTGAATGGACATCTTACTTAGCAAAGGCTCCCACGATGAGA
1 CGAATGGCTGCAGCAGTGCCCTGACTGAACGGACATCTTAATTAGCAAAGGCCCCCACGATGAGA
8262906 GCAGCCTCGAATTTAGCCATTCGAC
66 GCAGCCTCGAATTTAGCCATTCGAC
8262931 CGAATGGCTGCAGCAGTGCCCTGACTGAACGGACATCTTAATTAGCAAAGGCCCCCACGATGAGA
1 CGAATGGCTGCAGCAGTGCCCTGACTGAACGGACATCTTAATTAGCAAAGGCCCCCACGATGAGA
* *
8262996 GCAGCCTTGTATTTAGCCATTCGAC
66 GCAGCCTCGAATTTAGCCATTCGAC
*
8263021 CAAATGGCT
1 CGAATGGCT
8263030 CTCCTTATTC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (90 bp):
CGAATGGCTGCAGCAGTGCCCTGACTGAACGGACATCTTAATTAGCAAAGGCCCCCACGATGAGA
GCAGCCTCGAATTTAGCCATTCGAC
Found at i:8284436 original size:4 final size:4
Alignment explanation
Indices: 8284427--8284451 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8284417 GCTTTCGATG
8284427 CTTT CTTT CTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT C
8284452 CATGCTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:8296190 original size:67 final size:67
Alignment explanation
Indices: 8296119--8296258 Score: 146
Period size: 66 Copynumber: 2.1 Consensus size: 67
8296109 AATTAATTCA
* * *
8296119 TATATATAATTAAAAAT-AAAATTATATAT-ATTTTATTAAACTTAATT-TTCATATATTTTTTA
1 TATATATAA-TAAAAATGAAAATTAAATATAATTCTATTAAACTTAATTAAT--TATATTTTTTA
8296181 TATTT
63 TATTT
* * * * *
8296186 TATAT-TTATATATATGTAAATTAAATATAATTCTATTAAACTTAATTAATTATATTTTTTATTT
1 TATATATAATAAAAATGAAAATTAAATATAATTCTATTAAACTTAATTAATTATATTTTTTATAT
8296250 TT
66 TT
8296252 TAT-TATA
1 TATATATA
8296259 CAAATTAATT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
65 6 0.10
66 31 0.52
67 22 0.37
68 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (67 bp):
TATATATAATAAAAATGAAAATTAAATATAATTCTATTAAACTTAATTAATTATATTTTTTATAT
TT
Found at i:8297084 original size:20 final size:21
Alignment explanation
Indices: 8297054--8297095 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
8297044 AAGACTTTAT
8297054 ATTTTTATTATATCTATATAA
1 ATTTTTATTATATCTATATAA
* *
8297075 ATTTTT-TTATTTGTATATAA
1 ATTTTTATTATATCTATATAA
8297095 A
1 A
8297096 AATACCTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTTATTATATCTATATAA
Found at i:8300978 original size:3 final size:3
Alignment explanation
Indices: 8300972--8301004 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
8300962 ATAGTTGATG
8300972 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8301005 TCCCCATCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8303983 original size:2 final size:2
Alignment explanation
Indices: 8303976--8304005 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8303966 CCCACTGTCG
8303976 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8304006 TTCTTTTTGT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8310970 original size:30 final size:30
Alignment explanation
Indices: 8310936--8311028 Score: 122
Period size: 30 Copynumber: 3.2 Consensus size: 30
8310926 TTTTTATGGG
* *
8310936 TTTTGATTGTTAATTGAAATTGTATCTCGA
1 TTTTGATTGTTGATTGAAATTGTATATCGA
* *
8310966 TTTTGATTGTTGATTGAAATTGTATATGGG
1 TTTTGATTGTTGATTGAAATTGTATATCGA
8310996 TTTTGATTGTTGATTG-AA-T-TATATC-A
1 TTTTGATTGTTGATTGAAATTGTATATCGA
8311022 TTTTGAT
1 TTTTGAT
8311029 ATTTCTTTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.12
27 5 0.09
28 1 0.02
29 2 0.04
30 42 0.74
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (30 bp):
TTTTGATTGTTGATTGAAATTGTATATCGA
Found at i:8311995 original size:16 final size:16
Alignment explanation
Indices: 8311976--8312010 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8311966 TGTAAACACA
8311976 AAATGATTCAAATATG
1 AAATGATTCAAATATG
* *
8311992 AAATGATTTAAATTTG
1 AAATGATTCAAATATG
8312008 AAA
1 AAA
8312011 AAAAATCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (16 bp):
AAATGATTCAAATATG
Found at i:8313373 original size:20 final size:20
Alignment explanation
Indices: 8313335--8313373 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8313325 TTGGAAAATT
* *
8313335 TTGAATTTTTTGATGACTAG
1 TTGAATTTTTCGATAACTAG
8313355 TTGAATTTTTCGATAACTA
1 TTGAATTTTTCGATAACTA
8313374 AAATTACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (20 bp):
TTGAATTTTTCGATAACTAG
Found at i:8317653 original size:2 final size:2
Alignment explanation
Indices: 8317646--8317670 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8317636 AACCGTGCAC
8317646 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8317671 CACACACACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8318232 original size:3 final size:3
Alignment explanation
Indices: 8318218--8318249 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8318208 TTGTAGTTTG
*
8318218 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8318250 ACTTTTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:8323843 original size:9 final size:9
Alignment explanation
Indices: 8323819--8323848 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8323809 TACATTAAAT
8323819 TTCAATTAA
1 TTCAATTAA
8323828 TTC-ATTAA
1 TTCAATTAA
8323836 TTCAATTAA
1 TTCAATTAA
8323845 TTCA
1 TTCA
8323849 TGCATCCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (9 bp):
TTCAATTAA
Found at i:8324329 original size:27 final size:26
Alignment explanation
Indices: 8324291--8324348 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
8324281 ACAAGGTAGG
*
8324291 ATAATATTATTTAATTTAATTCTACTC
1 ATAATATTATTTAATTTAATCCTA-TC
* *
8324318 ATAATATTATTTTATTTTATCCTATC
1 ATAATATTATTTAATTTAATCCTATC
8324344 ATAAT
1 ATAAT
8324349 CTTGTGTACC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.53
Consensus pattern (26 bp):
ATAATATTATTTAATTTAATCCTATC
Found at i:8326611 original size:18 final size:18
Alignment explanation
Indices: 8326588--8326624 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8326578 AGCCAAAAAA
8326588 TACAAA-TTCATTTTATTT
1 TACAAATTTC-TTTTATTT
8326606 TACAAATTTCTTTTATTT
1 TACAAATTTCTTTTATTT
8326624 T
1 T
8326625 CTTGTCCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (18 bp):
TACAAATTTCTTTTATTT
Found at i:8327601 original size:24 final size:24
Alignment explanation
Indices: 8327549--8327601 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8327539 TATTTGTAAG
* * *
8327549 CTTTTCCTTTTCCCTTTTTATTTT
1 CTTTTCCTTTTCACTTTTCAGTTT
8327573 CTTTTCCTTTT-ACTTTTCAGTTT
1 CTTTTCCTTTTCACTTTTCAGTTT
8327596 CATTTT
1 C-TTTT
8327602 ATTTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.08, C:0.23, G:0.02, T:0.68
Consensus pattern (24 bp):
CTTTTCCTTTTCACTTTTCAGTTT
Found at i:8327608 original size:4 final size:4
Alignment explanation
Indices: 8327599--8327664 Score: 62
Period size: 4 Copynumber: 15.8 Consensus size: 4
8327589 TCAGTTTCAT
* *
8327599 TTTA TTTA TTTA TTTC TTTA CTTTA TTTA TTATA TATA TTT- TCTTA TTTAA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TT-TA TTTA TTTA T-TTA TTT-A
*
8327650 TTTA TTTA ATTA TTT
1 TTTA TTTA TTTA TTT
8327665 TTAAATAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
3 1 0.02
4 38 0.75
5 12 0.24
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:8328037 original size:26 final size:26
Alignment explanation
Indices: 8328006--8328057 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
8327996 TCAAATAAAA
*
8328006 ATTTTTAATAAATTATTTAAATTGAAT
1 ATTTTGAAT-AATTATTTAAATTGAAT
*
8328033 ATTTTGGATAATTATTTAAATTGAA
1 ATTTTGAATAATTATTTAAATTGAA
8328058 ATCAAAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (26 bp):
ATTTTGAATAATTATTTAAATTGAAT
Found at i:8328583 original size:17 final size:17
Alignment explanation
Indices: 8328561--8328595 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8328551 TATAATTAAC
8328561 TTTTTGTATTATATATT
1 TTTTTGTATTATATATT
* *
8328578 TTTTTGTTTTATTTATT
1 TTTTTGTATTATATATT
8328595 T
1 T
8328596 CTTCAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTTGTATTATATATT
Found at i:8330350 original size:3 final size:3
Alignment explanation
Indices: 8330342--8330429 Score: 113
Period size: 3 Copynumber: 29.3 Consensus size: 3
8330332 TAAAACAAAG
8330342 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
8330390 ACA ACA ACA ACA ACA ACA ACA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8330430 AGCAAAAAAG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:8330871 original size:10 final size:10
Alignment explanation
Indices: 8330858--8330901 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
8330848 ATATAAGAAT
8330858 ATAAAAATAA
1 ATAAAAATAA
8330868 ATAAATAA-AA
1 ATAAA-AATAA
8330878 ATAAAAATAA
1 ATAAAAATAA
*
8330888 TTAAAAATAA
1 ATAAAAATAA
8330898 ATAA
1 ATAA
8330902 GTAGTAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 26 0.87
11 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:8330874 original size:16 final size:16
Alignment explanation
Indices: 8330855--8330901 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
8330845 TCAATATAAG
8330855 AATATAAAAATAAAT-
1 AATATAAAAATAAATA
*
8330870 AA-ATAAAAATAAAAA
1 AATATAAAAATAAATA
8330885 TAAT-TAAAAATAAATA
1 -AATATAAAAATAAATA
8330901 A
1 A
8330902 GTAGTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 11 0.41
15 3 0.11
16 13 0.48
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AATATAAAAATAAATA
Found at i:8331173 original size:3 final size:3
Alignment explanation
Indices: 8331165--8331211 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
8331155 AAACAAAGTA
8331165 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8331212 AGCAAAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8331349 original size:781 final size:784
Alignment explanation
Indices: 8330410--8331975 Score: 2182
Period size: 781 Copynumber: 2.0 Consensus size: 784
8330400 CAACAACAAC
8330410 AATAATAATAATAATAATAAAGCAAAAAAGACAATATTTAAACATGTTCGACAACTGAACTACAA
1 AATAATAATAATAATAATAAAGCAAAAAAGACAATATTTAAACATGTTCGACAACTGAACTACAA
** * * * *
8330475 GAAAACAAATGGGTTTTTTTAATACTTTTGAAGTGAAAAAAATCTTAAGAATTCTATTAAAATAA
66 GAAAACAAATGGAATTTATTAATACTCTTGAAATGAAAAAAATCTTAAGAATTCTACTAAAATAA
* * * *
8330540 TAGAGAAAAGCTAAAATTTTTTGAACAAACAAATAATAAACCTTAATTAAAAATAAAGATTCTTT
131 TAGAGAAAAGCTAAAATTTTTCGAACAAACAAATAATAAAACTTAATTAAAAATAAAAATTATTT
* * * * *
8330605 GAACCAAGAGAATTTTAAGATAATATAAAATTAATCGGTACCATTTTCAGACAGACATTGTGGAG
196 GAACCAAGACAATTTTAAGATAATATAAAATTAATCAGAACCATTTTCAGACAGACATTATAGAG
* * * * * * *
8330670 GTATTGTAACATT-TTTCACGCATAATCGTACTCTTGAACCTTATCTTAATTTCATAAACTAAAA
261 GTACTATAACATTCTCT-ACGCATAA-CCTAATCTTGAACCTAATCTTAATTTCATAAACCAAAA
** *
8330734 TGTCTTTTTAGTAAATTTTAATTAATGTTAAGATTTATTGAAAGGTTAATTTTTTGGT-TGTTAA
324 TGTCTTTTTAGTAAACCTTAATTAATGTTAAGATTTATTGAAAGGTTAATTTTTTGGTAT-TCAA
** * *
8330798 TTACACCTAATTAAAAAGATTGGTAATGACT-TATTGTTTTCTTTAAGTCAATATAAGAATATAA
388 TTACACCTAATTAAAAA-ATTGGTAACAACTCCA-TATTTTCTTTAAGTCAATATAAGAATATAA
*
8330862 AAATAAATAAAT-A-A-AAAT-AAA-A-AT-AAT-T-AAAAATAAATAAGTAGTAAATTTTAAAA
451 AAATAAATAAATAATATAAATAAAACATATAAATATAAAAAATAAAAAAGTAGTAAATTTT-AAA
*
8330918 AAATAAAAAATCAATAATTAACTTAATTTAGCATAAATATGTTTT-AAAAAATACTTTTTAATGA
515 AAAT--AAAA--AATAATTAACTTAATTTAGCATAAATATGTTTTAAAAAAATAATTTTTAATGA
* * * *
8330982 ACGATGGAGCGGAATGTGATATTTGATCAAAGGTAAATTTCTAAGAAAACTATGAATGAGTTCTT
576 ACAATGGAGCGGAATATAATATTTGATCAAAAGTAAATTTCT-AGAAAACTATGAATGAGTTCTT
** * * *
8331047 TTCTC-AATTTTTTTTTAAATGTATTATCTAAATTTTTTCTAGAATGATTGATAAATTAGTTAAA
640 TTCTCAAATTTTTTTAAAAATGTATTACCTAAA-ATTTTCAAGAATGATTGATAAATTAGTTAAA
* *
8331111 GTTTCAATAAT-GTAGATTTAGAGTTTTTCCTAAAAATAAGTTTAAAACAAAGTAAATAATAATA
704 GTTTCAAT-ATCATAGATTTAGAGTTATTCCTAAAAATAAGTTTAAAACAAAGTAAATAATAATA
8331175 ATAATAATAATAATAAT
768 ATAATAATAATAATAAT
* *
8331192 AATAATAATAATAATAATAAAGCAAAAAA-A-AA-ATTTAAACATGTTCAGGCAACTGAACTTCA
1 AATAATAATAATAATAATAAAGCAAAAAAGACAATATTTAAACATGTTC-GACAACTGAACTACA
*
8331254 AGAAAACAAAT-GAATTTATTAACTACTCTTGAAAT-AAGAAAATATCTTAAGAATTCTACTAGA
65 AGAAAACAAATGGAATTTATTAA-TACTCTTGAAATGAA-AAAA-ATCTTAAGAATTCTACTAAA
*
8331317 ATAATGGAGAAAAGCTAAAATTTTTCGAACAAACAAATAATAAAACTTAATTAAAAATAAAAATT
127 ATAATAGAGAAAAGCTAAAATTTTTCGAACAAACAAATAATAAAACTTAATTAAAAATAAAAATT
* * ** *
8331382 ATTTGAACCAAGACAATTTTAGGATAATATAAAATTAATCAGAATCATTTTTGGACGGACATTAT
192 ATTTGAACCAAGACAATTTTAAGATAATATAAAATTAATCAGAACCATTTTCAGACAGACATTAT
* * * * * *
8331447 AGAGGTACTATGATATTCTCTACGCATAACCTAATCTTGAACCTAATCTTGATTTCGTAGACCAC
257 AGAGGTACTATAACATTCTCTACGCATAACCTAATCTTGAACCTAATCTTAATTTCATAAACCAA
*
8331512 AATGTCTTTTTTGTAAACCTTAATTAATGTTAAGATTTATTGAAAGGTTAATTTTTTGGTATTCA
322 AATGTCTTTTTAGTAAACCTTAATTAATGTTAAGATTTATTGAAAGGTTAATTTTTTGGTATTCA
* **
8331577 ATTACACCTAGTTAAAAAATTGGTGGCAACTCCATATTTTCTTTAAGTCAATATAAGAATATAAA
387 ATTACACCTAATTAAAAAATTGGTAACAACTCCATATTTTCTTTAAGTCAATATAAGAATATAAA
8331642 AATAAATAAATAAAAATATAAATAAAAATCATATAAATAATAAAAAATAAAAAAGTAGTAAATTT
452 AATAAATAAAT---AATATAAAT-AAAA-CATATAAAT-ATAAAAAATAAAAAAGTAGTAAATTT
8331707 TAAAAAATAAAAAATAATTAACTTAATTTAGCATAAATATGTTTTAAAAAAATAATTTTTAATGA
511 TAAAAAATAAAAAATAATTAACTTAATTTAGCATAAATATGTTTTAAAAAAATAATTTTTAATGA
* * * *
8331772 ACAATGGTGCGGAATATAATCTTTGATCAAAAGTAAATTTCTTGAAAATTATGAATGAGTTCTTT
576 ACAATGGAGCGGAATATAATATTTGATCAAAAGTAAATTTCTAGAAAACTATGAATGAGTTCTTT
8331837 TCTCATAAATTTTTTTAAAAATGTATTACCTAAAATTTTCAAGAATGATTGATAAATTAGTTAAA
641 TCTC--AAATTTTTTTAAAAATGTATTACCTAAAATTTTCAAGAATGATTGATAAATTAGTTAAA
8331902 GTTTCAATATCATAGATTTAGAGTTATTCCTAAAAATAAGTTTAAAACAAAGTAAATAATAATAA
704 GTTTCAATATCATAGATTTAGAGTTATTCCTAAAAATAAGTTTAAAACAAAGTAAATAATAATAA
8331967 TAATAATAA
769 TAATAATAA
8331976 AGTAAAAAAG
Statistics
Matches: 692, Mismatches: 65, Indels: 45
0.86 0.08 0.06
Matches are distributed among these distances:
779 74 0.11
780 145 0.21
781 156 0.23
782 31 0.04
783 1 0.00
784 1 0.00
785 4 0.01
787 3 0.00
789 59 0.09
790 58 0.08
791 105 0.15
792 24 0.03
793 8 0.01
794 23 0.03
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.35
Consensus pattern (784 bp):
AATAATAATAATAATAATAAAGCAAAAAAGACAATATTTAAACATGTTCGACAACTGAACTACAA
GAAAACAAATGGAATTTATTAATACTCTTGAAATGAAAAAAATCTTAAGAATTCTACTAAAATAA
TAGAGAAAAGCTAAAATTTTTCGAACAAACAAATAATAAAACTTAATTAAAAATAAAAATTATTT
GAACCAAGACAATTTTAAGATAATATAAAATTAATCAGAACCATTTTCAGACAGACATTATAGAG
GTACTATAACATTCTCTACGCATAACCTAATCTTGAACCTAATCTTAATTTCATAAACCAAAATG
TCTTTTTAGTAAACCTTAATTAATGTTAAGATTTATTGAAAGGTTAATTTTTTGGTATTCAATTA
CACCTAATTAAAAAATTGGTAACAACTCCATATTTTCTTTAAGTCAATATAAGAATATAAAAATA
AATAAATAATATAAATAAAACATATAAATATAAAAAATAAAAAAGTAGTAAATTTTAAAAAATAA
AAAATAATTAACTTAATTTAGCATAAATATGTTTTAAAAAAATAATTTTTAATGAACAATGGAGC
GGAATATAATATTTGATCAAAAGTAAATTTCTAGAAAACTATGAATGAGTTCTTTTCTCAAATTT
TTTTAAAAATGTATTACCTAAAATTTTCAAGAATGATTGATAAATTAGTTAAAGTTTCAATATCA
TAGATTTAGAGTTATTCCTAAAAATAAGTTTAAAACAAAGTAAATAATAATAATAATAATAATAA
TAAT
Found at i:8331491 original size:12 final size:12
Alignment explanation
Indices: 8331474--8331498 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8331464 CTCTACGCAT
8331474 AACCTAATCTTG
1 AACCTAATCTTG
8331486 AACCTAATCTTG
1 AACCTAATCTTG
8331498 A
1 A
8331499 TTTCGTAGAC
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:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (12 bp):
AACCTAATCTTG
Found at i:8331662 original size:12 final size:12
Alignment explanation
Indices: 8331629--8331670 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
8331619 TTAAGTCAAT
*
8331629 ATAAGAATATAA
1 ATAAAAATATAA
*
8331641 A-AATAA-ATAA
1 ATAAAAATATAA
8331651 ATAAAAATATAA
1 ATAAAAATATAA
8331663 ATAAAAAT
1 ATAAAAAT
8331671 CATATAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 5 0.19
11 8 0.31
12 13 0.50
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (12 bp):
ATAAAAATATAA
Found at i:8331670 original size:22 final size:23
Alignment explanation
Indices: 8331624--8331694 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 23
8331614 TTTCTTTAAG
*
8331624 TCAATATAAGAATATAAA-AATAAA
1 TCAA-ATAAAAATATAAATAA-AAA
8331648 T-AAATAAAAATATAAATAAAAA
1 TCAAATAAAAATATAAATAAAAA
* *
8331670 TCATATAAATAATAAAAAATAAAAA
1 TCAAATAAA-AAT-ATAAATAAAAA
8331695 AGTAGTAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 16 0.40
23 10 0.25
24 4 0.10
25 10 0.25
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (23 bp):
TCAAATAAAAATATAAATAAAAA
Found at i:8331675 original size:15 final size:14
Alignment explanation
Indices: 8331637--8331681 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 14
8331627 ATATAAGAAT
*
8331637 ATAAAAATAAATAA
1 ATAAAAATATATAA
8331651 AT-AAAA-ATATAA
1 ATAAAAATATATAA
8331663 ATAAAAATCATATAA
1 ATAAAAAT-ATATAA
8331678 ATAA
1 ATAA
8331682 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 7 0.26
13 8 0.30
14 2 0.07
15 10 0.37
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAAAATATATAA
Found at i:8331689 original size:25 final size:24
Alignment explanation
Indices: 8331637--8331719 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 24
8331627 ATATAAGAAT
* *
8331637 ATAAAAATAAATAAATAAAAATATAA
1 ATAAAAATATATAAATAATAA-A-AA
8331663 ATAAAAATCATATAAATAATAAAAA
1 ATAAAAAT-ATATAAATAATAAAAA
**
8331688 ATAAAAA-AGTAGTAAATTTTAAAAA
1 ATAAAAATA-TA-TAAATAATAAAAA
8331713 ATAAAAA
1 ATAAAAA
8331720 ATAATTAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 27 0.54
26 9 0.18
27 11 0.22
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.24
Consensus pattern (24 bp):
ATAAAAATATATAAATAATAAAAA
Found at i:8332118 original size:765 final size:748
Alignment explanation
Indices: 8330410--8332395 Score: 2317
Period size: 765 Copynumber: 2.6 Consensus size: 748
8330400 CAACAACAAC
* * * * * *
8330410 AATAATAATAATAATAATAAAGCAAAAAAGACAATATTTAAACATGTTCGACAACTGAACTACAA
1 AATAATAATAATAATAATAAAGTAAAAAAG-CAATATTGAAACATATCCGGCAACTGAACTTCAA
* * * *
8330475 GAAAACAAATGGGTTTTTTTAATACTTTTGAAGTG-AAAAAAATCTTAAGAATTCTATTAAAATA
65 GAAAACAAATGGGTTTTTTAAATACTTTTGAAATGAAAAAAAATCTTAAGAATTCTACTAGAATA
* * *
8330539 ATAGAGAAAAGCTAAAATTTTTTGAACAAACAAATAATAAACCTTAATTAAAAATAAAGATTCTT
130 ATGGAGAAAAGCTAAAATTTTTCGAACAAACAAATAATAAAACTTAATTAAAAATAAAGATT-TT
* * *
8330604 TGAACCAAGAGAATTTTAAGATAATATAAAATTAATCGGTACCATTTTCAGACAGACATTGTGGA
194 TGAACCAAGACAATTTTAGGATAATATAAAATTAATCGGTACCATTTTCAGACGGACATTGT-GA
* * * * * * * * * *
8330669 GGTATTGTAACATT-TTTCACGCATAATCGTACTCTTGAACCTTATCTTAATTTCATAAACTAAA
258 GGTACTAT-ATATTCTCTCACGCATAA-CCTAATCTTGAACCTAATCTTGATTTCGTAAACCAAA
** *
8330733 ATGTCTTTTTAGTAAATTTTAATTAATGTTAAGATTTATTGAAAGGTTAATTTTTTGGTTGTTAA
321 ATGTCTTTTTAGTAAACCTTAATTAATGTTAAGATTTATTGAAAGGTTAATTTTTTGGTT-TCAA
* *** *
8330798 TTACACCTAATTAAAAAGATTGGTAATGACT-TATTGTTTTCTTTAAGTCAATATAAGAATATAA
385 TTACACCTAGTTAAAAA-ATTGGTGGCGACTCCA-TGTTTTCTTTAAGTCAATATAAGAATATAA
*
8330862 AAATAAATAAATAAAAATAAAAATAATTAAAAATAAATAAGTAGTAAATTTTAAAAAAATAAAAA
448 AAATAAATAAATAAAAATAAAAATAATTAAAAATAAAAAAGTAGTAAATTTTAAAAAAAT-AAAA
* *
8330927 ATCAATAATTAACTTAATTTAGCATAAATATGTTTTAAAAAATACTTTTTAATGAACGATGGAGC
512 A-CAATAATTAACTTAATTTAGCATAAATATGTTTTAAAAAATAATTTTTAATGAACAATGGAGC
* * *
8330992 GGAATGTGATATTTGATCAAAGGTAAATTTCTAAGAAAACTATGAATGAGTTCTTTTCTCAATTT
576 GGAATATAATATTTGATCAAAAGTAAATTTCTAAGAAAACTATGAATGAGTTCTTTTCTCAATTT
** * * *
8331057 TTTTTTAAATGTATTATCTAAATTTTTTCTAGAATGATTGATAAATTAGTTAAAGTTTCAATAAT
641 TTTTAAAAATGTATTACCTAAATATTTTCAAGAATGATTGATAAATTAGTTAAAGTTTCAATAAT
* *
8331122 GTAGATTTAGAGTTTTTCCTAAAAATAAGTTTAAAACAAAGTAAATAATAATAATAA
706 ATAGATTTAGAGTTATTCCTAAAAATAAGTTTAAAACAAAG-------------T-A
* * * * *
8331179 TAATAATAATAATAATAATAATAATAATAATAAAGCAAAAAAAAAATTTAAACATGTTCAGGCAA
1 -AATAATAATAATAATAATAA-AGT-A-AA-AAAGC------AATATTGAAACAT-ATCCGGCAA
** * * * *
8331244 CTGAACTTCAAGAAAACAAATGAATTTATTAACTACTCTTGAAAT-AAGAAAATATCTTAAGAAT
54 CTGAACTTCAAGAAAACAAATGGGTTTTTTAAATACTTTTGAAATGAA-AAAAAATCTTAAGAAT
8331308 TCTACTAGAATAATGGAGAAAAGCTAAAATTTTTCGAACAAACAAATAATAAAACTTAATTAAAA
118 TCTACTAGAATAATGGAGAAAAGCTAAAATTTTTCGAACAAACAAATAATAAAACTTAATTAAAA
* * * * **
8331373 ATAAAAATTATTTGAACCAAGACAATTTTAGGATAATATAAAATTAATCAGAATCATTTTTGGAC
183 ATAAAGATT-TTTGAACCAAGACAATTTTAGGATAATATAAAATTAATCGGTACCATTTTCAGAC
*
8331438 GGACATTATAGAGGTACTATGATATTCTCT-ACGCATAACCTAATCTTGAACCTAATCTTGATTT
247 GGACATTGT-GAGGTACTAT-ATATTCTCTCACGCATAACCTAATCTTGAACCTAATCTTGATTT
* * *
8331502 CGTAGACCACAATGTCTTTTTTGTAAACCTTAATTAATGTTAAGATTTATTGAAAGGTTAATTTT
310 CGTAAACCAAAATGTCTTTTTAGTAAACCTTAATTAATGTTAAGATTTATTGAAAGGTTAATTTT
* *
8331567 TTGGTATTCAATTACACCTAGTTAAAAAATTGGTGGCAACTCCATATTTTCTTTAAGTCAATATA
375 TTGGT-TTCAATTACACCTAGTTAAAAAATTGGTGGCGACTCCATGTTTTCTTTAAGTCAATATA
8331632 AGAATATAAAAATAAATAAATAAAAATATAAATAAAAATCATATAAATAATAAAAAATAAAAAAG
439 AGAATATAAAAATAAATAAAT----A-A-AAAT--AAA--A-AT-AAT--T-AAAAATAAAAAAG
8331697 TAGTAAATTTT-AAAAAAT-AAAA-AATAATTAACTTAATTTAGCATAAATATGTTTTAAAAAAA
489 TAGTAAATTTTAAAAAAATAAAAACAATAATTAACTTAATTTAGCATAAATATGTTTT-AAAAAA
* * * *
8331759 TAATTTTTAATGAACAATGGTGCGGAATATAATCTTTGATCAAAAGTAAATTTCT-TGAAAATTA
553 TAATTTTTAATGAACAATGGAGCGGAATATAATATTTGATCAAAAGTAAATTTCTAAGAAAACTA
8331823 TGAATGAGTTCTTTTCTCATAAATTTTTTTAAAAATGTATTACCTAAA-ATTTTCAAGAATGATT
618 TGAATGAGTTCTTTTCTC---AATTTTTTTAAAAATGTATTACCTAAATATTTTCAAGAATGATT
8331887 GATAAATTAGTTAAAGTTTCAAT-ATCATAGATTTAGAGTTATTCCTAAAAATAAGTTTAAAACA
680 GATAAATTAGTTAAAGTTTCAATAAT-ATAGATTTAGAGTTATTCCTAAAAATAAGTTTAAAACA
8331951 AAGTA
744 AAGTA
* ** * * *
8331956 AATAATAATAATAATAATAAAGTAAAAAAGGAATATTGAAACATATCCGGTGATTGAATTTTAAG
1 AATAATAATAATAATAATAAAGTAAAAAAGCAATATTGAAACATATCCGGCAACTGAACTTCAAG
*
8332021 AAAACAAATGGGTTTTTTAAATACTTTTGAAATGAAAAAAAATTTTAAGAATTCTACTAGAATAA
66 AAAACAAATGGGTTTTTTAAATACTTTTGAAATGAAAAAAAATCTTAAGAATTCTACTAGAATAA
* * *
8332086 TGGAGAAAAGCCAAAATTTTTCAAACAAACAAATAATAAAACTTAAATTAAAAATAATGATTTTT
131 TGGAGAAAAGCTAAAATTTTTCGAACAAACAAATAATAAAACTT-AATTAAAAATAAAGATTTTT
* * *
8332151 GAACCATGACAATTTTAGGATAATATAAAATTAATTGGTACCATTTTCAGATGGACATTGTGAGA
195 GAACCAAGACAATTTTAGGATAATATAAAATTAATCGGTACCATTTTCAGACGGACATTGTGAG-
* * ** ** * * *
8332216 GTGCTATATCCTTC-CTCACATATAATTTTAT-TTCGAACCTAATCTTGATTTTGTAAACCATAA
259 GTACTATAT-ATTCTCTCACGCATAACCTAATCTT-GAACCTAATCTTGATTTCGTAAACCAAAA
* * * * * *
8332279 TATCCTTTCAGTAAATCC-TAATTAATATTAAGATTTATTGAAAGGTTAATTTTTTTGTGGTCAA
322 TGTCTTTTTAGTAAA-CCTTAATTAATGTTAAGATTTATTGAAAGGTTAATTTTTTGGT-TTCAA
* * *
8332343 TCACACATAGTTAAAATATTGGTGGCGACTCCATGTTTTCTTTAAGTCTAATA
385 TTACACCTAGTTAAAAAATTGGTGGCGACTCCATGTTTTCTTTAAGTC-AATA
8332396 ATCGAGTCCT
Statistics
Matches: 1044, Mismatches: 128, Indels: 92
0.83 0.10 0.07
Matches are distributed among these distances:
764 9 0.01
765 306 0.29
766 34 0.03
770 20 0.02
771 1 0.00
772 5 0.00
773 5 0.00
774 5 0.00
775 2 0.00
776 20 0.02
777 1 0.00
778 1 0.00
779 62 0.06
780 148 0.14
781 159 0.15
782 2 0.00
783 1 0.00
784 1 0.00
785 4 0.00
787 3 0.00
789 59 0.06
790 58 0.06
791 83 0.08
792 24 0.02
793 8 0.01
794 23 0.02
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (748 bp):
AATAATAATAATAATAATAAAGTAAAAAAGCAATATTGAAACATATCCGGCAACTGAACTTCAAG
AAAACAAATGGGTTTTTTAAATACTTTTGAAATGAAAAAAAATCTTAAGAATTCTACTAGAATAA
TGGAGAAAAGCTAAAATTTTTCGAACAAACAAATAATAAAACTTAATTAAAAATAAAGATTTTTG
AACCAAGACAATTTTAGGATAATATAAAATTAATCGGTACCATTTTCAGACGGACATTGTGAGGT
ACTATATATTCTCTCACGCATAACCTAATCTTGAACCTAATCTTGATTTCGTAAACCAAAATGTC
TTTTTAGTAAACCTTAATTAATGTTAAGATTTATTGAAAGGTTAATTTTTTGGTTTCAATTACAC
CTAGTTAAAAAATTGGTGGCGACTCCATGTTTTCTTTAAGTCAATATAAGAATATAAAAATAAAT
AAATAAAAATAAAAATAATTAAAAATAAAAAAGTAGTAAATTTTAAAAAAATAAAAACAATAATT
AACTTAATTTAGCATAAATATGTTTTAAAAAATAATTTTTAATGAACAATGGAGCGGAATATAAT
ATTTGATCAAAAGTAAATTTCTAAGAAAACTATGAATGAGTTCTTTTCTCAATTTTTTTAAAAAT
GTATTACCTAAATATTTTCAAGAATGATTGATAAATTAGTTAAAGTTTCAATAATATAGATTTAG
AGTTATTCCTAAAAATAAGTTTAAAACAAAGTA
Found at i:8336636 original size:233 final size:235
Alignment explanation
Indices: 8336185--8336639 Score: 682
Period size: 234 Copynumber: 1.9 Consensus size: 235
8336175 GGTCATGCTA
* * * *
8336185 TGAAAAACTTTATTAATATGGTGATTACTAAGGAGATAAAAAAAAAAATAGCTTAAAAATGGAAA
1 TGAAAAACTTTACTAATATGGTGATTACAAAGGAGAT-AAAAAAAAAACACCTTAAAAATGGAAA
* * ** * * *
8336250 GATCAAAGGGGAAGATGTTTTTGGATTGAAAAGAGAAGGATCACCTAAGGAGAAACAAAGAGAAG
65 GATCAAAGGAGAAGATGTTTGTAAATTGAAAAGAAAAGGATCACCTAAGAAGAAACAAAGAGAAA
*
8336315 CATAAGCTATCATTGCTGAAAAAACCACAACTAAAGCATTCTATTCCACACCATTCATACTCAAC
130 CATAAGCTATCACTGCTGAAAAAACCACAACTAAAGCATTCTATTCCACACCATTCATACTCAAC
8336380 ATACCAACCTTCTTATCTAACCATTTCCATTGAACATGTCG
195 ATACCAACCTTCTTATCTAACCATTTCCATTGAACATGTCG
*
8336421 TGAAAAACTTTACTAATATGGTGATTACAAAGGAGAT-AAAAGAAAACACCTTAAAAATGGAAAG
1 TGAAAAACTTTACTAATATGGTGATTACAAAGGAGATAAAAAAAAAACACCTTAAAAATGGAAAG
* * * * * *
8336485 GTCAAAGGAGAATATGTTTGTAAATTGAAAAGAAAAGGGTCACTTAAGAAGAAATAGAGAGAAAC
66 ATCAAAGGAGAAGATGTTTGTAAATTGAAAAGAAAAGGATCACCTAAGAAGAAACAAAGAGAAAC
* *
8336550 ATAAGCTATCACTGCTG-AAAAACCATAACT-AAGACATTCTGTTCCACACCATTCATACTCAAC
131 ATAAGCTATCACTGCTGAAAAAACCACAACTAAAG-CATTCTATTCCACACCATTCATACTCAAC
8336613 ATACCAACCTTCTTATCTAACCATTTC
195 ATACCAACCTTCTTATCTAACCATTTC
8336640 TAATTTTTCC
Statistics
Matches: 197, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
232 3 0.02
233 67 0.34
234 92 0.47
236 35 0.18
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (235 bp):
TGAAAAACTTTACTAATATGGTGATTACAAAGGAGATAAAAAAAAAACACCTTAAAAATGGAAAG
ATCAAAGGAGAAGATGTTTGTAAATTGAAAAGAAAAGGATCACCTAAGAAGAAACAAAGAGAAAC
ATAAGCTATCACTGCTGAAAAAACCACAACTAAAGCATTCTATTCCACACCATTCATACTCAACA
TACCAACCTTCTTATCTAACCATTTCCATTGAACATGTCG
Found at i:8339892 original size:16 final size:16
Alignment explanation
Indices: 8339871--8339902 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8339861 TATTTGCATT
8339871 TCCATATGCTCATATC
1 TCCATATGCTCATATC
8339887 TCCATATGCTCATATC
1 TCCATATGCTCATATC
8339903 CTTTAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (16 bp):
TCCATATGCTCATATC
Found at i:8351541 original size:36 final size:36
Alignment explanation
Indices: 8351493--8351589 Score: 158
Period size: 36 Copynumber: 2.7 Consensus size: 36
8351483 AGGAGAGGAA
8351493 ATGGTATGAAAAATTTCTATTTGATTGATGATCTTG
1 ATGGTATGAAAAATTTCTATTTGATTGATGATCTTG
* *
8351529 GTGGTATGAAAAATTTTTATTTGATTGATGATCTTG
1 ATGGTATGAAAAATTTCTATTTGATTGATGATCTTG
* *
8351565 ATGGTATGCAAAATTTCTACTTGAT
1 ATGGTATGAAAAATTTCTATTTGAT
8351590 GATATTGACA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (36 bp):
ATGGTATGAAAAATTTCTATTTGATTGATGATCTTG
Found at i:8357175 original size:22 final size:23
Alignment explanation
Indices: 8357107--8357175 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 23
8357097 AAACCCAAAT
8357107 TCAA-GAAACCC-AA-AAAAAAA
1 TCAATGAAACCCAAAGAAAAAAA
* *
8357127 TCAAATCAAACTCAGAATGAAATAAAA
1 TC-AATGAAACCCA-AA-GAAA-AAAA
8357154 TC-ATGAAACCCAAAGAAAAAAA
1 TCAATGAAACCCAAAGAAAAAAA
8357176 ATCTCATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
20 2 0.05
21 2 0.05
22 9 0.24
23 4 0.11
24 4 0.11
25 8 0.21
26 3 0.08
27 6 0.16
ACGTcount: A:0.64, C:0.17, G:0.07, T:0.12
Consensus pattern (23 bp):
TCAATGAAACCCAAAGAAAAAAA
Found at i:8357542 original size:13 final size:12
Alignment explanation
Indices: 8357524--8357573 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 12
8357514 CATTTTCCTC
8357524 TTTTTTCTTTCAT
1 TTTTTTCTTTC-T
*
8357537 TTTTTT-GTTCT
1 TTTTTTCTTTCT
8357548 TTTTTTCTTTTCT
1 TTTTTTC-TTTCT
*
8357561 TTTTTTTTTTCT
1 TTTTTTCTTTCT
8357573 T
1 T
8357574 CATGTTTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
11 7 0.22
12 9 0.28
13 16 0.50
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (12 bp):
TTTTTTCTTTCT
Found at i:8357542 original size:23 final size:25
Alignment explanation
Indices: 8357516--8357567 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
8357506 AGAATATACA
8357516 TTTTCCTC-TTTTTTC-TTTCATTT
1 TTTTCCTCTTTTTTTCTTTTCATTT
** *
8357539 TTTTGTTCTTTTTTTCTTTTCTTTT
1 TTTTCCTCTTTTTTTCTTTTCATTT
8357564 TTTT
1 TTTT
8357568 TTTCTTCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 7 0.29
25 11 0.46
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (25 bp):
TTTTCCTCTTTTTTTCTTTTCATTT
Found at i:8357556 original size:24 final size:25
Alignment explanation
Indices: 8357524--8357573 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
8357514 CATTTTCCTC
8357524 TTTTTTC-TTTCATTTTTTTGTTCT
1 TTTTTTCTTTTCATTTTTTTGTTCT
* *
8357548 TTTTTTCTTTTCTTTTTTTTTTTCT
1 TTTTTTCTTTTCATTTTTTTGTTCT
8357573 T
1 T
8357574 CATGTTTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (25 bp):
TTTTTTCTTTTCATTTTTTTGTTCT
Found at i:8357921 original size:11 final size:12
Alignment explanation
Indices: 8357898--8357935 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
8357888 GATGTTACAA
8357898 TTAATTCTTTTTT
1 TTAA-TCTTTTTT
8357911 TTAAT-TTTTTT
1 TTAATCTTTTTT
*
8357922 TTACTCTTTTTT
1 TTAATCTTTTTT
8357934 TT
1 TT
8357936 GTAGATCCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 9 0.39
13 4 0.17
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (12 bp):
TTAATCTTTTTT
Found at i:8358354 original size:14 final size:15
Alignment explanation
Indices: 8358329--8358357 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8358319 TTGGCTTACA
8358329 AAGAATTTTTCAAAC
1 AAGAATTTTTCAAAC
8358344 AAGAA-TTTTCAAAC
1 AAGAATTTTTCAAAC
8358358 TTCATTGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (15 bp):
AAGAATTTTTCAAAC
Found at i:8358768 original size:13 final size:14
Alignment explanation
Indices: 8358742--8358770 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8358732 TACAAAAAGG
8358742 TATGTGTAAATACA
1 TATGTGTAAATACA
8358756 TATGTGT-AATACA
1 TATGTGTAAATACA
8358769 TA
1 TA
8358771 GTAACAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (14 bp):
TATGTGTAAATACA
Found at i:8360433 original size:102 final size:101
Alignment explanation
Indices: 8360269--8360459 Score: 231
Period size: 102 Copynumber: 1.9 Consensus size: 101
8360259 TTATTTTGAG
* * * * **
8360269 AAAATTTATTAAAGCTTCCAATAGTTTGGTAATATTTAATTGAAGATTTTGATCCTCCAATAGTT
1 AAAATTCATTAAAGCTTCAAATAGTTTGGTAAGACTTAATTGAAGATTTAAATCCTCCAATAGTT
8360334 TGATAGGATTAAAAATATATTATTTGATTTTATTTAA
66 TGATAGGATTAAAAAT-TATTATTTGATTTTATTTAA
* * **
8360371 AAAATTCATT-AAGTCTTCAAATAGTTTGGTAAGACTTAATTTAAGATTTAAATTCTTTAATAGT
1 AAAATTCATTAAAG-CTTCAAATAGTTTGGTAAGACTTAATTGAAGATTTAAATCCTCCAATAGT
* * * *
8360435 TTGGTATGATTGAAAATTTTTATTT
65 TTGATAGGATTAAAAATTATTATTT
8360460 TTTTAAATCC
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
101 10 0.14
102 64 0.86
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (101 bp):
AAAATTCATTAAAGCTTCAAATAGTTTGGTAAGACTTAATTGAAGATTTAAATCCTCCAATAGTT
TGATAGGATTAAAAATTATTATTTGATTTTATTTAA
Found at i:8360580 original size:21 final size:21
Alignment explanation
Indices: 8360553--8360605 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
8360543 ATCTAATATG
**
8360553 ATATCATGCAATTACTATAAA
1 ATATCATGCAATTAAGATAAA
* *
8360574 CTATCATGTAATTAAGATAAA
1 ATATCATGCAATTAAGATAAA
8360595 ATATCATGCAA
1 ATATCATGCAA
8360606 ATTTATTAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (21 bp):
ATATCATGCAATTAAGATAAA
Found at i:8363709 original size:15 final size:16
Alignment explanation
Indices: 8363679--8363711 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8363669 CTTTTGTTTT
*
8363679 TTTCTACTTGTTTTAC
1 TTTCAACTTGTTTTAC
8363695 TTTCAACTT-TTTTAC
1 TTTCAACTTGTTTTAC
8363710 TT
1 TT
8363712 CCTATATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.15, C:0.18, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTCAACTTGTTTTAC
Found at i:8370655 original size:17 final size:17
Alignment explanation
Indices: 8370633--8370666 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8370623 ATTATATAGA
8370633 GTGGGGTAATCATCAAC
1 GTGGGGTAATCATCAAC
8370650 GTGGGGTAATCATCAAC
1 GTGGGGTAATCATCAAC
8370667 ATTTGCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (17 bp):
GTGGGGTAATCATCAAC
Found at i:8373121 original size:19 final size:19
Alignment explanation
Indices: 8373075--8373135 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
8373065 TTTTTTCTCA
8373075 TTTTTA-TTATTACTT-AT
1 TTTTTATTTATTACTTAAT
* * *
8373092 TCTTAATTTATTAGTTAAT
1 TTTTTATTTATTACTTAAT
*
8373111 TTTTTATTTATTATTTAAT
1 TTTTTATTTATTACTTAAT
8373130 TTTTTA
1 TTTTTA
8373136 ACAAGAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
17 4 0.11
18 8 0.22
19 24 0.67
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTATTTATTACTTAAT
Found at i:8374558 original size:18 final size:17
Alignment explanation
Indices: 8374527--8374560 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8374517 CTCTTCCTCT
*
8374527 TTTTTTTTACTTTTTAC
1 TTTTTTTTAATTTTTAC
8374544 TTTTTTTTAGATTTTTA
1 TTTTTTTTA-ATTTTTA
8374561 ATTAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTTTTAATTTTTAC
Found at i:8374569 original size:20 final size:18
Alignment explanation
Indices: 8374546--8374583 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 18
8374536 CTTTTTACTT
8374546 TTTTTTAGATTTTTAATTAA
1 TTTTTTAG--TTTTAATTAA
8374566 TTTTTTAGTTTTAATTAA
1 TTTTTTAGTTTTAATTAA
8374584 ACAATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
20 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTTTAGTTTTAATTAA
Found at i:8374613 original size:15 final size:15
Alignment explanation
Indices: 8374595--8374628 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8374585 CAATATTATT
8374595 ATTACTATTATTAAA
1 ATTACTATTATTAAA
* *
8374610 ATTATTATTATTAAT
1 ATTACTATTATTAAA
8374625 ATTA
1 ATTA
8374629 AGCAAAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTACTATTATTAAA
Found at i:8374983 original size:90 final size:90
Alignment explanation
Indices: 8374828--8375068 Score: 243
Period size: 90 Copynumber: 2.6 Consensus size: 90
8374818 CTTACTCGAA
* ** * * * * *
8374828 GCTCAACAATTTTAAAAAATCCATCTTAAAAGGCTCCTCTTAGCAGATGCTCAACAACTTTAAAA
1 GCTCAACAACTTT-AAAAATCCA--GAAAAAAGCTCATCTAAGCAGAAGCTCAATAACTTTAAAA
* *
8374893 ATTCTTGAAAAAACTCCTCTAAAG-AAAG
63 ATCCTTGAAAAAACTCATCT-AAGCAAAG
** * * *
8374921 GCTCAACAACTTTAAAAATTCTTGAAAAAA-CTCATCTAAGCAGAGGTTTAATAACTTTAAAAAT
1 GCTCAACAACTTTAAAAA-TCCAGAAAAAAGCTCATCTAAGCAGAAGCTCAATAACTTTAAAAAT
** * *
8374985 CCTTGAAAAAGGTCATCTTAGCAGAG
65 CCTTGAAAAAACTCATCTAAGCAAAG
*
8375011 GCTCAACAACTTTAAAAATCCAGAAAAAAGCTCATCTCAGCAGAAGCTCAATAACTTT
1 GCTCAACAACTTTAAAAATCCAGAAAAAAGCTCATCTAAGCAGAAGCTCAATAACTTT
8375069 TAAAGATTTA
Statistics
Matches: 121, Mismatches: 24, Indels: 9
0.79 0.16 0.06
Matches are distributed among these distances:
89 11 0.09
90 87 0.72
91 4 0.03
92 5 0.04
93 14 0.12
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.26
Consensus pattern (90 bp):
GCTCAACAACTTTAAAAATCCAGAAAAAAGCTCATCTAAGCAGAAGCTCAATAACTTTAAAAATC
CTTGAAAAAACTCATCTAAGCAAAG
Found at i:8375162 original size:51 final size:51
Alignment explanation
Indices: 8375034--8375679 Score: 445
Period size: 51 Copynumber: 13.2 Consensus size: 51
8375024 AAAAATCCAG
* * * * * *
8375034 AAAAAAGCTCATCTCAGCAGAAGCTCAATAACTTTTAAAGATT-TAAAACCTG-
1 AAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTTAAA-ATTCT--ATCTTGA
* * *
8375086 AAAAAGGTTCCTCTCAACAGAGGCTCAACAATTTTTAAAATTCTATCTTGA
1 AAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTTAAAATTCTATCTTGA
8375137 AAAAAAGCTTCCT-TCAACAGAGGCTCAACAAC-TTTAAAATTCTATCTTGA
1 AAAAAAGC-TCCTCTCAACAGAGGCTCAACAACTTTTAAAATTCTATCTTGA
* * * *
8375187 AAAAATA-CTCATCTCAACAGAGGGTCAATAACTTTAAAAATTCTTATCTTG-
1 AAAAA-AGCTCCTCTCAACAGAGGCTCAACAACTTTTAAAATTC-TATCTTGA
* * *
8375238 AAAAAGGCTCCTCTCAACAAAGGCTTAACAACTTTTAAAATTCTATCTTGA
1 AAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTTAAAATTCTATCTTGA
* * * * * * *
8375289 AAAAAGGCT--T-T-AGCATAAGCTAAACAAC-TTTAAATTTCTAACTTG-
1 AAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTTAAAATTCTATCTTGA
* * * **
8375334 AAAAAGGCTCATCTCAACAGAGGCTCAATAACTTAAAAAATTCTTATCTTG-
1 AAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTTAAAATTC-TATCTTGA
* * *
8375385 -AAAAAGCTCCTCTCAGCAGAAGGCTCAACAACTTGTAAAATTTTATCTTAGA
1 AAAAAAGCTCCTCTCAACAG-AGGCTCAACAACTTTTAAAATTCTATCTT-GA
* * * * *
8375437 AAAAAGGCTCCTCTCAGCAAAGGCTTAAACAAC-TTTAAAA-TCCATCTTG-
1 AAAAAAGCTCCTCTCAACAGAGGC-TCAACAACTTTTAAAATTCTATCTTGA
* * * * *
8375486 AAAAAGGCTCATCTTAACAAAGGCTCAAAAAC-TTTAAAATT-TCATCTT-A
1 AAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTTAAAATTCT-ATCTTGA
* *
8375535 AAAAAAGCT-CT-TCAAGCAGAGGCTTAACAAC-TTTAAAAAT-T-T-TT-A
1 AAAAAAGCTCCTCTCAA-CAGAGGCTCAACAACTTTTAAAATTCTATCTTGA
*
8375580 AAAAAA--TCCTCTCAACAGAAGTCTCAAC-AC-TTT--AA---TATCTTG-
1 AAAAAAGCTCCTCTCAACAG-AGGCTCAACAACTTTTAAAATTCTATCTTGA
* * * * *
8375622 AAAAAGGCTCCTCT-AACA-AAGCTAAACAAC-TTTAAATTTCTAACTTGA
1 AAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTTAAAATTCTATCTTGA
*
8375670 AAAAAGGCTC
1 AAAAAAGCTC
8375680 AATCTTTTGA
Statistics
Matches: 483, Mismatches: 72, Indels: 82
0.76 0.11 0.13
Matches are distributed among these distances:
40 1 0.00
41 7 0.01
42 14 0.03
43 5 0.01
44 17 0.04
45 29 0.06
46 16 0.03
47 23 0.05
48 47 0.10
49 51 0.11
50 82 0.17
51 113 0.23
52 54 0.11
53 24 0.05
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (51 bp):
AAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTTAAAATTCTATCTTGA
Found at i:8375176 original size:50 final size:50
Alignment explanation
Indices: 8374855--8375679 Score: 489
Period size: 45 Copynumber: 17.2 Consensus size: 50
8374845 AATCCATCTT
* * * * *
8374855 AAAAGGCTCCTCTTAGCAGATGCTCAACAACTTTAAAA--AT-TCTTG-A
1 AAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTATCTTGAA
* * * *
8374901 AAAAA-CTCCTCTAAAGAAAGGCTCAACAACTTTAAAA--AT-TCTTG-A
1 AAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTATCTTGAA
* * * * *
8374946 AAAAA-CTCATCT-AAGCAGAGGTTTAATAACTTTAAAAATC---CTTG--
1 AAAAAGCTCCTCTCAA-CAGAGGCTCAACAACTTTAAAATTCTATCTTGAA
* * * * **
8374990 AAAAAGGTCATCTTAGCAGAGGCTCAACAACTTTAAAA----ATCCAG-A
1 AAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTATCTTGAA
* * * * * *
8375035 AAAAAGCTCATCTCAGCAGAAGCTCAATAACTTTTAAAGATT-TAAAACCTG-A
1 AAAAAGCTCCTCTCAACAGAGGCTCAACAAC-TTTAAA-ATTCT--ATCTTGAA
* * *
8375087 AAAAGGTTCCTCTCAACAGAGGCTCAACAATTTTTAAAATTCTATCTTGAA
1 AAAAAGCTCCTCTCAACAGAGGCTCAACAA-CTTTAAAATTCTATCTTGAA
8375138 AAAAAGCTTCCT-TCAACAGAGGCTCAACAACTTTAAAATTCTATCTTGAA
1 AAAAAGC-TCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTATCTTGAA
* * *
8375188 AAAATA-CTCATCTCAACAGAGGGTCAATAACTTTAAAAATTCTTATCTTG-A
1 AAAA-AGCTCCTCTCAACAGAGGCTCAACAACTTT-AAAATTC-TATCTTGAA
* * *
8375239 AAAAGGCTCCTCTCAACAAAGGCTTAACAACTTTTAAAATTCTATCTTGAA
1 AAAAAGCTCCTCTCAACAGAGGCTCAACAAC-TTTAAAATTCTATCTTGAA
* * * * * * *
8375290 AAAAGGCT--T-T-AGCATAAGCTAAACAACTTTAAATTTCTAACTTG-A
1 AAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTATCTTGAA
* * * *
8375335 AAAAGGCTCATCTCAACAGAGGCTCAATAACTTAAAAAATTCTTATCTTG--
1 AAAAAGCTCCTCTCAACAGAGGCTCAACAACTT-TAAAATTC-TATCTTGAA
* *
8375385 AAAAAGCTCCTCTCAGCAGAAGGCTCAACAACTTGTAAAATTTTATCTTAGAA
1 AAAAAGCTCCTCTCAACAG-AGGCTCAACAACTT-TAAAATTCTATCTT-GAA
* * * * *
8375438 AAAAGGCTCCTCTCAGCAAAGGCTTAAACAACTTTAAAA-TCCATCTTG-A
1 AAAAAGCTCCTCTCAACAGAGGC-TCAACAACTTTAAAATTCTATCTTGAA
* * * * *
8375487 AAAAGGCTCATCTTAACAAAGGCTCAAAAACTTTAAAATT-TCATCTT-AA
1 AAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCT-ATCTTGAA
* *
8375536 AAAAAGCT-CT-TCAAGCAGAGGCTTAACAACTTTAAAAAT-T-T-TT-AA
1 AAAAAGCTCCTCTCAA-CAGAGGCTCAACAACTTTAAAATTCTATCTTGAA
*
8375581 AAAAA--TCCTCTCAACAGAAGTCTCAAC-ACTTT--AA---TATCTTG-A
1 AAAAAGCTCCTCTCAACAG-AGGCTCAACAACTTTAAAATTCTATCTTGAA
* * * * *
8375623 AAAAGGCTCCTCT-AACA-AAGCTAAACAACTTTAAATTTCTAACTTGAA
1 AAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTATCTTGAA
*
8375671 AAAAGGCTC
1 AAAAAGCTC
8375680 AATCTTTTGA
Statistics
Matches: 629, Mismatches: 94, Indels: 110
0.76 0.11 0.13
Matches are distributed among these distances:
40 1 0.00
41 7 0.01
42 14 0.02
43 5 0.01
44 26 0.04
45 148 0.24
46 27 0.04
47 24 0.04
48 47 0.07
49 53 0.08
50 84 0.13
51 108 0.17
52 59 0.09
53 26 0.04
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (50 bp):
AAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTATCTTGAA
Found at i:8375240 original size:152 final size:148
Alignment explanation
Indices: 8374855--8375575 Score: 621
Period size: 152 Copynumber: 4.9 Consensus size: 148
8374845 AATCCATCTT
* * * * * * * *
8374855 AAAAGGCTCCTCTTAGCAGATGCTCAACAACTTTAAAA-AT-TCTTGAAAAA-ACTCCTCTAAAG
1 AAAAGGCTCCT-TCAGCAGAGGCTAAACAACTTTAAAATCTATCTTGAAAAAGGCTCATCTCAAC
* * * * * * *
8374917 AAAGGCTCAACAACTTTAAAAA---T-TCTTGAAAAA-ACTCATCT-AAGCAGAGGTTTAATAAC
65 AGAGGCTCAATAACTTTAAAAATTTTATCTTGAAAAAGGCTCCTCTCAA-CAGAGGCTCAACAAC
*
8374976 -TTTAAAAATC---CTTG-A
129 TTTTAAAATTCTATCTTGAA
* ** * *
8374991 AAAAGG-TCATCTT-AGCAGAGGCTCAACAACTTTAAAA---ATCCAGAAAAAAGCTCATCTCAG
1 AAAAGGCTC--CTTCAGCAGAGGCTAAACAACTTTAAAATCTATCTTGAAAAAGGCTCATCTCAA
* * * * * *
8375051 CAGAAGCTCAATAACTTTTAAAGATTTAAAACCTGAAAAAGGTTCCTCTCAACAGAGGCTCAACA
64 CAGAGGCTCAATAAC-TTTAAAAATTT-TATCTTGAAAAAGGCTCCTCTCAACAGAGGCTCAACA
*
8375116 ATTTTTAAAATTCTATCTTGAA
127 ACTTTTAAAATTCTATCTTGAA
* * * **
8375138 AAAAAGCTTCCTTCAACAGAGGCTCAACAACTTTAAAATTCTATCTTGAAAAAATACTCATCTCA
1 AAAAGGC-TCCTTCAGCAGAGGCTAAACAACTTTAAAA-TCTATCTTG-AAAAAGGCTCATCTCA
* * *
8375203 ACAGAGGGTCAATAACTTTAAAAATTCTTATCTTGAAAAAGGCTCCTCTCAACAAAGGCTTAACA
63 ACAGAGGCTCAATAACTTTAAAAATT-TTATCTTGAAAAAGGCTCCTCTCAACAGAGGCTCAACA
8375268 ACTTTTAAAATTCTATCTTGAA
127 ACTTTTAAAATTCTATCTTGAA
* * * *
8375290 AAAAGGCT--TT-AGCATAAGCTAAACAACTTTAAATTTCTAACTTGAAAAAGGCTCATCTCAAC
1 AAAAGGCTCCTTCAGCAGAGGCTAAACAACTTTAAA-ATCTATCTTGAAAAAGGCTCATCTCAAC
* *
8375352 AGAGGCTCAATAACTTAAAAAATTCTTATCTTGAAAAA-GCTCCTCTCAGCAGAAGGCTCAACAA
65 AGAGGCTCAATAACTTTAAAAATT-TTATCTTGAAAAAGGCTCCTCTCAACAG-AGGCTCAACAA
* *
8375416 CTTGTAAAATTTTATCTTAGAA
128 CTTTTAAAATTCTATCTT-GAA
* * *
8375438 AAAAGGCTCCTCTCAGCAAAGGCTTAAACAACTTTAAAATCCATCTTGAAAAAGGCTCATCTTAA
1 AAAAGGCTCCT-TCAGCAGAGGC-TAAACAACTTTAAAATCTATCTTGAAAAAGGCTCATCTCAA
* * * * * *
8375503 CAAAGGCTCAAAAACTTT-AAAATTTCATCTTAAAAAAAGCT-CT-TCAAGCAGAGGCTTAACAA
64 CAGAGGCTCAATAACTTTAAAAATTTTATCTTGAAAAAGGCTCCTCTCAA-CAGAGGCTCAACAA
*
8375565 CTTTAAAAATT
128 CTTTTAAAATT
8375576 TTTAAAAAAA
Statistics
Matches: 478, Mismatches: 71, Indels: 59
0.79 0.12 0.10
Matches are distributed among these distances:
134 8 0.02
135 43 0.09
136 14 0.03
137 2 0.00
141 8 0.02
142 16 0.03
143 11 0.02
146 16 0.03
147 87 0.18
148 61 0.13
149 26 0.05
150 17 0.04
151 11 0.02
152 116 0.24
153 42 0.09
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.27
Consensus pattern (148 bp):
AAAAGGCTCCTTCAGCAGAGGCTAAACAACTTTAAAATCTATCTTGAAAAAGGCTCATCTCAACA
GAGGCTCAATAACTTTAAAAATTTTATCTTGAAAAAGGCTCCTCTCAACAGAGGCTCAACAACTT
TTAAAATTCTATCTTGAA
Found at i:8375351 original size:248 final size:247
Alignment explanation
Indices: 8375084--8375541 Score: 597
Period size: 248 Copynumber: 1.9 Consensus size: 247
8375074 ATTTAAAACC
* * * **
8375084 TGAAAAAGGTTCCTCTCAACAGAGGCTCAACAATTTTTAAAATTC-TATCTTGAAAAAAAGCTTC
1 TGAAAAAGGCTCATCTCAACAGAGGCTCAACAACTTAAAAAATTCTTATCTTG--AAAAAGC-TC
* *
8375148 CT-TCAACAG-AGGCTCAACAACTT-TAAAATTCTATCTT-GAAAAAATACTCATCTCAACAGAG
63 CTCTCAACAGAAGGCTCAACAACTTGTAAAATTCTATCTTAGAAAAAAGACTCATCTCAACAAAG
* * * * * *
8375209 G-GTCAATAACTTTAAAAATTCTTATCTTGAAAAAGGCTCCTCTCAACAAAGGCTTAACAACTTT
128 GCGTAAACAACTTT-AAAA-TC-CATCTTGAAAAAGGCTCATCTCAACAAAGGCTCAAAAAC-TT
*
8375273 TAAAA-TTCTATCTTGAAAAAAGGCTTTAGCATAAGCTAAACAACTTTAAATTTCTAACT
189 TAAAATTTC-ATCTTAAAAAAAGGCTTTAGCATAAGCTAAACAACTTTAAATTTCTAACT
*
8375332 TGAAAAAGGCTCATCTCAACAGAGGCTCAATAACTTAAAAAATTCTTATCTTGAAAAAGCTCCTC
1 TGAAAAAGGCTCATCTCAACAGAGGCTCAACAACTTAAAAAATTCTTATCTTGAAAAAGCTCCTC
* * * * * *
8375397 TCAGCAGAAGGCTCAACAACTTGTAAAATTTTATCTTAGAAAAAAGGCTCCTCTCAGCAAAGGCT
66 TCAACAGAAGGCTCAACAACTTGTAAAATTCTATCTTAGAAAAAAGACTCATCTCAACAAAGGCG
*
8375462 TAAACAACTTTAAAATCCATCTTGAAAAAGGCTCATCTTAACAAAGGCTCAAAAACTTTAAAATT
131 TAAACAACTTTAAAATCCATCTTGAAAAAGGCTCATCTCAACAAAGGCTCAAAAACTTTAAAATT
8375527 TCATCTTAAAAAAAG
196 TCATCTTAAAAAAAG
8375542 CTCTTCAAGC
Statistics
Matches: 181, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
246 4 0.02
247 32 0.18
248 90 0.50
249 22 0.12
250 24 0.13
251 9 0.05
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (247 bp):
TGAAAAAGGCTCATCTCAACAGAGGCTCAACAACTTAAAAAATTCTTATCTTGAAAAAGCTCCTC
TCAACAGAAGGCTCAACAACTTGTAAAATTCTATCTTAGAAAAAAGACTCATCTCAACAAAGGCG
TAAACAACTTTAAAATCCATCTTGAAAAAGGCTCATCTCAACAAAGGCTCAAAAACTTTAAAATT
TCATCTTAAAAAAAGGCTTTAGCATAAGCTAAACAACTTTAAATTTCTAACT
Found at i:8375500 original size:16 final size:16
Alignment explanation
Indices: 8375479--8375512 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8375469 CTTTAAAATC
8375479 CATCTTGAA-AAAGGCT
1 CATCTT-AACAAAGGCT
8375495 CATCTTAACAAAGGCT
1 CATCTTAACAAAGGCT
8375511 CA
1 CA
8375513 AAAACTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (16 bp):
CATCTTAACAAAGGCT
Found at i:8388562 original size:25 final size:25
Alignment explanation
Indices: 8388534--8388584 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
8388524 TTTTTTTCTC
**
8388534 TTTTTTGATTCTGACTTTCTTTTTT
1 TTTTTTGAAACTGACTTTCTTTTTT
*
8388559 TTTTTTGAAACTGACTTTGTTTTTT
1 TTTTTTGAAACTGACTTTCTTTTTT
8388584 T
1 T
8388585 CTTTGTGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.10, G:0.10, T:0.69
Consensus pattern (25 bp):
TTTTTTGAAACTGACTTTCTTTTTT
Found at i:8389064 original size:20 final size:18
Alignment explanation
Indices: 8389041--8389078 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 18
8389031 ACTTTTTACT
8389041 TTTTTTAGATTTTTAATTAA
1 TTTTTTAG--TTTTAATTAA
8389061 TTTTTTAGTTTTAATTAA
1 TTTTTTAGTTTTAATTAA
8389079 ACCAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
20 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTTTAGTTTTAATTAA
Found at i:8389109 original size:15 final size:15
Alignment explanation
Indices: 8389091--8389124 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8389081 CAATATTATT
8389091 ATTACTATTATTAAA
1 ATTACTATTATTAAA
* *
8389106 ATTATTATTATTAAT
1 ATTACTATTATTAAA
8389121 ATTA
1 ATTA
8389125 AGCAAGAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTACTATTATTAAA
Found at i:8389520 original size:33 final size:33
Alignment explanation
Indices: 8389473--8389537 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
8389463 AAAATTGTTA
* *
8389473 AGCCTTTAGGTTAGAGGAGTCTTTCAAATATCAT
1 AGCCTTTAGGTTAGAAGACTCTTTCAAA-ATCAT
*
8389507 AGCCTTT-GGTTAGAAGACTTTTTCAAAATCA
1 AGCCTTTAGGTTAGAAGACTCTTTCAAAATCA
8389538 GGCATGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 17 0.61
34 7 0.25
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
AGCCTTTAGGTTAGAAGACTCTTTCAAAATCAT
Found at i:8389752 original size:33 final size:33
Alignment explanation
Indices: 8389693--8389806 Score: 106
Period size: 33 Copynumber: 3.5 Consensus size: 33
8389683 CTTTAGTCAA
* * **
8389693 AGGAGTTTTTTAAGTGCCATAACCTTTGGTTAG
1 AGGAGTTTTTAAAGTGCCATAGCCTTTAATTAG
* *
8389726 AGGAGTTTTTAAAGT-CTCATTGCCTTTAGTTAG
1 AGGAGTTTTTAAAGTGC-CATAGCCTTTAATTAG
** * *
8389759 ATAAGTTTTGCAAA-TGCCATAGCCTTTAATTAT
1 AGGAGTTTT-TAAAGTGCCATAGCCTTTAATTAG
8389792 AGGAGTTTTTAAAGT
1 AGGAGTTTTTAAAGT
8389807 CTTATTGACT
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
32 4 0.06
33 56 0.88
34 4 0.06
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.40
Consensus pattern (33 bp):
AGGAGTTTTTAAAGTGCCATAGCCTTTAATTAG
Found at i:8389796 original size:66 final size:66
Alignment explanation
Indices: 8389707--8389837 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
8389697 GTTTTTTAAG
** * *
8389707 TGCCATAACCTTTGGTTAGAGGAGTTTTTAAAGTCTCATTGCCT-TTAGTTAGATAAGTTTTGCA
1 TGCCATAACCTTTAATTAGAGGAGTTTTTAAAGTCTCATTGACTCTTA-TTAGAGAAGTTTTGCA
8389771 AA
65 AA
* * * *
8389773 TGCCATAGCCTTTAATTATAGGAGTTTTTAAAGTCTTATTGACTCTTATTAGAGGAGTTTTGCAA
1 TGCCATAACCTTTAATTAGAGGAGTTTTTAAAGTCTCATTGACTCTTATTAGAGAAGTTTTGCAA
8389838 GTGTTATAAC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 53 0.95
67 3 0.05
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.40
Consensus pattern (66 bp):
TGCCATAACCTTTAATTAGAGGAGTTTTTAAAGTCTCATTGACTCTTATTAGAGAAGTTTTGCAA
A
Found at i:8389862 original size:66 final size:66
Alignment explanation
Indices: 8389726--8389866 Score: 158
Period size: 66 Copynumber: 2.1 Consensus size: 66
8389716 CTTTGGTTAG
* * * * *
8389726 AGGAGTTTTTAAAGTCTCATTGCCTTTAGTTAGATAAGTTTTGCAAATGCCATAGCCTTTAATTA
1 AGGAGTTTTTAAAGTCTCATTGACTTTAGTTAGAGAAGTTTTGCAAATGCCATAACCTCTAATAA
*
8389791 T
66 A
* * * ** *
8389792 AGGAGTTTTTAAAGTCTTATTGACTCTTA-TTAGAGGAGTTTTGCAAGTGTTATAACCTCTAGTA
1 AGGAGTTTTTAAAGTCTCATTGACT-TTAGTTAGAGAAGTTTTGCAAATGCCATAACCTCTAATA
8389856 AA
65 AA
8389858 AGGAGTTTT
1 AGGAGTTTT
8389867 GCAAATCTAA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
66 59 0.95
67 3 0.05
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.40
Consensus pattern (66 bp):
AGGAGTTTTTAAAGTCTCATTGACTTTAGTTAGAGAAGTTTTGCAAATGCCATAACCTCTAATAA
A
Found at i:8389884 original size:33 final size:33
Alignment explanation
Indices: 8389825--8389887 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
8389815 CTCTTATTAG
* * *
8389825 AGGAGTTTTGCAAGTGTTATAACCTCTAGTAAA
1 AGGAGTTTTGCAAATCTAATAACCTCTAGTAAA
*
8389858 AGGAGTTTTGCAAATCTAATAGCCTCTAGT
1 AGGAGTTTTGCAAATCTAATAACCTCTAGT
8389888 TGGAAGAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (33 bp):
AGGAGTTTTGCAAATCTAATAACCTCTAGTAAA
Found at i:8390019 original size:41 final size:40
Alignment explanation
Indices: 8389958--8390058 Score: 114
Period size: 41 Copynumber: 2.5 Consensus size: 40
8389948 TCTCTGAAGC
** * * *
8389958 TTTAAAATTCAAAATAGTAAATCCTCTAGTTAGGAAAG-TTT
1 TTTAAAATTTTAAATTGTAAAGCCTCTAATTA--AAAGATTT
8389999 TTTAAAATTTTAAATTGTAAAGCCTCTAATTAAAAGAATTT
1 TTTAAAATTTTAAATTGTAAAGCCTCTAATTAAAAG-ATTT
8390040 TTTAAAATTTTAAACTTGT
1 TTTAAAATTTTAAA-TTGT
8390059 TGACCTTTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
39 4 0.08
41 44 0.85
42 4 0.08
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (40 bp):
TTTAAAATTTTAAATTGTAAAGCCTCTAATTAAAAGATTT
Found at i:8391445 original size:21 final size:22
Alignment explanation
Indices: 8391416--8391459 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
8391406 AGGCTAAGAA
*
8391416 GATTATTTTGGAACT-TTTTAG
1 GATTATTTTGCAACTATTTTAG
*
8391437 GATTTTTTTGCAACTATTTTAG
1 GATTATTTTGCAACTATTTTAG
8391459 G
1 G
8391460 TTGTCGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.52
Consensus pattern (22 bp):
GATTATTTTGCAACTATTTTAG
Found at i:8391883 original size:32 final size:31
Alignment explanation
Indices: 8391811--8391890 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 31
8391801 TTCTAAGTTT
*
8391811 TTCCTTTTTTATTT-TTTATTTTGATTTTAC
1 TTCCTTATTTATTTATTTATTTTGATTTTAC
*
8391841 TTCTTTATTTATTTATTTACTTATT-ATTTATA-
1 TTCCTTATTTATTTATTTA-TT-TTGATTT-TAC
*
8391873 TTCCTTATTTAATTATTT
1 TTCCTTATTTATTTATTT
8391891 TTAAATAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
30 12 0.29
31 4 0.10
32 22 0.52
33 4 0.10
ACGTcount: A:0.20, C:0.09, G:0.01, T:0.70
Consensus pattern (31 bp):
TTCCTTATTTATTTATTTATTTTGATTTTAC
Found at i:8392474 original size:22 final size:21
Alignment explanation
Indices: 8392449--8392499 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
8392439 ATATTTTTTC
*
8392449 AATATAAA-AATATGAAAATATA
1 AATATAAACAATA--AAAAAATA
8392471 AATA-AAACAATAAAAAAATA
1 AATATAAACAATAAAAAAATA
8392491 AATAGTAAA
1 AATA-TAAA
8392500 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 11 0.44
21 3 0.12
22 11 0.44
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (21 bp):
AATATAAACAATAAAAAAATA
Found at i:8392767 original size:3 final size:3
Alignment explanation
Indices: 8392759--8392787 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8392749 AAACAAAGTA
8392759 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8392788 AGCAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8395046 original size:21 final size:21
Alignment explanation
Indices: 8395022--8395079 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
8395012 CTGTTTTGAT
8395022 TTTATTTTTTTATTTATTAAA
1 TTTATTTTTTTATTTATTAAA
8395043 TTTATTTTTTTATTTATTAAA
1 TTTATTTTTTTATTTATTAAA
* *
8395064 TTTGTTTTCTTATTTA
1 TTTATTTTTTTATTTA
8395080 ATTATTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTATTTTTTTATTTATTAAA
Found at i:8395066 original size:17 final size:17
Alignment explanation
Indices: 8395025--8395089 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 17
8395015 TTTTGATTTT
8395025 ATTTTTTTATTTATTAAA
1 ATTTTTTTATTTATT-AA
8395043 TTTATTTTTTTATTTATTAA
1 ---ATTTTTTTATTTATTAA
* *
8395063 ATTTGTTTT-CTTATTTA
1 ATTT-TTTTATTTATTAA
8395080 ATTATTTTTA
1 ATT-TTTTTA
8395090 ACAAATAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 17 0.44
18 5 0.13
20 2 0.05
21 15 0.38
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
ATTTTTTTATTTATTAA
Found at i:8395668 original size:23 final size:23
Alignment explanation
Indices: 8395638--8395699 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
8395628 TATTTTCAAT
8395638 ATAAAAATATAAA-AACAAAAATA
1 ATAAAAATATAAATAA-AAAAATA
* * *
8395661 ATGAAAATGTAAATAAAATAATA
1 ATAAAAATATAAATAAAAAAATA
*
8395684 ATAAAAAT-CAAATAAA
1 ATAAAAATATAAATAAA
8395700 TAATAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 7 0.21
23 24 0.73
24 2 0.06
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (23 bp):
ATAAAAATATAAATAAAAAAATA
Found at i:8395703 original size:18 final size:17
Alignment explanation
Indices: 8395671--8395708 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
8395661 ATGAAAATGT
8395671 AAATAAAATAATAATAA
1 AAATAAAATAATAATAA
*
8395688 AAATCAAATAAATAATAA
1 AAATAAAAT-AATAATAA
8395706 AAA
1 AAA
8395709 AGAAATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAAATAATAATAA
Found at i:8395714 original size:18 final size:18
Alignment explanation
Indices: 8395676--8395716 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8395666 AATGTAAATA
*
8395676 AAAT-AATAATAAAAATC
1 AAATAAATAATAAAAAAC
*
8395693 AAATAAATAATAAAAAAG
1 AAATAAATAATAAAAAAC
8395711 AAATAA
1 AAATAA
8395717 CATAGTACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (18 bp):
AAATAAATAATAAAAAAC
Found at i:8395788 original size:17 final size:16
Alignment explanation
Indices: 8395768--8395814 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
8395758 AATTTAACAT
*
8395768 AAATACTTATTTTTAAA
1 AAATACTT-TTTTAAAA
* *
8395785 AAATGCTTTTTAAAAA
1 AAATACTTTTTTAAAA
8395801 AAATACTTTTTTAA
1 AAATACTTTTTTAA
8395815 TGAATGGTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (16 bp):
AAATACTTTTTTAAAA
Found at i:8396042 original size:3 final size:3
Alignment explanation
Indices: 8396034--8396115 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
8396024 AAACGAAGTA
8396034 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8396082 -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8396116 GCAAAAAAAG
Statistics
Matches: 78, Mismatches: 0, Indels: 2
0.98 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 76 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8399152 original size:30 final size:30
Alignment explanation
Indices: 8399113--8399194 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
8399103 CAAATAATAA
*
8399113 AAGTAATTAAATT-TTAATTTGTATCTAAAT
1 AAGTAATT-AATTGTTAATTTATATCTAAAT
* *
8399143 AAGTTATTAATTGTTAATTTATATTTAAAT
1 AAGTAATTAATTGTTAATTTATATCTAAAT
**
8399173 AAGTGTTTAATATAGTTAATTT
1 AAGTAATTAAT-T-GTTAATTT
8399195 TTTATTTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
29 4 0.09
30 31 0.70
31 1 0.02
32 8 0.18
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.50
Consensus pattern (30 bp):
AAGTAATTAATTGTTAATTTATATCTAAAT
Found at i:8400818 original size:27 final size:27
Alignment explanation
Indices: 8400765--8400820 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
8400755 GTAGTAAGTG
** *
8400765 TATCAAATTCTAATTCATGTATATAAT
1 TATCAAATTCTAACACATATATATAAT
*
8400792 TATCAAATTCTAACACATATATGTAAT
1 TATCAAATTCTAACACATATATATAAT
8400819 TA
1 TA
8400821 AACATAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (27 bp):
TATCAAATTCTAACACATATATATAAT
Found at i:8401003 original size:2 final size:2
Alignment explanation
Indices: 8400979--8401022 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
8400969 TCTATCAATC
* *
8400979 TA TA TC TA TA -A TT TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8401019 TA TA
1 TA TA
8401023 AAAGGATAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8401683 original size:23 final size:25
Alignment explanation
Indices: 8401657--8401706 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
8401647 AAATAAAATT
*
8401657 ATAAAAT-TTTTAAATCAAA-ATAA
1 ATAAAATCTTATAAATCAAATATAA
* *
8401680 ATAATATCTTATAAATTAAATATAA
1 ATAAAATCTTATAAATCAAATATAA
8401705 AT
1 AT
8401707 CTCTACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 6 0.27
24 10 0.45
25 6 0.27
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAAAATCTTATAAATCAAATATAA
Found at i:8403106 original size:21 final size:20
Alignment explanation
Indices: 8403066--8403115 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
8403056 ATAATTTTTT
* *
8403066 AAATAAGATTATTTGGTAAA
1 AAATAAAATTATTTAGTAAA
* *
8403086 CAACTAAAATTATTTATTAAA
1 -AAATAAAATTATTTAGTAAA
8403107 AAATAAAAT
1 AAATAAAAT
8403116 CCATATTTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (20 bp):
AAATAAAATTATTTAGTAAA
Found at i:8410007 original size:27 final size:27
Alignment explanation
Indices: 8409969--8410023 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
8409959 ATTCTAGGTT
8409969 TTCACTTCTTGTAGGGGTCCAAATAAG
1 TTCACTTCTTGTAGGGGTCCAAATAAG
8409996 TTCACTTCTTGTAGGGGTCCAAATAAG
1 TTCACTTCTTGTAGGGGTCCAAATAAG
8410023 T
1 T
8410024 ATGTGTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (27 bp):
TTCACTTCTTGTAGGGGTCCAAATAAG
Found at i:8423901 original size:12 final size:12
Alignment explanation
Indices: 8423884--8423913 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
8423874 GGGGATTATG
8423884 AATTGTTGTGTT
1 AATTGTTGTGTT
8423896 AATTGTTGTGTT
1 AATTGTTGTGTT
8423908 AATTGT
1 AATTGT
8423914 AATGTTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (12 bp):
AATTGTTGTGTT
Found at i:8424247 original size:12 final size:12
Alignment explanation
Indices: 8424230--8424259 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8424220 TATGGGCTCC
8424230 ATCTAAAATATA
1 ATCTAAAATATA
8424242 ATCTAAAATATA
1 ATCTAAAATATA
*
8424254 AACTAA
1 ATCTAA
8424260 GGTATCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (12 bp):
ATCTAAAATATA
Found at i:8425438 original size:20 final size:20
Alignment explanation
Indices: 8425415--8425460 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
8425405 ATCAAACTCG
8425415 GTCAAAC-AAAGTTAAAATTA
1 GTCAAACTAAA-TTAAAATTA
* *
8425435 GTCAAACTTAATTAAAATTG
1 GTCAAACTAAATTAAAATTA
8425455 GTCAAA
1 GTCAAA
8425461 TTTGATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (20 bp):
GTCAAACTAAATTAAAATTA
Found at i:8425468 original size:20 final size:20
Alignment explanation
Indices: 8425426--8425471 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
8425416 TCAAACAAAG
8425426 TTAAAATTAGTCAAACTTAA
1 TTAAAATTAGTCAAACTTAA
* * *
8425446 TTAAAATTGGTCAAATTTGA
1 TTAAAATTAGTCAAACTTAA
8425466 TTAAAA
1 TTAAAA
8425472 CAAATAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.37
Consensus pattern (20 bp):
TTAAAATTAGTCAAACTTAA
Found at i:8427036 original size:19 final size:19
Alignment explanation
Indices: 8427012--8427067 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
8427002 ATCTTAAATT
* *
8427012 CTAAACCCTAAATCACGTG
1 CTAAACCCTAAACCACCTG
*
8427031 CTAAACCCTAAACCACCTT
1 CTAAACCCTAAACCACCTG
* *
8427050 CTAAATCCTAAACAACCT
1 CTAAACCCTAAACCACCT
8427068 TTCAAAATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.39, C:0.36, G:0.04, T:0.21
Consensus pattern (19 bp):
CTAAACCCTAAACCACCTG
Found at i:8428790 original size:5 final size:6
Alignment explanation
Indices: 8428773--8428803 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
8428763 AGCAAAAATT
8428773 CAAAAA CAAAAAA CAAAAA CAAAAA CAAAAA
1 CAAAAA C-AAAAA CAAAAA CAAAAA CAAAAA
8428804 TTTTCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:8432337 original size:14 final size:14
Alignment explanation
Indices: 8432320--8432349 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8432310 AAAGTGTATT
*
8432320 AAAAATGAAAAAAA
1 AAAAAAGAAAAAAA
8432334 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
8432348 AA
1 AA
8432350 GTTCTCTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (14 bp):
AAAAAAGAAAAAAA
Found at i:8433808 original size:203 final size:203
Alignment explanation
Indices: 8433054--8433833 Score: 782
Period size: 202 Copynumber: 3.9 Consensus size: 203
8433044 TGAATCTATA
* * * *
8433054 GTGACAATAAAATAAAACATCACCTTA-----TATTTTTTTTGTGATGTTAGTTTTCATCAGCTA
1 GTGACAATAAAATCAAACGTCACCTTATGCTTTATTTTTTTTGTAACGTTAGTTTTCATCAGCTA
* * * *
8433114 TTTATGAAAAAAAAATCATTAAAGGCTATATTCGTCACACAAAAAAAATGATAGAATCTAATATA
66 TTTATGAACAAAAAATCATTAAAGGCTATAATCGT--CACAAAATAAATGATA-AATCTGATATA
* * * * *
8433179 TTAGTGACAAAAGGTAAATCGTCACAATATTAGTGACAAAATTATCATCACCAATGATTATAAGA
128 TTAGTGACGAAAGGTAAATCATCACAATATTGGTGACATAATTATCATCACAAATGATTATAAGA
*
8433244 TAATGTC-TAC
193 TAATGTCAAAC
* * * * *
8433254 TGTGACAATAAAATCAAGCGTCACCTTATGCATTA--ATTTTTGTAATGTTAGTTTTCATTAGCT
1 -GTGACAATAAAATCAAACGTCACCTTATGCTTTATTTTTTTTGTAACGTTAGTTTTCATCAGCT
* * *
8433317 ATTTATAAACAAAAACATCATTAAAGGCTATAATCATCACAAAATAAATGATAAAACTGATATAT
65 ATTTATGAACAAAAA-ATCATTAAAGGCTATAATCGTCACAAAATAAATGATAAATCTGATATAT
** * * ** *
8433382 TAGTGAC-AATAGGTAAATTGTCATAATATTGGTGACACAATTATTGTCACGAATGATTATAAGA
129 TAGTGACGAA-AGGTAAATCATCACAATATTGGTGACATAATTATCATCACAAATGATTATAAGA
8433446 TAATGTCAAAC
193 TAATGTCAAAC
* * *
8433457 ATGACAATAAAATCAAACGTCACCTTATGCTTT-TTTTTATATG--ACGTTA-ATTTCATCAGCT
1 GTGACAATAAAATCAAACGTCACCTTATGCTTTATTTTT-TTTGTAACGTTAGTTTTCATCAGCT
* * * * * *
8433518 ATTTAT--ACAGAAGAATGCCATTGAAGGTTATAATTGTCACAAAATAAATGACAAAATTTGATA
65 ATTTATGAACA-AAAAAT--CATTAAAGGCTATAATCGTCACAAAATAAATGA-TAAATCTGATA
* * * * * * * *
8433581 TATCAATGACGAAAGGTAAATCATCATAGTCTTGGTAACATAATTATCATCACAAATGGTTGTAA
126 TATTAGTGACGAAAGGTAAATCATCACAATATTGGTGACATAATTATCATCACAAATGATTATAA
*
8433646 GATAACGTCAAAC
191 GATAATGTCAAAC
* * * ** *
8433659 GTGACAATAAAATCAAATGTCACATTATGCTTTATTTTTTTTGTAACATTAGTTTTTGTTAGCTA
1 GTGACAATAAAATCAAACGTCACCTTATGCTTTATTTTTTTTGTAACGTTAGTTTTCATCAGCTA
* * ** **
8433724 TTTATGAA-AAAAAGTCATTAGAGTTTATAATCGTCACAAAATAAATGATTAAGCCTGATATATT
66 TTTATGAACAAAAAATCATTAAAGGCTATAATCGTCACAAAATAAATGA-TAAATCTGATATATT
* * *
8433788 AGTGATGAAAGATAAATCATCACAGTATTGGTGACATAATTATCAT
130 AGTGACGAAAGGTAAATCATCACAATATTGGTGACATAATTATCAT
8433834 TATTAAATCC
Statistics
Matches: 479, Mismatches: 78, Indels: 42
0.80 0.13 0.07
Matches are distributed among these distances:
199 5 0.01
200 3 0.01
201 71 0.15
202 208 0.43
203 105 0.22
204 46 0.10
205 37 0.08
206 3 0.01
207 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.34
Consensus pattern (203 bp):
GTGACAATAAAATCAAACGTCACCTTATGCTTTATTTTTTTTGTAACGTTAGTTTTCATCAGCTA
TTTATGAACAAAAAATCATTAAAGGCTATAATCGTCACAAAATAAATGATAAATCTGATATATTA
GTGACGAAAGGTAAATCATCACAATATTGGTGACATAATTATCATCACAAATGATTATAAGATAA
TGTCAAAC
Found at i:8434697 original size:237 final size:235
Alignment explanation
Indices: 8434183--8434933 Score: 800
Period size: 236 Copynumber: 3.2 Consensus size: 235
8434173 TAATATAATA
* * *
8434183 TCATTAATAGTTAACTAAAGTGTTCAATTTATGAAAAAAATTA-ATAACGTTACCTAAAACCTAT
1 TCATTAATAGTTAACTAAAGTGTTCAATTTATGACAAAAATTAGATAACGTCACCTAAAATCTAT
* * * * * ** *
8434247 TAGAAAAAAATTTGTCACAAATAAAAATTTATATTGGTGACAAAATTATAACATTGCATAAGATA
66 TAG--AAAAATTTGTCACAGATAAAATTTTA-ATTAGTGAC-AATTTATAACGTCACATAAAATA
* * * *
8434312 AAAAAATGTCATAAAAAATTTTCTAT--CAAATAAATTTGACAGTAAAA-TTTATGACATTTATA
127 AAAAAACGTCACAAAAAATTTT-TTTCCCAAATAAATTTGACAGTAAAAGTTTGTGACATTTATA
* * * * *
8434374 TTTTCGTCATATAACGCCATAAATTGATGTAACGAAATTGAAATG
191 TTATCGTCATATAACACCATAAATTGATGTGATGAAATTGCAATG
* * * *
8434419 TCATTAATAATTAACTAAAGTATTCAATTTGTGACAAAAATTAGA-AACATCACCTAAAATCTAT
1 TCATTAATAGTTAACTAAAGTGTTCAATTTATGACAAAAATTAGATAACGTCACCTAAAATCTAT
* * * *
8434483 AAGAAAACATTTGTTATAGATAAAATTTTAAATTAGTGACACATTTATAACGTCACTTAAAATAA
66 TAGAAAA-ATTTGTCACAGATAAAATTTT-AATTAGTGACA-ATTTATAACGTCACATAAAATAA
* * *
8434548 AAAAA-GTCACAAAAAATTTTTTTCCCAAATAAAATTGACAGTAAAAGTTTGTGATATTTATGTT
128 AAAAACGTCACAAAAAATTTTTTTCCCAAATAAATTTGACAGTAAAAGTTTGTGACATTTATATT
* * * *
8434612 ATCGTCATATAATACCATAAAATAAAGATGATGAAATTGCAATG
193 ATCGTCATATAACACCATAAATTGATG-TGATGAAATTGCAATG
* * * *
8434656 TTATTAATAGTTAACTAAAGTGTT-ACATATATGACAAAAATT-GATAATGTCATCTAAAATCTA
1 TCATTAATAGTTAACTAAAGTGTTCA-ATTTATGACAAAAATTAGATAACGTCACCTAAAATCTA
** * * *
8434719 TTAGAAAAATTCATCACAGATAAAATTTT-A-CA---A-AATTTA-AATGTCACCTAAAATAAAA
65 TTAGAAAAATTTGTCACAGATAAAATTTTAATTAGTGACAATTTATAACGTCACATAAAATAAAA
* * * *
8434777 AAACGTCGCAAAAAA--ATTTTCACCAAATAAATTTGGCAATAAAAGTTTGTGACATTTATATTA
130 AAACGTCACAAAAAATTTTTTTC-CCAAATAAATTTGACAGTAAAAGTTTGTGACATTTATATTA
* *
8434840 TCATCATATAACACCATACATTGATGTGATGAAATTGCAATG
194 TCGTCATATAACACCATAAATTGATGTGATGAAATTGCAATG
* * *
8434882 TCATTAATAGTTAACTAAAGTGTTCAATTTGTGATAAAAATTA-ATAATGTCA
1 TCATTAATAGTTAACTAAAGTGTTCAATTTATGACAAAAATTAGATAACGTCA
8434934 TCATGTGACG
Statistics
Matches: 434, Mismatches: 67, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
226 66 0.15
227 77 0.18
228 15 0.03
229 1 0.00
230 1 0.00
233 3 0.01
234 20 0.05
235 67 0.15
236 113 0.26
237 71 0.16
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (235 bp):
TCATTAATAGTTAACTAAAGTGTTCAATTTATGACAAAAATTAGATAACGTCACCTAAAATCTAT
TAGAAAAATTTGTCACAGATAAAATTTTAATTAGTGACAATTTATAACGTCACATAAAATAAAAA
AACGTCACAAAAAATTTTTTTCCCAAATAAATTTGACAGTAAAAGTTTGTGACATTTATATTATC
GTCATATAACACCATAAATTGATGTGATGAAATTGCAATG
Found at i:8435199 original size:287 final size:280
Alignment explanation
Indices: 8434690--8435220 Score: 859
Period size: 287 Copynumber: 1.9 Consensus size: 280
8434680 ACATATATGA
*
8434690 CAAAAATTGATAATGTCATCTAAAATCTATTAGAAAAATTCATCACAGATAAAATTTTACAAAAT
1 CAAAAATTGATAACGTCATCTAAAATCTATTAGAAAAATTCATCACAGATAAAATTTTACAAAAT
* * *
8434755 TTAAATGTCACCTAAAATAAAAAAACGTCGCAAAAAAATTTTCACCAAATAAATTTGGCAATAAA
66 TTAAACGTCACCTAAAATAAAAAAACGTCACAAAAAAATTTTCACCAAATAAATTTGACAATAAA
* *
8434820 AGTTTGTGACATTTATATTATCATCATATAACACCATACATTGATGTGATGAAATTGCAATGTCA
131 AGTTTGTGACATTTATATTATCATCATAAAACACCATACATTGATGTGATGAAATTGCAATATCA
8434885 TTAATAGTTAACTAAAGTGTTCAATTTGTGATAAAAATTAATAATGTCATCATGTGACGATTTTA
196 TTAATAGTTAACTAAAGTGTTCAATTTGTGATAAAAATTAATAATGTCATCATGTGACGATTTTA
8434950 TGTACTGTCATATAAAATAT
261 TGTACTGTCATATAAAATAT
*
8434970 CAAAAATTGATAACGTCATCTAAAATCTATTAGAAAAATTCGTCACAGATAAAATTTTAAATTAG
1 CAAAAATTGATAACGTCATCTAAAATCTATTAGAAAAATTCATCACAGATAAAA---T---TT--
* * * *
8435035 TGATAAAATTTAAACGTCACTTGAAAT-AAAAAACGTTACAAAAAAA-TTTCACCAAATAAATTT
58 T-ACAAAATTTAAACGTCACCTAAAATAAAAAAACGTCACAAAAAAATTTTCACCAAATAAATTT
*
8435098 GACGATAAAAGTTTGTGACATTTATATTATCATCATAAAACACCATACATTGATGTGATGAAATT
122 GACAATAAAAGTTTGTGACATTTATATTATCATCATAAAACACCATACATTGATGTGATGAAATT
8435163 GCAATATCATTAATAGTTAACTAAAGTGTTCAATTTGTGATAAAAATTAATAATGTCA
187 GCAATATCATTAATAGTTAACTAAAGTGTTCAATTTGTGATAAAAATTAATAATGTCA
8435221 CCTAAAATCT
Statistics
Matches: 230, Mismatches: 12, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
280 52 0.23
283 1 0.00
286 2 0.01
287 136 0.59
288 18 0.08
289 21 0.09
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (280 bp):
CAAAAATTGATAACGTCATCTAAAATCTATTAGAAAAATTCATCACAGATAAAATTTTACAAAAT
TTAAACGTCACCTAAAATAAAAAAACGTCACAAAAAAATTTTCACCAAATAAATTTGACAATAAA
AGTTTGTGACATTTATATTATCATCATAAAACACCATACATTGATGTGATGAAATTGCAATATCA
TTAATAGTTAACTAAAGTGTTCAATTTGTGATAAAAATTAATAATGTCATCATGTGACGATTTTA
TGTACTGTCATATAAAATAT
Found at i:8435645 original size:20 final size:20
Alignment explanation
Indices: 8435620--8435685 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
8435610 GCATGCATAA
* *
8435620 AAAAAATAGAGGAGAAAAA-G
1 AAAAAA-AGAAGAAAAAAATG
8435640 AAAAAAAGAAGAAAAAAATG
1 AAAAAAAGAAGAAAAAAATG
*
8435660 AAAAAAAAAATGAAAAAAAATG
1 AAAAAAAGAA-G-AAAAAAATG
8435682 AAAA
1 AAAA
8435686 GAAATTATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
19 10 0.25
20 16 0.40
21 1 0.03
22 13 0.32
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (20 bp):
AAAAAAAGAAGAAAAAAATG
Found at i:8435653 original size:11 final size:11
Alignment explanation
Indices: 8435637--8435678 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
8435627 AGAGGAGAAA
8435637 AAGAAAAAAAG
1 AAGAAAAAAAG
8435648 AAGAAAAAAATG
1 AAGAAAAAAA-G
8435660 AA-AAAAAAA-
1 AAGAAAAAAAG
*
8435669 ATGAAAAAAA
1 AAGAAAAAAA
8435679 ATGAAAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 1 0.04
10 7 0.25
11 17 0.61
12 3 0.11
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (11 bp):
AAGAAAAAAAG
Found at i:8435655 original size:12 final size:11
Alignment explanation
Indices: 8435640--8435679 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
8435630 GGAGAAAAAG
8435640 AAAAAAAGAAGA
1 AAAAAAAGAA-A
*
8435652 AAAAAATGAAA
1 AAAAAAAGAAA
8435663 AAAAAAATGAAA
1 AAAAAAA-GAAA
8435675 AAAAA
1 AAAAA
8435680 TGAAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 7 0.28
12 18 0.72
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:8435665 original size:22 final size:22
Alignment explanation
Indices: 8435640--8435685 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
8435630 GGAGAAAAAG
*
8435640 AAAAAAAGAAG-AAAAAAATGA
1 AAAAAAAAAAGAAAAAAAATGA
*
8435661 AAAAAAAAATGAAAAAAAATGA
1 AAAAAAAAAAGAAAAAAAATGA
8435683 AAA
1 AAA
8435686 GAAATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.07
Consensus pattern (22 bp):
AAAAAAAAAAGAAAAAAAATGA
Found at i:8435675 original size:10 final size:10
Alignment explanation
Indices: 8435634--8435690 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
8435624 AATAGAGGAG
8435634 AAAAA-GAAA
1 AAAAATGAAA
*
8435643 AAAAGAAG-AA
1 AAAA-ATGAAA
8435653 AAAAATGAAAAA
1 AAAAATG--AAA
8435665 AAAAATGAAA
1 AAAAATGAAA
8435675 AAAAATGAAA
1 AAAAATGAAA
*
8435685 AGAAAT
1 AAAAAT
8435691 TATAAGGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
9 6 0.15
10 25 0.61
11 1 0.02
12 9 0.22
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (10 bp):
AAAAATGAAA
Found at i:8436197 original size:15 final size:15
Alignment explanation
Indices: 8436154--8436249 Score: 52
Period size: 14 Copynumber: 5.8 Consensus size: 15
8436144 GAATCCATTC
*
8436154 AAAAAAG-AGGAAAA
1 AAAAAAGAAAGAAAA
8436168 AAAAAAGAAA-AAAA
1 AAAAAAGAAAGAAAA
*
8436182 AAGAAAAGTAAGAAAA
1 AA-AAAAGAAAGAAAA
*
8436198 GTGAAAGAAATGAAGGAAAA
1 ---AAA-AAA-GAAAGAAAA
8436218 AAGAAAAGTGAAAGAAATGA
1 AA-AAAA--GAAAGAAA--A
8436238 AAAAAAGAAAGA
1 AAAAAAGAAAGA
8436250 GAATGGGAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 21
0.71 0.05 0.23
Matches are distributed among these distances:
14 13 0.20
15 8 0.12
16 4 0.06
17 11 0.17
18 10 0.15
19 9 0.14
20 10 0.15
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (15 bp):
AAAAAAGAAAGAAAA
Found at i:8436223 original size:20 final size:20
Alignment explanation
Indices: 8436172--8436223 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
8436162 GGAAAAAAAA
8436172 AAGAAAAAA-AAAGAAAAGT
1 AAGAAAAAAGAAAGAAAAGT
** *
8436191 AAGAAAAGTGAAAGAAATG-
1 AAGAAAAAAGAAAGAAAAGT
8436210 AAGGAAAAAAGAAA
1 AA-GAAAAAAGAAA
8436224 AGTGAAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (20 bp):
AAGAAAAAAGAAAGAAAAGT
Found at i:8436239 original size:16 final size:16
Alignment explanation
Indices: 8436193--8436240 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 16
8436183 AGAAAAGTAA
8436193 GAAAAGTGAAAGAAAT
1 GAAAAGTGAAAGAAAT
8436209 G--AAG-GAAA-AAA-
1 GAAAAGTGAAAGAAAT
8436220 GAAAAGTGAAAGAAAT
1 GAAAAGTGAAAGAAAT
8436236 GAAAA
1 GAAAA
8436241 AAAGAAAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
11 1 0.04
12 3 0.11
13 7 0.26
14 7 0.26
15 3 0.11
16 6 0.22
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.08
Consensus pattern (16 bp):
GAAAAGTGAAAGAAAT
Found at i:8436248 original size:23 final size:26
Alignment explanation
Indices: 8436182--8436247 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 26
8436172 AAGAAAAAAA
8436182 AAGAAAAGTAAGAAAAGTGAAAGAAATG
1 AAGAAAA--AAGAAAAGTGAAAGAAATG
8436210 AAGGAAAAAAGAAAAGTGAAAGAAATG
1 AA-GAAAAAAGAAAAGTGAAAGAAATG
8436237 -A-AAAAAAGAAA
1 AAGAAAAAAGAAA
8436248 GAGAATGGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
24 10 0.27
26 1 0.03
27 19 0.51
28 2 0.05
29 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.08
Consensus pattern (26 bp):
AAGAAAAAAGAAAAGTGAAAGAAATG
Found at i:8438334 original size:40 final size:41
Alignment explanation
Indices: 8438176--8438362 Score: 161
Period size: 40 Copynumber: 4.6 Consensus size: 41
8438166 TATGAACCAT
* * *
8438176 TTTTTCTATTGTGAATCCAGAGTCC-TCCAAACTATGAACTG
1 TTTTTCTATTGTGAATCCAAAG-CCATCCAAACTGTGAATTG
* * * *
8438217 -TTCTCTGTTGTGTATCCAAAGTCATCCAAACTGTGAATTG
1 TTTTTCTATTGTGAATCCAAAGCCATCCAAACTGTGAATTG
* * *
8438257 CATTTTT-TGTTGTGAATCCAAAATCCA-CCAAATTGTGAATTG
1 --TTTTTCTATTGTGAATCC-AAAGCCATCCAAACTGTGAATTG
* * *
8438299 TTTTTCTATTGTG-ATTCAAAGCCATCTAAACTGTGAATCG
1 TTTTTCTATTGTGAATCCAAAGCCATCCAAACTGTGAATTG
8438339 TTTACTT-TATTGTGAATCCAAAGC
1 TTT--TTCTATTGTGAATCCAAAGC
8438363 TTTTTTGGTA
Statistics
Matches: 117, Mismatches: 19, Indels: 19
0.75 0.12 0.12
Matches are distributed among these distances:
39 7 0.06
40 54 0.46
41 13 0.11
42 35 0.30
43 8 0.07
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (41 bp):
TTTTTCTATTGTGAATCCAAAGCCATCCAAACTGTGAATTG
Found at i:8438352 original size:82 final size:82
Alignment explanation
Indices: 8438176--8438360 Score: 196
Period size: 82 Copynumber: 2.2 Consensus size: 82
8438166 TATGAACCAT
* * * * *
8438176 TTTTTCTATTGTGAATCCAGAGTCCTCCAAACTATGAACTGTTCTCTGTTGTGTATCCAAAGTCA
1 TTTTT-TATTGTGAATCCAAAATCCACCAAACTATGAACTGTTCTCTATTGTGTATCCAAAGCCA
8438241 TCCAAACTGTGAATTGCA
65 TCCAAACTGTGAATTGCA
* * * * * *
8438259 TTTTTTGTTGTGAATCCAAAATCCACCAAATTGTGAATTGTTTTTCTATTGTG-ATTCAAAGCCA
1 TTTTTTATTGTGAATCCAAAATCCACCAAACTATGAACTG-TTCTCTATTGTGTATCCAAAGCCA
* *
8438323 TCTAAACTGTGAA-T-CG
65 TCCAAACTGTGAATTGCA
8438339 TTTACTTTATTGTGAATCCAAA
1 TTT--TTTATTGTGAATCCAAA
8438361 GCTTTTTTGG
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
80 4 0.05
81 1 0.01
82 65 0.76
83 15 0.18
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (82 bp):
TTTTTTATTGTGAATCCAAAATCCACCAAACTATGAACTGTTCTCTATTGTGTATCCAAAGCCAT
CCAAACTGTGAATTGCA
Found at i:8438475 original size:30 final size:30
Alignment explanation
Indices: 8438422--8438478 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
8438412 GCCTTTTTTA
* **
8438422 TGTGAATCCCGAATGTTTAAAGAATCCTAG
1 TGTGAATCCCAAACCTTTAAAGAATCCTAG
*
8438452 TGTGAATCCCAAACCTTTGAAGAATCC
1 TGTGAATCCCAAACCTTTAAAGAATCC
8438479 AGGTTTGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (30 bp):
TGTGAATCCCAAACCTTTAAAGAATCCTAG
Found at i:8438510 original size:21 final size:21
Alignment explanation
Indices: 8438484--8438531 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
8438474 AATCCAGGTT
* *
8438484 TGAATCCTATCATTCTCGGTG
1 TGAATCCCAACATTCTCGGTG
* *
8438505 TGAATCCCAACCTTTTCGGTG
1 TGAATCCCAACATTCTCGGTG
8438526 TGAATC
1 TGAATC
8438532 TTAAACATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (21 bp):
TGAATCCCAACATTCTCGGTG
Found at i:8441102 original size:19 final size:18
Alignment explanation
Indices: 8441080--8441139 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
8441070 CTCCAAATCT
8441080 TAAACCACCTTTCAAACCC
1 TAAACCA-CTTTCAAACCC
*
8441099 TAAACCACATTCTAAACCC
1 TAAACCACTTTC-AAACCC
* *
8441118 TAAATCACTTTCCAAAACC
1 TAAACCACTTT-CAAACCC
8441137 TAA
1 TAA
8441140 CCAACCCCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 4 0.11
19 30 0.86
20 1 0.03
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAACCACTTTCAAACCC
Found at i:8441976 original size:20 final size:20
Alignment explanation
Indices: 8441951--8442000 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
8441941 GACACCGATC
8441951 GATCCATTTTATAATGGATT
1 GATCCATTTTATAATGGATT
8441971 GATCCATTTTATAATGGATT
1 GATCCATTTTATAATGGATT
8441991 GATCCATTTT
1 GATCCATTTT
8442001 TACAATTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (20 bp):
GATCCATTTTATAATGGATT
Found at i:8443882 original size:608 final size:604
Alignment explanation
Indices: 8441750--8444172 Score: 3289
Period size: 610 Copynumber: 4.0 Consensus size: 604
8441740 AATTTATTCA
* * *
8441750 TTTTATAAAACTTTTAAA-CCTATTTTAAAATGTTTTATTAAAAGTATAATTTTTGGGTGGCCAA
1 TTTTATAAAACTTTTAAACCCT-TTTTTAAATGTTTTATTAAAAGGACAATTTTTGGGTGGCCAA
* * * * * * * *
8441814 TCTCACCTTGAAAAAAAATTAGAGGTGAACTTATTTTGTTTTTATCGAAAATATTTTTAGCCCTC
65 TCACACCTT-AAAAAAGATTGGTGGTGACCTTATTTT-TTTTTATCAAAAATAATTTTAGCCTTC
* * * * * *
8441879 ATTTTTGAATGCCCCATTCATTCAACTTTAGAGTCACTCACCTT-TGGGTCTCAATATGTTGCGA
128 ATTTTTGAATTCCCCATTCGTT-GACTTTAGAGTCACCCA-CTTCTAGGTCTCGATATG-T-C-A
8441943 CACCGATCGATCCATTTTATAATGGATTGATCCATTTTATAATGGATTGATCCATTTTTACAATT
188 CA---A-C-A--C---------T-GATTGATCCATTTTATAATGGATTGATCCATTTTTACAATT
* *
8442008 TTCAAGTTCTAGACCTTTTTGTAATAAAAAGCAATTGATCCAATTTTTGAATGGATCAATTGCTT
236 TTCAAGTTCTAGACCTTTTTGTAATAAAAACCAATCGATCCAATTTTTGAATGGATCAATTGCTT
* * * *
8442073 CAAGGTTTTATGCAAACTTCTCAGTTTCTATCCATAGAAGGATTGATCCTTCTTTCCTAATTTTG
301 CAGGGTTTTAAGCAAACTTCTCAGTTTCTATCCACAG-AGGATTGATCCATCTTTCCTAATTTTG
*
8442138 TATAAAGCATGTCTTTATTGGAGAAAGAAGTTTGTTTTGGTCTCTAAGTCTTTTTTCATTAG-AA
365 TATAAAGCATGTCTTTATTGGAGAAAGAAGTTTGTTTTGGTCTCTAAGTCATTTTTCATTAGAAA
*
8442202 AA--A-T-------TTTTCTTTTTGAATTTAAAGCAATTTATTCCAAGTTTTAACTTTAGTGTTT
430 AATTATTGGCAAAATTTTCTTTTTGAGTTTAAAGCAATTTATTCCAAGTTTTAACTTTAGTGTTT
*
8442257 TGTTATTTCAAAATAAGTATCAATTCAATGATGATAATCTCCCACTTTTTCATATGAC-AAACTC
495 TGTTATTTCAAAATAAGTATCAATTCAAGGATGATAATCTCCCACTTTTTCATATGACAAAACTC
*
8442321 AAGATAAATTTGCTTTGATAATCTCCTACTTTTTATAAATTTGCT
560 AAGATAAATTTGCTTTGATAATCTCCCACTTTTTATAAATTTGCT
* * *
8442366 TTTTATAAAACTTTTAAAACCTTTTTTAAATGTATTATTAAAAGGATAATTTTTGGGTGGCCAAT
1 TTTTATAAAACTTTTAAACCCTTTTTTAAATGTTTTATTAAAAGGACAATTTTTGGGTGGCCAAT
** **
8442431 CACACCTTGAAAAAAGATTGGTGGTGATTTTATTTTATTTTTATCAAAAATAATTTTAGCCTTTG
66 CACACCTT-AAAAAAGATTGGTGGTGACCTTATTTT-TTTTTATCAAAAATAATTTTAGCCTTCA
* * *
8442496 TTTTTGAATTCCCCATTCGTTCGACTTTAGAGTCACGCA-TCTCTGGGTCTCGATATGTCATAAC
129 TTTTTGAATTCCCCATTCGTT-GACTTTAGAGTCACCCACT-TCTAGGTCTCGATATGTCACAAC
* *
8442560 ACTGATTGATCCATTTTATAATGGATTGATCCATTTTTACAATTTTCAAGTTTTGGACCTTTTTG
192 ACTGATTGATCCATTTTATAATGGATTGATCCATTTTTACAATTTTCAAGTTCTAGACCTTTTTG
* * *
8442625 TAATAAAAACCAATCGATCTAATTTTTGAATGGATTAATTGCTTTAGGGTTTTAAGCAAACTTCT
257 TAATAAAAACCAATCGATCCAATTTTTGAATGGATCAATTGCTTCAGGGTTTTAAGCAAACTTCT
* * *
8442690 TAGTTTCTGTCCACAGAGGGATTGATCCATCTTTCCTAATTTTGTATAAAGCATGTCTTTATTAG
322 CAGTTTCTATCCACAGA-GGATTGATCCATCTTTCCTAATTTTGTATAAAGCATGTCTTTATTGG
8442755 AGAAAGAAGTTTGTTTTGGTCTCTAAGTCATTTTT-AGTTAGAAAAATTATTGGCAAAATTTTCT
386 AGAAAGAAGTTTGTTTTGGTCTCTAAGTCATTTTTCA-TTAGAAAAATTATTGGCAAAATTTTCT
* *
8442819 TTTTGAGTTTAAAGCAAATTATTCCAAGTTTTAACTTTAGTGTTTTGTTATTTCAGAATAAGTAT
450 TTTTGAGTTTAAAGCAATTTATTCCAAGTTTTAACTTTAGTGTTTTGTTATTTCAAAATAAGTAT
* * * * *
8442884 TAATTCAAGGATGATAATCTCCCATTTTTTCATATGACAAAACTCATGATAAATTTACATTGATA
515 CAATTCAAGGATGATAATCTCCCACTTTTTCATATGACAAAACTCAAGATAAATTTGCTTTGATA
*
8442949 ATCTCCCATTTTTTTTATAAATTTGCT
580 ATCTCCCA--CTTTTTATAAATTTGCT
* * * *
8442976 TTTGATAAAACATTTAAACCCCTTTTTAAATGTTTTATTAAAAGGACCATTTTTGGGTGGCCAAT
1 TTTTATAAAACTTTTAAACCCTTTTTTAAATGTTTTATTAAAAGGACAATTTTTGGGTGGCCAAT
* *
8443041 CAC-CCTTTAAAAAAAGATTGGTGGTGACCTTATTTGGTTTTTATCAAAAATAATTTTAGCCCTC
66 CACACC-TT-AAAAAAGATTGGTGGTGACCTTATTT-TTTTTTATCAAAAATAATTTTAGCCTTC
* * * * *
8443105 ATTTTTGAAATCCCCATTCGTTTGGCTTTAAAGTCACCTACCTCTAGGTCTCGATATGTCACAAC
128 ATTTTTGAATTCCCCATTCG-TTGACTTTAGAGTCACCCACTTCTAGGTCTCGATATGTCACAAC
* *
8443170 ACTGATCGATCCATTTTATAATGGATTGATCCATTTTTACAATTTTCAAGTTCTAGACATTTTTG
192 ACTGATTGATCCATTTTATAATGGATTGATCCATTTTTACAATTTTCAAGTTCTAGACCTTTTTG
*
8443235 TAATAAAAACCAATCAATCCAATTTTTGAATGGATCAATTGCTTCAGGGTTTTAAGCAAACTTCT
257 TAATAAAAACCAATCGATCCAATTTTTGAATGGATCAATTGCTTCAGGGTTTTAAGCAAACTTCT
* *
8443300 CAGTTTTTATCCACATGAGGATCGATCCATCTTTCCTAATTTTGTATAAAGCATGTCTTTATTGG
322 CAGTTTCTATCCACA-GAGGATTGATCCATCTTTCCTAATTTTGTATAAAGCATGTCTTTATTGG
* * *
8443365 ATAAAGAAGTTTGTTTTGGTCTCAAAGTCATTTTTCATTAGAAAAATTTATTGGTAAAATTTTCT
386 AGAAAGAAGTTTGTTTTGGTCTCTAAGTCATTTTTCATTAGAAAAA-TTATTGGCAAAATTTTCT
*
8443430 TTTTGAGTTTAAAGCAATTTATTCCAAGTTTTAACTTTAGTGGTTTGTTATTTCAAAATAAGTAT
450 TTTTGAGTTTAAAGCAATTTATTCCAAGTTTTAACTTTAGTGTTTTGTTATTTCAAAATAAGTAT
* * * * *
8443495 CAATTCAAGGAAGATAATCTCCTAGTTTTTCATATGACAAAACTTAAGATAAATTTGCTTTGGTA
515 CAATTCAAGGATGATAATCTCCCACTTTTTCATATGACAAAACTCAAGATAAATTTGCTTTGATA
8443560 ATCTCCCACTTTTTATAAATTTGCT
580 ATCTCCCACTTTTTATAAATTTGCT
*
8443585 TTTTATAAAACTTTTAAACCCTTTTTTAAATGTTTTATTAAAGGGACAATTTTTGGGTGGCCAAT
1 TTTTATAAAACTTTTAAACCCTTTTTTAAATGTTTTATTAAAAGGACAATTTTTGGGTGGCCAAT
* *
8443650 CACACCCTACAAAAAGATTGGTGGTGACCTTATTTTTTTTTATCGAAAATAATTTTAGCCTTCAT
66 CACACCTTA-AAAAAGATTGGTGGTGACCTTATTTTTTTTTATCAAAAATAATTTTAGCCTTCAT
* * * * * * * * *
8443715 TTTTGAATTCTCCATTCGTCTGACTTTAGAGTCACCCACTTATAGGTTTTGATAGGCCGCGACAT
130 TTTTGAATTCCCCATTCGT-TGACTTTAGAGTCACCCACTTCTAGGTCTCGATATGTCACAACAC
* * * * *
8443780 TGATTGGTCCATTTTATAATGGATTGATCTATTTTTATAATTTTCAAGTTATTGACCTTTTTGTA
194 TGATTGATCCATTTTATAATGGATTGATCCATTTTTACAATTTTCAAGTTCTAGACCTTTTTGTA
* * * * * * *
8443845 ATAACAACCAATCGATCTAATTTTTGAATAGATCAATTGTTTCAGGGTTTTAAGAAAATTTTTCA
259 ATAAAAACCAATCGATCCAATTTTTGAATGGATCAATTGCTTCAGGGTTTTAAGCAAACTTCTCA
* * * * *
8443910 GTTT-TGTCTACAAGAGGATTGATCCCTCTTTCCTAATTTTGTATAAAACATGTCTTTATTTGAG
324 GTTTCTATCCAC-AGAGGATTGATCCATCTTTCCTAATTTTGTATAAAGCATGTCTTTATTGGAG
* * *
8443974 AAAAAAGTTTGTTTTGGTCTCTAAGTCATTTTTCATTAGAAAAATTACTGCCAAAATTTTCTTTT
388 AAAGAAGTTTGTTTTGGTCTCTAAGTCATTTTTCATTAGAAAAATTATTGGCAAAATTTTCTTTT
* *
8444039 TGAGTTTAAAGCAATTTATTCCAAGTTTTAACTTTAGTGTTTTGTTATTTCAAAATAAGCATTAA
453 TGAGTTTAAAGCAATTTATTCCAAGTTTTAACTTTAGTGTTTTGTTATTTCAAAATAAGTATCAA
* * * *
8444104 TTCAAGGATGATAATCTTCAACTTTTTCATATGACAAAACTCAAGATAAATTTGCTTTGAAAAAC
518 TTCAAGGATGATAATCTCCCACTTTTTCATATGACAAAACTCAAGATAAATTTGCTTTGATAATC
8444169 TCCC
583 TCCC
8444173 TTTGAAAAGA
Statistics
Matches: 1618, Mismatches: 159, Indels: 70
0.88 0.09 0.04
Matches are distributed among these distances:
595 2 0.00
596 214 0.13
597 5 0.00
599 1 0.00
600 1 0.00
606 142 0.09
607 197 0.12
608 228 0.14
609 108 0.07
610 404 0.25
611 148 0.09
613 2 0.00
614 2 0.00
615 2 0.00
616 159 0.10
617 3 0.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (604 bp):
TTTTATAAAACTTTTAAACCCTTTTTTAAATGTTTTATTAAAAGGACAATTTTTGGGTGGCCAAT
CACACCTTAAAAAAGATTGGTGGTGACCTTATTTTTTTTTATCAAAAATAATTTTAGCCTTCATT
TTTGAATTCCCCATTCGTTGACTTTAGAGTCACCCACTTCTAGGTCTCGATATGTCACAACACTG
ATTGATCCATTTTATAATGGATTGATCCATTTTTACAATTTTCAAGTTCTAGACCTTTTTGTAAT
AAAAACCAATCGATCCAATTTTTGAATGGATCAATTGCTTCAGGGTTTTAAGCAAACTTCTCAGT
TTCTATCCACAGAGGATTGATCCATCTTTCCTAATTTTGTATAAAGCATGTCTTTATTGGAGAAA
GAAGTTTGTTTTGGTCTCTAAGTCATTTTTCATTAGAAAAATTATTGGCAAAATTTTCTTTTTGA
GTTTAAAGCAATTTATTCCAAGTTTTAACTTTAGTGTTTTGTTATTTCAAAATAAGTATCAATTC
AAGGATGATAATCTCCCACTTTTTCATATGACAAAACTCAAGATAAATTTGCTTTGATAATCTCC
CACTTTTTATAAATTTGCT
Found at i:8445855 original size:20 final size:19
Alignment explanation
Indices: 8445829--8445888 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
8445819 AAAATATTAT
8445829 ATATAATAAATCATGCAAA
1 ATATAATAAATCATGCAAA
*
8445848 ATTATAATACTATCATGCAATA
1 A-TATAATA-AATCATGCAA-A
* *
8445870 ATATCATAAATCATTCAAA
1 ATATAATAAATCATGCAAA
8445889 CATACTATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 2 0.06
20 15 0.44
21 15 0.44
22 2 0.06
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (19 bp):
ATATAATAAATCATGCAAA
Done.