Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 46 of 64
Found at i:9205832 original size:32 final size:31
Alignment explanation
Indices: 9205760--9205841 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 31
9205750 ACCTAAAACG
* *
9205760 TAAATAAAAAAGGAATAATAAATAATAATAAAA
1 TAAATAAAAAA-TAAAAAT-AATAATAATAAAA
* *
9205793 TAAATAAATAAATAAAAATAATATTAATATAA
1 TAAATAAA-AAATAAAAATAATAATAATAAAA
*
9205825 TATATAAAAAATAAAAA
1 TAAATAAAAAATAAAAA
9205842 ATTTAAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
31 9 0.21
32 18 0.42
33 13 0.30
34 3 0.07
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (31 bp):
TAAATAAAAAATAAAAATAATAATAATAAAA
Found at i:9205842 original size:32 final size:30
Alignment explanation
Indices: 9205773--9205843 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
9205763 ATAAAAAAGG
* *
9205773 AATAATAAATAATAATAAAATAAATAAATA
1 AATAAAAAATAATAATAAAATAAATAAAAA
* *
9205803 AAT-AAAAATAATATTAATATAATATATAAAA
1 AATAAAAAATAATAATAAAATAA-ATA-AAAA
9205834 AATAAAAAAT
1 AATAAAAAAT
9205844 TTAAAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 16 0.47
30 6 0.18
31 6 0.18
32 6 0.18
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (30 bp):
AATAAAAAATAATAATAAAATAAATAAAAA
Found at i:9205984 original size:38 final size:38
Alignment explanation
Indices: 9205913--9206242 Score: 302
Period size: 38 Copynumber: 8.5 Consensus size: 38
9205903 TTTCAAAAAC
* *
9205913 TTTCAAAAATATTTTCCAAAACTATATATTATATATATGT
1 TTTCAAAAATGTTTT-CAAAACTATATAATATATATAT-T
9205953 TTTC-AAAATGTTTTCAAAACTATATAATATATAAATATATATGT
1 TTTCAAAAATGTTTTCAAAAC--TAT-ATA-AT--ATATATAT-T
*
9205997 TTTCAAAAATGTTTTCAAAACTATATATTATATATA-T
1 TTTCAAAAATGTTTTCAAAACTATATAATATATATATT
* *
9206034 TTTCAAAAATATTTTCCAAAACTATATATTATATATATAT
1 TTTCAAAAATGTTTT-CAAAACTATATAATATATATAT-T
*
9206074 TTTC-AAAATGTTTTCAAAACTATATAATATATGTA-T
1 TTTCAAAAATGTTTTCAAAACTATATAATATATATATT
** *
9206110 TTTCGAAAACCGTTTTCAAAACTATATGATATATATATT
1 TTTC-AAAAATGTTTTCAAAACTATATAATATATATATT
* * **
9206149 TTTGAATACCGTTTTCAAAACTATAT-A-ATATATATT
1 TTTCAAAAATGTTTTCAAAACTATATAATATATATATT
* *
9206185 TTT-AAAATTCGTTTTCTAAAAAT-TAT-ATAT-TATATTT
1 TTTCAAAAAT-GTTTTC-AAAACTATATAATATATATA-TT
*
9206222 TTTCAAAAAATATTTTCAAAA
1 TTTC-AAAAATGTTTTCAAAA
9206243 AATATTTTCA
Statistics
Matches: 252, Mismatches: 19, Indels: 41
0.81 0.06 0.13
Matches are distributed among these distances:
35 3 0.01
36 31 0.12
37 32 0.13
38 99 0.39
39 34 0.13
40 12 0.05
41 4 0.02
42 4 0.02
43 3 0.01
44 14 0.06
45 16 0.06
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (38 bp):
TTTCAAAAATGTTTTCAAAACTATATAATATATATATT
Found at i:9206257 original size:12 final size:13
Alignment explanation
Indices: 9206221--9206256 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
9206211 ATATTATATT
9206221 TTTTCAAAAAATA
1 TTTTCAAAAAATA
9206234 TTTTCAAAAAATA
1 TTTTCAAAAAATA
9206247 TTTTCAAAAA
1 TTTTCAAAAA
9206257 TTATGCTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (13 bp):
TTTTCAAAAAATA
Found at i:9206277 original size:2 final size:2
Alignment explanation
Indices: 9206270--9206304 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9206260 TGCTATATTA
9206270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9206305 ATCCGGACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9207167 original size:85 final size:85
Alignment explanation
Indices: 9207017--9207419 Score: 511
Period size: 85 Copynumber: 4.7 Consensus size: 85
9207007 GTCGTCAAGA
* * *
9207017 TGAATGGAATCAGACTCGACA-GTTTTTGTTGACATATAACCCTTCTCGCCTTGAGTTATGCTGT
1 TGAATGTAATCAAACTCGA-AGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
*
9207081 AAATTTGACATGCCCTTGAGC
65 AAATTTGATATGCCCTTGAGC
* * * * * * *
9207102 TAAATGAAATCAAACTCGAAGGTATTTGTTGACAAATATCCCTTCTCGCCTTGAGCTATGTTGTA
1 TGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
* *
9207167 AGTTTGATATGCCCTTGAGT
66 AATTTGATATGCCCTTGAGC
9207187 TGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
1 TGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
* *
9207252 AATTTGATGTGTCCTTGAGC
66 AATTTGATATGCCCTTGAGC
* * * * *
9207272 TGAATGTAATCGAACTCGAAGGTTTTGGTTGACAGATAACCATTCTCGTCTTGAGTTATGTTGTA
1 TGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
* *
9207337 AATTTGATATGTCCTTGTGC
66 AATTTGATATGCCCTTGAGC
* * * * * ** *
9207357 TGAATGTAATCGAACTCGAAGGTTTTTTGCTGGCAGATAGCCCTTATCTACTTGAGCTATGCT
1 TGAATGTAATCAAACTCGAAGG-TTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCT
9207420 ACGAATAGTT
Statistics
Matches: 277, Mismatches: 39, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
84 1 0.00
85 246 0.89
86 30 0.11
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (85 bp):
TGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
AATTTGATATGCCCTTGAGC
Found at i:9211849 original size:17 final size:17
Alignment explanation
Indices: 9211823--9211859 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9211813 TGTAAATGAT
9211823 AAAAATAAAATGAAAGAG
1 AAAAATAAAATGAAAG-G
9211841 AAAAA-AAAATGAAAGG
1 AAAAATAAAATGAAAGG
9211857 AAA
1 AAA
9211860 GAGTTAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 10 0.53
18 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (17 bp):
AAAAATAAAATGAAAGG
Found at i:9212920 original size:21 final size:18
Alignment explanation
Indices: 9212896--9212942 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 18
9212886 TAAAAAAGTA
9212896 AAAAAAAAGAATGTTAAATT
1 AAAAAAAAG-ATGTTAAA-T
9212916 GAAAAAAAAGATGTTAAAT
1 -AAAAAAAAGATGTTAAAT
9212935 AAAAAAAA
1 AAAAAAAA
9212943 TGTTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.31
19 1 0.04
20 8 0.31
21 9 0.35
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (18 bp):
AAAAAAAAGATGTTAAAT
Found at i:9212922 original size:20 final size:17
Alignment explanation
Indices: 9212897--9212949 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 17
9212887 AAAAAAGTAA
9212897 AAAAAAAGAATGTTAAATT
1 AAAAAAA-AATGTTAAA-T
9212916 GAAAAAAAAGATGTTAAAT
1 -AAAAAAAA-ATGTTAAAT
9212935 -AAAAAAAATGTTAAA
1 AAAAAAAAATGTTAAA
9212950 AAATAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.25
17 7 0.22
19 2 0.06
20 15 0.47
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (17 bp):
AAAAAAAAATGTTAAAT
Found at i:9213932 original size:38 final size:38
Alignment explanation
Indices: 9213871--9214165 Score: 298
Period size: 38 Copynumber: 7.6 Consensus size: 38
9213861 CGATCTATGT
* *
9213871 TTTTAAAAACTATATATTATATATATATATTTTCAAAATG
1 TTTTCAAAACTATATA--ATATATATATATTTTCAAAATA
9213911 TTTTCAAAACTATATAATATATATATATGTTTTCAAAAATA
1 TTTTCAAAACTATATAATATATATATA--TTTTC-AAAATA
*
9213952 TTTTCAAAACTATA-AAT-TATATATATTTTTCCAAAAAA
1 TTTTCAAAACTATATAATATATATATA-TTTT-CAAAATA
** * *
9213990 AATTCAAAACTATATATTATATATAT-TTTTTAAAATA
1 TTTTCAAAACTATATAATATATATATATTTTCAAAATA
* * *
9214027 TTTTCCAAAACTATATATTATATATATATTTTTAAAATG
1 TTTT-CAAAACTATATAATATATATATATTTTCAAAATA
* *
9214066 TTTTTAAAACTATAT-A-ATATATATATTTTCGAAAACCA
1 TTTTCAAAACTATATAATATATATATATTTTC-AAAA-TA
* * *
9214104 TTTTCAAAACTATAT--GATATATATATTTTCGAATATCG
1 TTTTCAAAACTATATAATATATATATATTTTC-AAAAT-A
9214142 TTTTCAAAACTATATAATATATAT
1 TTTTCAAAACTATATAATATATAT
9214166 TTTCGAAATC
Statistics
Matches: 219, Mismatches: 22, Indels: 28
0.81 0.08 0.10
Matches are distributed among these distances:
36 13 0.06
37 11 0.05
38 115 0.53
39 25 0.11
40 36 0.16
41 19 0.09
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.45
Consensus pattern (38 bp):
TTTTCAAAACTATATAATATATATATATTTTCAAAATA
Found at i:9214201 original size:38 final size:36
Alignment explanation
Indices: 9214033--9214205 Score: 129
Period size: 38 Copynumber: 4.6 Consensus size: 36
9214023 AATATTTTCC
** * *
9214033 AAAACTATATATTATATATATATTTTTAAAAT-GTTTTT
1 AAAACTATATA--ATATATAT-TTTCGAATATCGTTTTA
* * * *
9214071 AAAACTATATAATATATATATTTTCGAAAACCATTTTC
1 AAAACTATAT-A-ATATATATTTTCGAATATCGTTTTA
*
9214109 AAAACTATATGATATATATATTTTCGAATATCGTTTTC
1 AAAACTATAT-A-ATATATATTTTCGAATATCGTTTTA
9214147 AAAACTATATAATATATATTTTCGAA-ATCAGATTTCTA
1 AAAACTATATAATATATATTTTCGAATATC-G-TTT-TA
* *
9214185 AAAATTAT-TTAT-TATATTTTC
1 AAAACTATATAATATATATTTTC
9214206 TCAAAAAAAT
Statistics
Matches: 118, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
35 3 0.03
36 25 0.21
37 14 0.12
38 75 0.64
39 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.46
Consensus pattern (36 bp):
AAAACTATATAATATATATTTTCGAATATCGTTTTA
Found at i:9215092 original size:25 final size:26
Alignment explanation
Indices: 9215063--9215112 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9215053 TAATTTTGTG
*
9215063 ATTTGT-TTTT-TACAATATTTAAATT
1 ATTTGTATTTTCTA-AATATGTAAATT
9215088 ATTTGTATTTTCTAAATATGTAAAT
1 ATTTGTATTTTCTAAATATGTAAAT
9215113 AAAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 14 0.64
27 2 0.09
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (26 bp):
ATTTGTATTTTCTAAATATGTAAATT
Found at i:9226953 original size:85 final size:85
Alignment explanation
Indices: 9226806--9226963 Score: 235
Period size: 85 Copynumber: 1.9 Consensus size: 85
9226796 TACTATATAG
* * * *
9226806 ATCACTCATATTACTCATGTACCATTGTGGTGCATGAGGTGGAGTAATAATTGAATAATGTACCT
1 ATCACTCATATGACTCATGTACCATTATGGTACATGAGGTGGAGTAAGAATTGAATAATGTACCT
9226871 ATCACTCAACTCATGTACCT
66 ATCACTCAACTCATGTACCT
* * * * *
9226891 ATCACTCATATGACTCATGTATCTTTATGGTACATGAGGTGGAGTGAGAATTGAATATTGTACTT
1 ATCACTCATATGACTCATGTACCATTATGGTACATGAGGTGGAGTAAGAATTGAATAATGTACCT
9226956 ATCACTCA
66 ATCACTCA
9226964 TATGACTCAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (85 bp):
ATCACTCATATGACTCATGTACCATTATGGTACATGAGGTGGAGTAAGAATTGAATAATGTACCT
ATCACTCAACTCATGTACCT
Found at i:9226992 original size:65 final size:65
Alignment explanation
Indices: 9226884--9227012 Score: 199
Period size: 65 Copynumber: 2.0 Consensus size: 65
9226874 ACTCAACTCA
9226884 TGTACCTATCACTCATATGACTCATGTATCTTTATGGTACATGAGGTGGAGTGAGAATTGAATAT
1 TGTACCTATCACTCATATGACTCATGTATCTTTATGGTACATGAGGTGGAGTGAGAATTGAATAT
* * *
9226949 TGTACTTATCACTCATATGACTCATGTA-CTTT-TGTGATGCATGAGGTGGAGTGATAATTGAAT
1 TGTACCTATCACTCATATGACTCATGTATCTTTATG-G-TACATGAGGTGGAGTGAGAATTGAAT
9227012 A
64 A
9227013 CTGCATGTAC
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
63 2 0.03
64 5 0.08
65 52 0.88
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (65 bp):
TGTACCTATCACTCATATGACTCATGTATCTTTATGGTACATGAGGTGGAGTGAGAATTGAATAT
Found at i:9227035 original size:45 final size:45
Alignment explanation
Indices: 9226971--9227060 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
9226961 TCATATGACT
*
9226971 CATGTACTTTTGTGATGCATGAGGTGGAGTGATAATTGAATACTG
1 CATGTACTTTTGTGATGCATAAGGTGGAGTGATAATTGAATACTG
*
9227016 CATGTACTTTTGTGGTGCATAAGGTGGAGTGATAATTGAATACTG
1 CATGTACTTTTGTGATGCATAAGGTGGAGTGATAATTGAATACTG
9227061 TACTGGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.09, G:0.29, T:0.36
Consensus pattern (45 bp):
CATGTACTTTTGTGATGCATAAGGTGGAGTGATAATTGAATACTG
Found at i:9227172 original size:202 final size:202
Alignment explanation
Indices: 9226925--9227329 Score: 792
Period size: 202 Copynumber: 2.0 Consensus size: 202
9226915 TTATGGTACA
*
9226925 TGAGGTGGAGTGAGAATTGAATATTGTACTTATCACTCATATGACTCATGTACTTTTGTGATGCA
1 TGAGGTGGAGTGAGAATTGAATATTGTACTCATCACTCATATGACTCATGTACTTTTGTGATGCA
9226990 TGAGGTGGAGTGATAATTGAATACTGCATGTACTTTTGTGGTGCATAAGGTGGAGTGATAATTGA
66 TGAGGTGGAGTGATAATTGAATACTGCATGTACTTTTGTGGTGCATAAGGTGGAGTGATAATTGA
9227055 ATACTGTACTGGTCACTCATAAGACTCATGTATTTTTATGGTGCATGAGGTGGAGTGACTATATG
131 ATACTGTACTGGTCACTCATAAGACTCATGTATTTTTATGGTGCATGAGGTGGAGTGACTATATG
9227120 ATACATG
196 ATACATG
9227127 TGAGGTGGAGTGAGAATTGAATATTGTACTCATCACTCATATGACTCATGTACTTTTGTGATGCA
1 TGAGGTGGAGTGAGAATTGAATATTGTACTCATCACTCATATGACTCATGTACTTTTGTGATGCA
*
9227192 TGAGGTGGAGTGATAATTTAATACTGCATGTACTTTTGTGGTGCATAAGGTGGAGTGATAATTGA
66 TGAGGTGGAGTGATAATTGAATACTGCATGTACTTTTGTGGTGCATAAGGTGGAGTGATAATTGA
9227257 ATACTGTACTGGTCACTCATAAGACTCATGTATTTTTATGGTGCATGAGGTGGAGTGACTATATG
131 ATACTGTACTGGTCACTCATAAGACTCATGTATTTTTATGGTGCATGAGGTGGAGTGACTATATG
9227322 ATACATG
196 ATACATG
9227329 T
1 T
9227330 TTATAAGGCT
Statistics
Matches: 201, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
202 201 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (202 bp):
TGAGGTGGAGTGAGAATTGAATATTGTACTCATCACTCATATGACTCATGTACTTTTGTGATGCA
TGAGGTGGAGTGATAATTGAATACTGCATGTACTTTTGTGGTGCATAAGGTGGAGTGATAATTGA
ATACTGTACTGGTCACTCATAAGACTCATGTATTTTTATGGTGCATGAGGTGGAGTGACTATATG
ATACATG
Found at i:9227194 original size:92 final size:92
Alignment explanation
Indices: 9227037--9227204 Score: 264
Period size: 92 Copynumber: 1.8 Consensus size: 92
9227027 GTGGTGCATA
* ** * *
9227037 AGGTGGAGTGATAATTGAATACTGTACTGGTCACTCATAAGACTCATGTATTTTTATGGTGCATG
1 AGGTGGAGTGAGAATTGAATACTGTACTCATCACTCATAAGACTCATGTACTTTTATGATGCATG
9227102 AGGTGGAGTGACTATATGATACATGTG
66 AGGTGGAGTGACTATATGATACATGTG
* * *
9227129 AGGTGGAGTGAGAATTGAATATTGTACTCATCACTCATATGACTCATGTACTTTTGTGATGCATG
1 AGGTGGAGTGAGAATTGAATACTGTACTCATCACTCATAAGACTCATGTACTTTTATGATGCATG
9227194 AGGTGGAGTGA
66 AGGTGGAGTGA
9227205 TAATTTAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 68 1.00
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.33
Consensus pattern (92 bp):
AGGTGGAGTGAGAATTGAATACTGTACTCATCACTCATAAGACTCATGTACTTTTATGATGCATG
AGGTGGAGTGACTATATGATACATGTG
Found at i:9227237 original size:45 final size:45
Alignment explanation
Indices: 9227173--9227262 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
9227163 TCATATGACT
* *
9227173 CATGTACTTTTGTGATGCATGAGGTGGAGTGATAATTTAATACTG
1 CATGTACTTTTGTGATGCATAAGGTGGAGTGATAATTGAATACTG
*
9227218 CATGTACTTTTGTGGTGCATAAGGTGGAGTGATAATTGAATACTG
1 CATGTACTTTTGTGATGCATAAGGTGGAGTGATAATTGAATACTG
9227263 TACTGGTCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.27, C:0.09, G:0.28, T:0.37
Consensus pattern (45 bp):
CATGTACTTTTGTGATGCATAAGGTGGAGTGATAATTGAATACTG
Found at i:9227763 original size:2 final size:2
Alignment explanation
Indices: 9227756--9227789 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9227746 CATATAAATG
*
9227756 AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9227790 TAAATGAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9231629 original size:65 final size:65
Alignment explanation
Indices: 9231560--9231877 Score: 440
Period size: 65 Copynumber: 4.9 Consensus size: 65
9231550 AGTAATTGTC
*
9231560 GAATATTGTACAGATCACGCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATT
1 GAATATTGTACAGATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATT
* * *
9231625 GAATATTATACCGACCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATT
1 GAATATTGTACAGATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATT
*
9231690 GAATATTGTACCGATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATT
1 GAATATTGTACAGATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATT
* * * * **
9231755 GAATACTGCACAGATCACTCATATAACTCGTGTATTTTTGTGGTGCATGAGGTGGAGTGATAATT
1 GAATATTGTACAGATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATT
* * * ** * * *
9231820 GAATACTATACTGATCACTCA-ATGAGACTTGTCTACCTTGGTGGTGCATAAGGTGGAG
1 GAATATTGTACAGATCACTCATAT--GACTCATGTACCTTTGTGGTGCATGAGGTGGAG
9231878 AGACTATATG
Statistics
Matches: 228, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
64 2 0.01
65 200 0.88
66 26 0.11
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (65 bp):
GAATATTGTACAGATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAATT
Found at i:9232240 original size:2 final size:2
Alignment explanation
Indices: 9232233--9232270 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9232223 GTTTAATTGT
9232233 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9232271 ATTAATTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9233755 original size:14 final size:14
Alignment explanation
Indices: 9233736--9233774 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
9233726 ATTATAAAAT
9233736 TATAAATAAAT-AA
1 TATAAATAAATGAA
9233749 GTATAAATAAATGAA
1 -TATAAATAAATGAA
*
9233764 TTTAAATAAAT
1 TATAAATAAAT
9233775 TAAATTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (14 bp):
TATAAATAAATGAA
Found at i:9233831 original size:10 final size:10
Alignment explanation
Indices: 9233813--9233891 Score: 59
Period size: 10 Copynumber: 7.9 Consensus size: 10
9233803 TATTACATTA
9233813 TATTATACTG
1 TATTATACTG
* * *
9233823 TAATGTACTA
1 TATTATACTG
* *
9233833 TACTATATTG
1 TATTATACTG
*
9233843 TATTGTACTG
1 TATTATACTG
9233853 TATTATACTG
1 TATTATACTG
* *
9233863 TACTATACTC
1 TATTATACTG
* *
9233873 TACTATACTC
1 TATTATACTG
*
9233883 TACTATACT
1 TATTATACT
9233892 ATATACCTTC
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 56 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (10 bp):
TATTATACTG
Found at i:9233836 original size:5 final size:5
Alignment explanation
Indices: 9233828--9233894 Score: 53
Period size: 5 Copynumber: 13.4 Consensus size: 5
9233818 TACTGTAATG
* * * * * * * *
9233828 TACTA TACTA TATTG TATTG TACTG TATTA TACTG TACTA TACTC TACTA
1 TACTA TACTA TACTA TACTA TACTA TACTA TACTA TACTA TACTA TACTA
*
9233878 TACTC TACTA TACTA TA
1 TACTA TACTA TACTA TA
9233895 TACCTTCTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (5 bp):
TACTA
Found at i:9233844 original size:15 final size:15
Alignment explanation
Indices: 9233816--9233881 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 15
9233806 TACATTATAT
* *
9233816 TATACTGTAATGTAC
1 TATACTATATTGTAC
*
9233831 TATACTATATTGTAT
1 TATACTATATTGTAC
* * *
9233846 TGTACTGTATTATAC
1 TATACTATATTGTAC
* * *
9233861 TGTACTATACTCTAC
1 TATACTATATTGTAC
9233876 TATACT
1 TATACT
9233882 CTACTATACT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.45
Consensus pattern (15 bp):
TATACTATATTGTAC
Found at i:9233849 original size:25 final size:25
Alignment explanation
Indices: 9233811--9233894 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 25
9233801 TATATTACAT
9233811 TATATTATACTGTAATGTACTATAC
1 TATATTATACTGTAATGTACTATAC
* * * *
9233836 TATATTGTATTGTACTGTATTATAC
1 TATATTATACTGTAATGTACTATAC
* * * * * *
9233861 TGTACTATACTCTACTATACTCTAC
1 TATATTATACTGTAATGTACTATAC
*
9233886 TATACTATA
1 TATATTATA
9233895 TACCTTCTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.45
Consensus pattern (25 bp):
TATATTATACTGTAATGTACTATAC
Found at i:9233871 original size:20 final size:20
Alignment explanation
Indices: 9233811--9233894 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 20
9233801 TATATTACAT
* * *
9233811 TATATTATACTGTAATGTAC
1 TATACTATACTGTACTATAC
* * *
9233831 TATACTATATTGTATTGTAC
1 TATACTATACTGTACTATAC
* *
9233851 TGTATTATACTGTACTATAC
1 TATACTATACTGTACTATAC
* *
9233871 TCTACTATACTCTACTATAC
1 TATACTATACTGTACTATAC
9233891 TATA
1 TATA
9233895 TACCTTCTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.45
Consensus pattern (20 bp):
TATACTATACTGTACTATAC
Found at i:9234509 original size:186 final size:181
Alignment explanation
Indices: 9234152--9234535 Score: 608
Period size: 186 Copynumber: 2.1 Consensus size: 181
9234142 TTTTCTGATT
* * * * *
9234152 TATATAA-AAATTAAATATTTTTTAATTAAAAAACATTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATAGTTTTTAATTAAAAAACAATTTACAATTAATTTAAATAATATATAAT
*
9234216 TATAAAATAAAAATTTATATAAAATTTTAATTAATTAGTATTGATTTAGGTTTAAAGTTATTGGA
66 TATAAAATAAAAATTTATATAAAATTTTAATTAATTAATATTGATTTAGGTTTAAAGTTATTGGA
*
9234281 TCTTAAATTATTAATTGGGTTTTAAATCGTTTGGGCTGAGCCCATATGTTA
131 TCTTAAATTACTAATTGGGTTTTAAATCGTTTGGGCTGAGCCCATATGTTA
9234332 TATATAATATATTTAATAGTTTTTAATTCAAAAAAACAATTTACAATTAATTTAAATAATATATA
1 TATATAATATATTTAATAGTTTTTAATT--AAAAAACAATTTACAATTAATTTAAATAATATATA
* *
9234397 ATTATAAAATATAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
64 ATTATAAAATA-AAAATTTATATAAA-ATTTTAATTAATTAATATTGATTTAGGTTT-AAAGTTA
* *
9234462 TTGGATCTTAAATTACTAATTGGGTTTTAAATGGTTTGGGTTGAGCCCATATGTTA
126 TTGGATCTTAAATTACTAATTGGGTTTTAAATCGTTTGGGCTGAGCCCATATGTTA
*
9234518 TATAAAATATATTTAATA
1 TATATAATATATTTAATA
9234536 TTTAAAATTT
Statistics
Matches: 186, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
180 7 0.04
181 17 0.09
183 44 0.24
184 13 0.07
185 28 0.15
186 77 0.41
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (181 bp):
TATATAATATATTTAATAGTTTTTAATTAAAAAACAATTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAAATTTATATAAAATTTTAATTAATTAATATTGATTTAGGTTTAAAGTTATTGGA
TCTTAAATTACTAATTGGGTTTTAAATCGTTTGGGCTGAGCCCATATGTTA
Found at i:9235607 original size:21 final size:19
Alignment explanation
Indices: 9235583--9235632 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
9235573 TCTACCATTT
9235583 AATAATAATAATTTGT-TCTCA
1 AATAATAATAATTT-TAT-T-A
9235604 AATAATAAT-ATTTTATTA
1 AATAATAATAATTTTATTA
9235622 AATAATAATAA
1 AATAATAATAA
9235633 CACCATCGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 10 0.37
19 3 0.11
20 5 0.19
21 9 0.33
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (19 bp):
AATAATAATAATTTTATTA
Found at i:9236663 original size:2 final size:2
Alignment explanation
Indices: 9236656--9236681 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9236646 AAATTAGGCC
9236656 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9236682 AACTCGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9237324 original size:3 final size:3
Alignment explanation
Indices: 9237316--9237366 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
9237306 CAATTTTTTC
9237316 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9237363 ATT A
1 ATT A
9237367 AATAAAAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9239705 original size:21 final size:19
Alignment explanation
Indices: 9239681--9239738 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 19
9239671 ATTTTCATAA
9239681 TATTTATATGTATATTATTTT
1 TATTTA-AT-TATATTATTTT
9239702 TA-TTAA-TATATTA-TTT
1 TATTTAATTATATTATTTT
9239718 TATTTAAATTTCATATTATTT
1 TATTT-AA-TT-ATATTATTT
9239739 GTTTGTCAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 5 0.16
17 9 0.29
18 2 0.06
19 1 0.03
20 4 0.13
21 8 0.26
22 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTAATTATATTATTTT
Found at i:9244354 original size:2 final size:2
Alignment explanation
Indices: 9244347--9244372 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9244337 TTATCCTTTA
9244347 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9244373 CCTTTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9244698 original size:17 final size:17
Alignment explanation
Indices: 9244665--9244708 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
9244655 CTCATCCAAC
*
9244665 AAAGAAAGAAGAAGGAAA
1 AAAGAAA-AAAAAGGAAA
9244683 AAAGAAAAAAAAGGAAA
1 AAAGAAAAAAAAGGAAA
9244700 AAAGGAAAA
1 AAA-GAAAA
9244709 TTGAATCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAGGAAA
Found at i:9249120 original size:54 final size:54
Alignment explanation
Indices: 9249038--9249196 Score: 186
Period size: 54 Copynumber: 3.0 Consensus size: 54
9249028 AATGATTAAG
* **
9249038 AAATCTGAGCAGAAGCCTTAGAAAAGGATGAATGTGTTGTCAAAT-TCTTTACGA
1 AAATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGT-TTTACGA
*
9249092 AAATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTAC--
1 AAATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACGA
* * * *
9249144 --ATCTGAGCAGAAACCACATG-AGATGATGTATATGTTGTCAAATGTTTTACGA
1 AAATCTGAGCAGAAACCACA-GAAAAGGATGAATGTGTTGTCAAATGTTTTACGA
9249196 A
1 A
9249197 CCAATTATTT
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
50 43 0.47
51 1 0.01
54 46 0.51
55 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (54 bp):
AAATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACGA
Found at i:9249593 original size:22 final size:22
Alignment explanation
Indices: 9249564--9249619 Score: 94
Period size: 23 Copynumber: 2.5 Consensus size: 22
9249554 ATCTACACTC
9249564 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
9249586 TTTAAAGAATGATAGATTCTCTT
1 TTCAAAG-ATGATAGATTCTCTT
9249609 TTCAAAGATGA
1 TTCAAAGATGA
9249620 AAGCTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 10 0.32
23 21 0.68
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:9250259 original size:64 final size:64
Alignment explanation
Indices: 9250179--9250339 Score: 265
Period size: 64 Copynumber: 2.6 Consensus size: 64
9250169 ACATGTTATT
*
9250179 TTGAAAGATAATGAGAAAACGATTTCCATAGTTTCTCATGCAATCTTTTCTAAAAATGAAATTG
1 TTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATGCAATCTTTTCTAAAAATGAAATTG
*
9250243 TTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTG
1 TTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATGCAATCTTTTCTAAAAATGAAATTG
* *
9250307 TTGAAAAGT-A--AGAAAACGATTTTCATAGTTTCT
1 TTGAAAAATAATGAGAAAACGATTTCCATAGTTTCT
9250340 TACTTAGTAA
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
61 22 0.24
63 1 0.01
64 70 0.75
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (64 bp):
TTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATGCAATCTTTTCTAAAAATGAAATTG
Found at i:9250748 original size:74 final size:76
Alignment explanation
Indices: 9250365--9251141 Score: 1226
Period size: 76 Copynumber: 10.4 Consensus size: 76
9250355 TTCCCACATT
9250365 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
9250430 TTAGGGTCATC
66 TTAGGGTCATC
*
9250441 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
9250506 TTAGGGTCATC
66 TTAGGGTCATC
* *
9250517 TGTAAGTCCTGCAGTGCATGATGTTTTCAAAAAGCCTTC-GGAGC-TTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
*
9250580 CTAGGGTCAT-
66 TTAGGGTCATC
*
9250590 T-TAAGTCCTACAGTGC---ATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAAAGAC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
9250650 TTAGGGTCATC
66 TTAGGGTCATC
* * *
9250661 TGTAAGTCC-GCAGTGCATGATGTTTCCAAAAAGCC-TCAGGAGCTTTTTGATG-TTTCAAAGCT
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
*
9250723 TTTGGGTCATC
66 TTAGGGTCATC
* *
9250734 TGTAAGTCCTGCAGTGCATGATG-TTCC-AAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
9250797 TTAGGGTCATC
66 TTAGGGTCATC
*
9250808 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
9250873 TTAGGGTCATC
66 TTAGGGTCATC
* *
9250884 TGTAAGTCCTACAGTGCATGATGTTTCAAAAAAAGCCTTCGGGAGCTTTTTTATGTTTTCAAAGC
1 TGTAAGTCCTACAGTGCATGATGTTTC-CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGC
*
9250949 CTTAGGTTCATC
65 CTTAGGGTCATC
9250961 TGTAAGTCCTACAGTGCATG-TGTTTCCAAAAAG-CTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
9251024 TTAGGGTCATC
66 TTAGGGTCATC
*
9251035 TGTAAGT-CTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
* *
9251099 TTCGGGTCGTC
66 TTAGGGTCATC
* * * * *
9251110 TATAAGCCCTTCAGTGCATGATATTTTCAAAA
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAA
9251142 CCTCTGGGTC
Statistics
Matches: 655, Mismatches: 30, Indels: 32
0.91 0.04 0.04
Matches are distributed among these distances:
69 18 0.03
70 32 0.05
71 7 0.01
72 28 0.04
73 68 0.10
74 166 0.25
75 58 0.09
76 212 0.32
77 66 0.10
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (76 bp):
TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
TTAGGGTCATC
Found at i:9251137 original size:45 final size:45
Alignment explanation
Indices: 9251083--9251185 Score: 172
Period size: 45 Copynumber: 2.3 Consensus size: 45
9251073 GGGAGCTTTT
*
9251083 TGATGTTTTCAAAACCT-TCGGGTCGTCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTCT-GGGTCATCTATAAGCCCTTCAGTGCA
*
9251128 TGATATTTTCAAAACCTCTGGGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTCTGGGTCATCTATAAGCCCTTCAGTGCA
9251173 TGATGTTTTCAAA
1 TGATGTTTTCAAA
9251186 CATTTCCATC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 53 0.98
46 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTCTGGGTCATCTATAAGCCCTTCAGTGCA
Found at i:9251333 original size:9 final size:9
Alignment explanation
Indices: 9251312--9251354 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
9251302 TTTCATTATC
9251312 ATTATTATTT
1 ATTA-TATTT
9251322 ATT-TATTAT
1 ATTATATT-T
9251331 ATTATATTT
1 ATTATATTT
9251340 ATTATATTT
1 ATTATATTT
9251349 ATTATA
1 ATTATA
9251355 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.13
9 20 0.65
10 7 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTATATTT
Found at i:9251338 original size:14 final size:13
Alignment explanation
Indices: 9251312--9251351 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 13
9251302 TTTCATTATC
9251312 ATTATTATTTATTT
1 ATTA-TATTTATTT
9251326 ATTATATTATATTT
1 ATTATATT-TATTT
9251340 ATTATATTTATT
1 ATTATATTTATT
9251352 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATATTTATTT
Found at i:9251944 original size:37 final size:38
Alignment explanation
Indices: 9251894--9251969 Score: 145
Period size: 37 Copynumber: 2.0 Consensus size: 38
9251884 AGAATAATGG
9251894 CCCTGTGGCCGGTTTAGAGGTAT-TATCTGTAATTTCT
1 CCCTGTGGCCGGTTTAGAGGTATATATCTGTAATTTCT
9251931 CCCTGTGGCCGGTTTAGAGGTATATATCTGTAATTTCT
1 CCCTGTGGCCGGTTTAGAGGTATATATCTGTAATTTCT
9251969 C
1 C
9251970 ACAGGGGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 23 0.61
38 15 0.39
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (38 bp):
CCCTGTGGCCGGTTTAGAGGTATATATCTGTAATTTCT
Found at i:9259602 original size:25 final size:27
Alignment explanation
Indices: 9259555--9259607 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
9259545 ATACATTTTA
9259555 ATTTAGTCCGTAGATTAATATTTTGTT
1 ATTTAGTCCGTAGATTAATATTTTGTT
9259582 ATTTAGTCC-TAGTATT-A-ATTTTGTT
1 ATTTAGTCCGTAG-ATTAATATTTTGTT
9259607 A
1 A
9259608 AGTAAATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 9 0.36
26 4 0.16
27 12 0.48
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (27 bp):
ATTTAGTCCGTAGATTAATATTTTGTT
Found at i:9261557 original size:30 final size:30
Alignment explanation
Indices: 9261523--9261582 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
9261513 TGAATAATCA
* *
9261523 TTTTAACTAACTTGA-TTCTTTTTGTCTTG
1 TTTTTACTAACTTGATTTCCTTTTGTCTTG
9261552 TTTTTACTAACTTGATTTCCTTTTGTCTTG
1 TTTTTACTAACTTGATTTCCTTTTGTCTTG
9261582 T
1 T
9261583 CTTGTGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.60
Consensus pattern (30 bp):
TTTTTACTAACTTGATTTCCTTTTGTCTTG
Found at i:9263553 original size:20 final size:20
Alignment explanation
Indices: 9263530--9263576 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
9263520 AAATTAAATT
* *
9263530 AAAAAAAGATAAAATAAAGG
1 AAAAAAAGATAAAAGAAAGC
* *
9263550 AAAAAGAGATAGAAGAAAGC
1 AAAAAAAGATAAAAGAAAGC
9263570 AAAAAAA
1 AAAAAAA
9263577 ATGAAGAAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.06
Consensus pattern (20 bp):
AAAAAAAGATAAAAGAAAGC
Found at i:9264294 original size:17 final size:17
Alignment explanation
Indices: 9264272--9264304 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9264262 AGTTAAGGCA
9264272 GAAGAAGCC-AAATTTAT
1 GAAGAA-CCAAAATTTAT
9264289 GAAGAACCAAAATTTA
1 GAAGAACCAAAATTTA
9264305 CTGGGGCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (17 bp):
GAAGAACCAAAATTTAT
Found at i:9264415 original size:18 final size:18
Alignment explanation
Indices: 9264394--9264431 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9264384 CTAGGAAGAA
9264394 AATGAAGACTACTCTTGC
1 AATGAAGACTACTCTTGC
*
9264412 AATGAAGACTTCTCTTGC
1 AATGAAGACTACTCTTGC
9264430 AA
1 AA
9264432 CACTTCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (18 bp):
AATGAAGACTACTCTTGC
Found at i:9267205 original size:18 final size:18
Alignment explanation
Indices: 9267153--9267205 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
9267143 TTAATTTTGT
**
9267153 TTCTTTAATTTTAATTCC
1 TTCTTTAATTTTAATTGA
* *
9267171 TTCTTTTATGCTT-ATTGA
1 TTCTTTAAT-TTTAATTGA
9267189 TTCTTTAATTTTAATTG
1 TTCTTTAATTTTAATTG
9267206 TTTTAATTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (18 bp):
TTCTTTAATTTTAATTGA
Found at i:9271002 original size:20 final size:20
Alignment explanation
Indices: 9270977--9271021 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9270967 AATTAAATTA
* *
9270977 AAAAAGAGATAAAATAAAGG
1 AAAAAGAGAGAAAATAAAGC
*
9270997 AAAAAGAGAGAGAATAAAGC
1 AAAAAGAGAGAAAATAAAGC
9271017 AAAAA
1 AAAAA
9271022 AATGAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.07
Consensus pattern (20 bp):
AAAAAGAGAGAAAATAAAGC
Found at i:9273222 original size:54 final size:53
Alignment explanation
Indices: 9273135--9273725 Score: 505
Period size: 54 Copynumber: 10.9 Consensus size: 53
9273125 TATTGTCTTT
* * * *
9273135 AAATGAACTTTTAAATAAGCTAAGTCTGA-TTTTCAAGGGTTTCTTGATGTTTAC
1 AAATGAA-TTTTAAAGAAGCTAAG-CTTAGTTTTCAGGGGTTTCTTGATGTTTTC
* *
9273189 AAATGGATTTTGAAAGAAGCTAAGCTTAGTTTTCAAGGGTTTCTTGATGTTTTC
1 AAATGAATTTT-AAAGAAGCTAAGCTTAGTTTTCAGGGGTTTCTTGATGTTTTC
* * * * * *
9273243 AAATGAACTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGATTCTTGATGTTTTT
1 AAATGAA-TTTTAAAGAAGCTAAGCTTAGTTTTCAGGGGTTTCTTGATGTTTTC
* * * * * * *
9273297 TAATGAATGTTT-AAGGATCTAAGCCTAATTTTTATGGGTTTCTTGATGTTTTC
1 AAATGAAT-TTTAAAGAAGCTAAGCTTAGTTTTCAGGGGTTTCTTGATGTTTTC
* *
9273350 AAATGAATTTTTAAAGGAGCTAAGCTT-GATTTTCAGGGGTTTCTTGATGTCTTC
1 AAATGAA-TTTTAAAGAAGCTAAGCTTAG-TTTTCAGGGGTTTCTTGATGTTTTC
* * * * *
9273404 AAATGAATTTTGAAA-ATGCTAAGCCTAATTTTTAAGGGTTTCTTGATGTTTTC
1 AAATGAATTTT-AAAGAAGCTAAGCTTAGTTTTCAGGGGTTTCTTGATGTTTTC
* * * *
9273457 AAATGAATGTTTAAAGGAGATAAGCTT-GATTTTCAGGGGTTTCTTGATATCTTC
1 AAATGAAT-TTTAAAGAAGCTAAGCTTAG-TTTTCAGGGGTTTCTTGATGTTTTC
* * *
9273511 AAACGAATTTTTAAAGAAGCTAAGCCT-GATTTTCAGGGGTTTCTTGATGTCTTC
1 AAATGAA-TTTTAAAGAAGCTAAGCTTAG-TTTTCAGGGGTTTCTTGATGTTTTC
* * * * *
9273565 AAATGAATTTTCAAAGAACCTAAGCCTGATTTTTTAGGGGTTTCTTGATGTTTTT
1 AAATGAATTTT-AAAGAAGCTAAG-CTTAGTTTTCAGGGGTTTCTTGATGTTTTC
* * * * *
9273620 AAATTAATTTTTAAA-AGTGCTAAGCCT-GCTTTTTAGGGGTTTCTTGATGATAACTTC
1 AAATGAA-TTTTAAAGA-AGCTAAGCTTAG-TTTTCAGGGGTTTCTTGATG-T--TTTC
* * * * *
9273677 AAATGAATTTTTAAAGAATCTAAGCCTAATTTTTAGGGGCTTCTTGATG
1 AAATGAA-TTTTAAAGAAGCTAAGCTTAGTTTTCAGGGGTTTCTTGATG
9273726 ATAAATCTAA
Statistics
Matches: 445, Mismatches: 68, Indels: 45
0.80 0.12 0.08
Matches are distributed among these distances:
53 102 0.23
54 253 0.57
55 42 0.09
56 4 0.01
57 43 0.10
58 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (53 bp):
AAATGAATTTTAAAGAAGCTAAGCTTAGTTTTCAGGGGTTTCTTGATGTTTTC
Found at i:9273371 original size:107 final size:108
Alignment explanation
Indices: 9273135--9273725 Score: 625
Period size: 107 Copynumber: 5.5 Consensus size: 108
9273125 TATTGTCTTT
* * * * * * *
9273135 AAATGAACTTTTAAATAAGCTAAGTCTGATTTTCAAGGGTTTCTTGATGT-TTACAAATGGATTT
1 AAATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTT-CAAATGAATTT
* * * * *
9273199 TGAAAGAA-GCTAAGCTTAGTTTTCAAGGGTTTCTTGATGTTTTC
65 TTAAA-AATGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTC
* * * * ** *
9273243 AAATGAACTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGATTCTTGATGTTTTTTAATGAATGTT
1 AAATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTTCAAATGAATTTT
** *
9273308 TAAGGAT-CTAAGCCTAATTTTTATGGGTTTCTTGATGTTTTC
66 TAAAAATGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTC
* * * *
9273350 AAATGAATTTTTAAAGGAGCTAAGCTTGATTTTCAGGGGTTTCTTGATGTCTTCAAATGAA-TTT
1 AAATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTTCAAATGAATTTT
* *
9273414 TGAAAATGCTAAGCCTAATTTTTAAGGGTTTCTTGATGTTTTC
66 TAAAAATGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTC
* * * * * * * *
9273457 AAATGAATGTTTAAAGGAGATAAGCTTGATTTTCAGGGGTTTCTTGATATCTTCAAACGAATTTT
1 AAATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTTCAAATGAATTTT
* * *
9273522 TAAAGAA-GCTAAGCCTGATTTTCAGGGGTTTCTTGATGTCTTC
66 TAAA-AATGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTC
* * * * * *
9273565 AAATGAATTTTCAAAGAACCTAAGCCTGATTTTTTAGGGGTTTCTTGATGTTTTTAAATTAATTT
1 AAATGAATTTTTAAAGAAGCTAAGCCT-AATTTTTAGGGGTTTCTTGATGTCTTCAAATGAATTT
* ** *
9273630 TTAAAAGTGCTAAGCCTGCTTTTTAGGGGTTTCTTGATGATAACTTC
65 TTAAAAATGCTAAGCCTAATTTTTAGGGGTTTCTTGATG-T--TTTC
* *
9273677 AAATGAATTTTTAAAGAATCTAAGCCTAATTTTTAGGGGCTTCTTGATG
1 AAATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG
9273726 ATAAATCTAA
Statistics
Matches: 410, Mismatches: 63, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
106 6 0.01
107 174 0.42
108 113 0.28
109 67 0.16
110 1 0.00
111 20 0.05
112 29 0.07
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (108 bp):
AAATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTTCAAATGAATTTT
TAAAAATGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTC
Found at i:9273499 original size:161 final size:162
Alignment explanation
Indices: 9273132--9273725 Score: 739
Period size: 161 Copynumber: 3.7 Consensus size: 162
9273122 ATATATTGTC
** * * *
9273132 TTTAAATGAACT-TTTAAATAAGCTAAGTCTGATTTTCAAGGGTTTCTTGATGT-TTACAAATGG
1 TTTAAATGAA-TGTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTCTT-CAAATGA
* * * * *
9273195 ATTTTGAAAGAAGCTAAG-CTTAGTTTTCAAGGGTTTCTTGATGTTTTCAAATGAACTTTGAAAG
64 ATTTTTAAAGAAGCTAAGCCTGA-TTTTCAGGGGTTTCTTGATGTCTTCAAATGAATTTTGAAAG
*
9273259 AAGCTAAGCCTAATTTTTAGGGGATTCTTGATGTT
128 AAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTT
* * * * * *
9273294 TTTTAATGAATGTTT-AAGGATCTAAGCCTAATTTTTATGGGTTTCTTGATGTTTTCAAATGAAT
1 TTTAAATGAATGTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTCTTCAAATGAAT
* * *
9273358 TTTTAAAGGAGCTAAGCTTGATTTTCAGGGGTTTCTTGATGTCTTCAAATGAATTTTGAAA-ATG
66 TTTTAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTCTTCAAATGAATTTTGAAAGAAG
*
9273422 CTAAGCCTAATTTTTAAGGGTTTCTTGATGTT
131 CTAAGCCTAATTTTTAGGGGTTTCTTGATGTT
* * * * *
9273454 TTCAAATGAATGTTTAAAGGAGATAAGCTTGATTTTCAGGGGTTTCTTGATATCTTCAAACGAAT
1 TTTAAATGAATGTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTCTTCAAATGAAT
* *
9273519 TTTTAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTCTTCAAATGAATTTTCAAAGAAC
66 TTTTAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTCTTCAAATGAATTTTGAAAGAAG
*
9273584 CTAAGCCTGATTTTTTAGGGGTTTCTTGATGTT
131 CTAAGCCT-AATTTTTAGGGGTTTCTTGATGTT
* * * * * *
9273617 TTTAAATTAATTTTTAAAAGTGCTAAGCCTGCTTTTTAGGGGTTTCTTGATGATAACTTCAAATG
1 TTTAAATGAATGTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCTTGATG-T--CTTCAAATG
* * * *
9273682 AATTTTTAAAGAATCTAAGCCTAATTTTTAGGGGCTTCTTGATG
63 AATTTTTAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATG
9273726 ATAAATCTAA
Statistics
Matches: 371, Mismatches: 52, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
160 45 0.12
161 188 0.51
162 25 0.07
163 64 0.17
164 1 0.00
166 48 0.13
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (162 bp):
TTTAAATGAATGTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTCTTCAAATGAAT
TTTTAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTCTTCAAATGAATTTTGAAAGAAG
CTAAGCCTAATTTTTAGGGGTTTCTTGATGTT
Found at i:9293396 original size:65 final size:65
Alignment explanation
Indices: 9293288--9293419 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
9293278 GAGAATAATC
9293288 TGTCTCTTTCTCATACATCATTTGATGAGGAGAGATAGCTTGAAGTACTAGCGAAGGCAAAAGGT
1 TGTCTCTTTCTCATACATCATTTGATGAGGAGAGATAGCTTGAAGTACTAGCGAAGGCAAAAGGT
*
9293353 TGTCTCTTTCTCATACATCATTTGATGAGGAGAGATAGTTTGAAGTACTAGCGAAGGCAAAAGGT
1 TGTCTCTTTCTCATACATCATTTGATGAGGAGAGATAGCTTGAAGTACTAGCGAAGGCAAAAGGT
9293418 TG
1 TG
9293420 ATCAAATAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (65 bp):
TGTCTCTTTCTCATACATCATTTGATGAGGAGAGATAGCTTGAAGTACTAGCGAAGGCAAAAGGT
Found at i:9294781 original size:21 final size:22
Alignment explanation
Indices: 9294736--9294783 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9294726 TATTTAAATA
* *
9294736 TTTAATTTTTAAACTAATAATT
1 TTTAATTATTAAAATAATAATT
*
9294758 TTTAATTATTAAAAT-ATTATT
1 TTTAATTATTAAAATAATAATT
9294779 TTTAA
1 TTTAA
9294784 AGTTAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAATTATTAAAATAATAATT
Found at i:9296593 original size:64 final size:65
Alignment explanation
Indices: 9296366--9296578 Score: 220
Period size: 65 Copynumber: 3.3 Consensus size: 65
9296356 TATTCAAAGG
* * * *
9296366 CATGCACCGATGCATCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAAACATCGAATGC
1 CATGCATCGATGCA-CACTCCATGCATCGATGCACTC-A-GAATAT-TTTCAAAACATCGAATGC
*
9296428 ATTC
62 ATTT
* ** *
9296432 CATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTT
* ** **
9296497 GATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTGTTC-AAACATCGAATGCATT
1 CATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATT-TTCAAAACATCGAATGCATT
9296560 T
65 T
9296561 CATGCATCGATGCACACT
1 CATGCATCGATGCACACT
9296579 TGGTGCACCG
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
64 44 0.35
65 64 0.52
66 16 0.13
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (65 bp):
CATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:9302889 original size:21 final size:21
Alignment explanation
Indices: 9302863--9302906 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
9302853 ACTCCGGGAG
*
9302863 CTAGTTCTTCTCGAGCTGCTC
1 CTAGTTCTTCTCGAGCTCCTC
*
9302884 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCTCGAGCTCCTC
9302905 CT
1 CT
9302907 CCTCCTCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.36, G:0.16, T:0.41
Consensus pattern (21 bp):
CTAGTTCTTCTCGAGCTCCTC
Found at i:9304047 original size:64 final size:65
Alignment explanation
Indices: 9303820--9304032 Score: 220
Period size: 65 Copynumber: 3.3 Consensus size: 65
9303810 TATTCAAAGG
* * * *
9303820 CATGCACCGATGCATCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAAACATCGAATGC
1 CATGCATCGATGCA-CACTCCATGCATCGATGCACTC-A-GAATAT-TTTCAAAACATCGAATGC
*
9303882 ATTC
62 ATTT
* ** *
9303886 CATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTT
* ** **
9303951 GATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-AAACATCGAATGCATT
1 CATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCAAAACATCGAATGCATT
9304014 T
65 T
9304015 CATGCATCGATGCACACT
1 CATGCATCGATGCACACT
9304033 TGGTGCACCG
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
64 42 0.34
65 66 0.53
66 16 0.13
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (65 bp):
CATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:9306371 original size:33 final size:33
Alignment explanation
Indices: 9306334--9306400 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
9306324 ATATTTTTTA
9306334 TATATACATATAAATACGAGTTGGGATAAACTT
1 TATATACATATAAATACGAGTTGGGATAAACTT
* *
9306367 TATATATATATATATACGAGTTGGGATAAACTT
1 TATATACATATAAATACGAGTTGGGATAAACTT
9306400 T
1 T
9306401 TAAATTGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.37
Consensus pattern (33 bp):
TATATACATATAAATACGAGTTGGGATAAACTT
Found at i:9306480 original size:19 final size:21
Alignment explanation
Indices: 9306456--9306494 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9306446 AACATTTAAA
*
9306456 ATTAA-TATTTTAA-TATATT
1 ATTAATTATTGTAATTATATT
9306475 ATTAATTATTGTAATTATAT
1 ATTAATTATTGTAATTATAT
9306495 AATAAAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
ATTAATTATTGTAATTATATT
Found at i:9307494 original size:15 final size:16
Alignment explanation
Indices: 9307474--9307504 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
9307464 TTTTTATTTG
9307474 AAAATAATAA-AAATA
1 AAAATAATAAGAAATA
9307489 AAAATAATAAGAAATA
1 AAAATAATAAGAAATA
9307505 TTAACATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAATAATAAGAAATA
Found at i:9307609 original size:19 final size:19
Alignment explanation
Indices: 9307516--9307606 Score: 57
Period size: 19 Copynumber: 4.9 Consensus size: 19
9307506 TAACATTAGA
9307516 AATAATAATACT-AATAAT
1 AATAATAATACTAAATAAT
* * * *
9307534 AGTAGTAGAGA-TAAAAAAT
1 AATAATA-ATACTAAATAAT
*
9307553 AAATAA-AAAACT-AA-AAT
1 -AATAATAATACTAAATAAT
* *
9307570 AATAGTAATAGTAAATAAT
1 AATAATAATACTAAATAAT
9307589 AATAATAATACTATAATA
1 AATAATAATACTA-AATA
9307607 TAAAGTACCA
Statistics
Matches: 53, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
16 4 0.08
17 7 0.13
18 12 0.23
19 23 0.43
20 7 0.13
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (19 bp):
AATAATAATACTAAATAAT
Found at i:9307897 original size:31 final size:31
Alignment explanation
Indices: 9307831--9307897 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
9307821 TAATCACATC
* * * * *
9307831 TTAATTAAATAAAAATGAATATTATCATATC
1 TTAATCAAATAAAAATGAATATGATAAAATA
9307862 TTAATCAAATAAAAATGAA-AGTGATAAAATA
1 TTAATCAAATAAAAATGAATA-TGATAAAATA
9307893 TTAAT
1 TTAAT
9307898 TTTAAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (31 bp):
TTAATCAAATAAAAATGAATATGATAAAATA
Found at i:9308497 original size:3 final size:3
Alignment explanation
Indices: 9308480--9308585 Score: 196
Period size: 3 Copynumber: 35.7 Consensus size: 3
9308470 GGGTTCTAAT
*
9308480 TTA TCA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9308527 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9308575 TTA TTA TTA TT
1 TTA TTA TTA TT
9308586 TATTTTCAAG
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 98 0.98
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9310585 original size:15 final size:15
Alignment explanation
Indices: 9310562--9310591 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9310552 ACTTTTTATC
9310562 TTTTAAAATTATTTT
1 TTTTAAAATTATTTT
*
9310577 TTTTTAAATTATTTT
1 TTTTAAAATTATTTT
9310592 AAAAGATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAAAATTATTTT
Found at i:9311537 original size:42 final size:42
Alignment explanation
Indices: 9311478--9311557 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
9311468 TAAAGCATGG
9311478 GGGTAGAAACCATGTTTGGGTAAGATTCATCATACCATATGA
1 GGGTAGAAACCATGTTTGGGTAAGATTCATCATACCATATGA
9311520 GGGTAGAAACCATGTTTGGGTAAGATTCATCATACCAT
1 GGGTAGAAACCATGTTTGGGTAAGATTCATCATACCAT
9311558 GTATGAGTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (42 bp):
GGGTAGAAACCATGTTTGGGTAAGATTCATCATACCATATGA
Found at i:9315125 original size:19 final size:21
Alignment explanation
Indices: 9315092--9315131 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
9315082 TTAGATGTTT
9315092 AGATGTGTTAAAGTG-ATATA
1 AGATGTGTTAAAGTGAATATA
*
9315112 AGATG-GTTAGAGTGAATATA
1 AGATGTGTTAAAGTGAATATA
9315132 GTTAAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.33
Consensus pattern (21 bp):
AGATGTGTTAAAGTGAATATA
Found at i:9316261 original size:21 final size:21
Alignment explanation
Indices: 9316224--9316315 Score: 105
Period size: 21 Copynumber: 4.3 Consensus size: 21
9316214 GGTTCTACGC
*
9316224 GGTCCTTCGGGAA-ATATATGT
1 GGTCCTT-TGGAACATATATGT
*
9316245 GATCCTTTGGAACATATATGT
1 GGTCCTTTGGAACATATATGT
* * *
9316266 GGTCCTTCAGAAACATATATTT
1 GGTCCTT-TGGAACATATATGT
*
9316288 GGTCCTTTGGAACATATATAT
1 GGTCCTTTGGAACATATATGT
9316309 GGTCCTT
1 GGTCCTT
9316316 AGGGAAAGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
20 4 0.07
21 38 0.63
22 18 0.30
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (21 bp):
GGTCCTTTGGAACATATATGT
Found at i:9316294 original size:43 final size:42
Alignment explanation
Indices: 9316224--9316315 Score: 130
Period size: 43 Copynumber: 2.2 Consensus size: 42
9316214 GGTTCTACGC
* * *
9316224 GGTCCTTCGGGAAATATATGTGATCCTTTGGAACATATATGT
1 GGTCCTTCAGAAAATATATGTGATCCTTTGGAACATATATAT
* *
9316266 GGTCCTTCAGAAACATATATTTGGTCCTTTGGAACATATATAT
1 GGTCCTTCAGAAA-ATATATGTGATCCTTTGGAACATATATAT
9316309 GGTCCTT
1 GGTCCTT
9316316 AGGGAAAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 11 0.25
43 33 0.75
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (42 bp):
GGTCCTTCAGAAAATATATGTGATCCTTTGGAACATATATAT
Found at i:9316381 original size:21 final size:21
Alignment explanation
Indices: 9316224--9316382 Score: 99
Period size: 21 Copynumber: 7.3 Consensus size: 21
9316214 GGTTCTACGC
*
9316224 GGTCCTTCGGGAAATATATGT
1 GGTCCTTCAGGAAATATATGT
* *
9316245 GATCCTT-TGGAACATATATGT
1 GGTCCTTCAGGAA-ATATATGT
* *
9316266 GGTCCTTCAGAAACATATATTT
1 GGTCCTTCAGGAA-ATATATGT
* *
9316288 GGTCCTT-TGGAACATATATAT
1 GGTCCTTCAGGAA-ATATATGT
*
9316309 GGTCCTT-AGGGAAAGTTTTATGT
1 GGTCCTTCA-GGAAA--TATATGT
* * * *
9316332 GGTCATTCGGGACAATTCTATGC
1 GGTCCTTCAGGA-AA-TATATGT
* *
9316355 GATCCTTCAGGATATATATGT
1 GGTCCTTCAGGAAATATATGT
9316376 GGTCCTT
1 GGTCCTT
9316383 TGGAAAATTT
Statistics
Matches: 108, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
20 4 0.04
21 50 0.46
22 23 0.21
23 29 0.27
24 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (21 bp):
GGTCCTTCAGGAAATATATGT
Found at i:9322251 original size:135 final size:134
Alignment explanation
Indices: 9321527--9322230 Score: 831
Period size: 134 Copynumber: 5.2 Consensus size: 134
9321517 AAATTGAACA
* * * * ** * * *
9321527 CGATTTAATATTCCCTAAAGAACAATGGAATGAATCAACA-TTTCCATATATGAGTTTCCCTCAA
1 CGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAA-AGTCCCCAGATCTGATTTTCCCTCAA
* ** ** *
9321591 GAAGAAGCGGAACAGGTCATTCTCTTTCAAGATTTGATATTCTCC-GAGTAAAAGTGGAACAAGT
65 GAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTC-CCTGAGTAACAGTGGAACAAGT
* *
9321655 ATGCCT
129 CTACCT
* ** * ** * *
9321661 CGATTCAATTTTTTCTAAAGAACAGTGGAATGAATCAAAGTATCCAGATCTGATTTTCCATTAAG
1 CGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAAG
* *
9321726 AAGAATC-GAAACATATCCCTCTCTTTAAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
66 AAGAAGCAG-AACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
*
9321790 TTCCT
130 TACCT
* * *
9321795 CGATTCAATCTTCCCTGATGAACAGTGGAACGAATCAAAGTCCCCAAATCTGATTTTCCCTCAAG
1 CGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAAG
* * *
9321860 AAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTAAGTAATAGTGGAATAAGTCT
66 AAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCT
*
9321925 TCCT
131 ACCT
* * * * *
9321929 CCATTCAATCTTTCCTGAAAAATAGTAGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAAG
1 CGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAAG
* * *
9321994 AAGAAGCGGAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGTCT
66 AAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCT
9322059 ACCT
131 ACCT
* * *
9322063 CAATTTAATATTCCCTGAAGAACAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTTCCCTCAA
1 CGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAAGTCCCCAGATCTGA-TTTTCCCTCAA
* * * * * * * *
9322128 TAAGAAGTAGAACAGATCTCTCTCTTTCAAGACTGGATATTCCCTTAGTGACAGTGGAACAAGTC
65 GAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
*
9322193 TACAT
130 TACCT
*
9322198 CGATTCAA-CACTCCCTGAAGAACAGTGGAATGA
1 CGATTCAATC-TTCCCTGAAGAACAGTGGAATGA
9322231 GTCGACATTT
Statistics
Matches: 492, Mismatches: 72, Indels: 11
0.86 0.13 0.02
Matches are distributed among these distances:
133 4 0.01
134 388 0.79
135 100 0.20
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (134 bp):
CGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAAG
AAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCT
ACCT
Found at i:9324931 original size:3 final size:3
Alignment explanation
Indices: 9324923--9324960 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9324913 TAAAAGTCAT
9324923 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
9324961 TAAAAACAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9333317 original size:21 final size:21
Alignment explanation
Indices: 9333293--9333334 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9333283 GATAGAATCC
*
9333293 TTCACTTACCGAAACTTCCAA
1 TTCACTTACCAAAACTTCCAA
9333314 TTCACTTACCAAAACTTCCAA
1 TTCACTTACCAAAACTTCCAA
9333335 GGAATTCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.33, G:0.02, T:0.29
Consensus pattern (21 bp):
TTCACTTACCAAAACTTCCAA
Found at i:9333761 original size:192 final size:192
Alignment explanation
Indices: 9333386--9333770 Score: 754
Period size: 192 Copynumber: 2.0 Consensus size: 192
9333376 AAGCCAGCTA
9333386 CAATGCATAGACAAGAGCCCTCTAAGAGGCTCACGTGATCTACTAGAGTGAAATCAAAGATCTGA
1 CAATGCATAGACAAGAGCCCTCTAAGAGGCTCACGTGATCTACTAGAGTGAAATCAAAGATCTGA
9333451 TAACCATATCTATTTAACCTACTGACCTACGAGTATTCACAATTAATTGATGTCTGACACCATCA
66 TAACCATATCTATTTAACCTACTGACCTACGAGTATTCACAATTAATTGATGTCTGACACCATCA
9333516 ATTAAGGTCACTATAAATATCTCTTAACCACACTTGATGGATGGGGTTTCTCCACTTTTCCT
131 ATTAAGGTCACTATAAATATCTCTTAACCACACTTGATGGATGGGGTTTCTCCACTTTTCCT
9333578 CAATGCATAGACAAGAGCCCTCTAAGAGGCTCACGTGATCTACTAGAGTGAAATCAAAGATCTGA
1 CAATGCATAGACAAGAGCCCTCTAAGAGGCTCACGTGATCTACTAGAGTGAAATCAAAGATCTGA
9333643 TAACCATATCTATTTAACCTACTGACCTACGAGTATTCACAAATTAATTGATGTCTGACACCATC
66 TAACCATATCTATTTAACCTACTGACCTACGAGTATTCAC-AATTAATTGATGTCTGACACCATC
9333708 AATTAAGGTCACTATAAATATCTCTTAACCACACTTGATGGATGGGG-TTCTCCACTTTTCCT
130 AATTAAGGTCACTATAAATATCTCTTAACCACACTTGATGGATGGGGTTTCTCCACTTTTCCT
9333770 C
1 C
9333771 CTTCACTCCC
Statistics
Matches: 192, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
192 121 0.63
193 71 0.37
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (192 bp):
CAATGCATAGACAAGAGCCCTCTAAGAGGCTCACGTGATCTACTAGAGTGAAATCAAAGATCTGA
TAACCATATCTATTTAACCTACTGACCTACGAGTATTCACAATTAATTGATGTCTGACACCATCA
ATTAAGGTCACTATAAATATCTCTTAACCACACTTGATGGATGGGGTTTCTCCACTTTTCCT
Found at i:9345108 original size:20 final size:21
Alignment explanation
Indices: 9345083--9345128 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
9345073 TTTGTGACCG
9345083 TTTCTAGCCG-TTGGGGATGA
1 TTTCTAGCCGTTTGGGGATGA
*
9345103 TTTCTAGCCGTTTGGGGATGT
1 TTTCTAGCCGTTTGGGGATGA
9345124 TTTCT
1 TTTCT
9345129 CTGCAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.43
Consensus pattern (21 bp):
TTTCTAGCCGTTTGGGGATGA
Found at i:9345182 original size:21 final size:21
Alignment explanation
Indices: 9345158--9345210 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
9345148 AGAACAGAGG
*
9345158 GTATCAGTACTCCTACAGGAA
1 GTATCGGTACTCCTACAGGAA
9345179 GTATCGGTACTCCTACAGGAA
1 GTATCGGTACTCCTACAGGAA
9345200 GTATCGGTACT
1 GTATCGGTACT
9345211 ACCTTTGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (21 bp):
GTATCGGTACTCCTACAGGAA
Found at i:9345256 original size:47 final size:48
Alignment explanation
Indices: 9345187--9345281 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 48
9345177 AAGTATCGGT
9345187 ACTCCTACAGGAAGTATCGGTACTACCTTTGTAATATTT-AATAAAAC
1 ACTCCTACAGGAAGTATCGGTACTACCTTTGTAATATTTAAATAAAAC
9345234 ACTCCTACAGGAAGTATCGGTACTACCTTTGTAATATTTAAATAAAAC
1 ACTCCTACAGGAAGTATCGGTACTACCTTTGTAATATTTAAATAAAAC
9345282 TTTCCATTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 39 0.83
48 8 0.17
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (48 bp):
ACTCCTACAGGAAGTATCGGTACTACCTTTGTAATATTTAAATAAAAC
Found at i:9346300 original size:16 final size:17
Alignment explanation
Indices: 9346250--9346301 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
9346240 CAAAAAAATA
9346250 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
9346267 GA-TT-AAA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
9346282 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
9346298 AATT
1 AATT
9346302 AAATTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:9347499 original size:23 final size:23
Alignment explanation
Indices: 9347452--9347523 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
9347442 TATTTTAATA
9347452 AAAATATTAATTATTAACATATTT
1 AAAATA-TAATTATTAACATATTT
* * *
9347476 AAAATATATTTATTAATATTTTT
1 AAAATATAATTATTAACATATTT
*
9347499 AATATATAATATATTATA-ATATTT
1 AAAATATAAT-TATTA-ACATATTT
9347523 A
1 A
9347524 TTACAATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 22 0.55
24 17 0.43
25 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (23 bp):
AAAATATAATTATTAACATATTT
Found at i:9347843 original size:29 final size:33
Alignment explanation
Indices: 9347786--9347854 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 33
9347776 ATAATTTATC
* **
9347786 ATATTTTTATTTTAATATAATATACTAGATTTA
1 ATATTTTTATTTTAATAAAATATACTAGAAATA
9347819 ATATTTTTA-TTT-ATAAAAT-TA-TAGAAATA
1 ATATTTTTATTTTAATAAAATATACTAGAAATA
9347848 ATATTTT
1 ATATTTT
9347855 AATAATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 13 0.39
30 2 0.06
31 6 0.18
32 3 0.09
33 9 0.27
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (33 bp):
ATATTTTTATTTTAATAAAATATACTAGAAATA
Found at i:9352801 original size:2 final size:2
Alignment explanation
Indices: 9352794--9352825 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9352784 TGGTGATGTA
9352794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9352826 TTTACTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9354965 original size:15 final size:15
Alignment explanation
Indices: 9354942--9354971 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9354932 TTTCGGTTAC
9354942 AATCAAAAATATTAT
1 AATCAAAAATATTAT
*
9354957 AATCGAAAATATTAT
1 AATCAAAAATATTAT
9354972 GAAAAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (15 bp):
AATCAAAAATATTAT
Found at i:9356301 original size:22 final size:23
Alignment explanation
Indices: 9356273--9356316 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
9356263 TGCACCCCTG
9356273 TAGTGCATTC-ATGCACC-TGCAC
1 TAGTGCA-TCGATGCACCATGCAC
9356295 TAGTGCATCGATGCACCATGCA
1 TAGTGCATCGATGCACCATGCA
9356317 GTGCACCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 2 0.10
22 14 0.70
23 4 0.20
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (23 bp):
TAGTGCATCGATGCACCATGCAC
Found at i:9356340 original size:13 final size:12
Alignment explanation
Indices: 9356306--9356341 Score: 63
Period size: 12 Copynumber: 2.9 Consensus size: 12
9356296 AGTGCATCGA
9356306 TGCACCATGCAG
1 TGCACCATGCAG
9356318 TGCACCATGCAG
1 TGCACCATGCAG
9356330 TGCATCCATGCA
1 TGCA-CCATGCA
9356342 CTCCATTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.19
Consensus pattern (12 bp):
TGCACCATGCAG
Found at i:9356534 original size:21 final size:21
Alignment explanation
Indices: 9356508--9356562 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
9356498 TTGAGTAGAA
9356508 AAATCATCCCCAAATGGCTCC
1 AAATCATCCCCAAATGGCTCC
9356529 AAATCATCCCCAAATGGCTCC
1 AAATCATCCCCAAATGGCTCC
*
9356550 AAAACATCCCCAA
1 AAATCATCCCCAA
9356563 TGGATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.38, G:0.07, T:0.16
Consensus pattern (21 bp):
AAATCATCCCCAAATGGCTCC
Found at i:9357738 original size:60 final size:60
Alignment explanation
Indices: 9357628--9357743 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
9357618 TATTTGACAC
* * * * * *
9357628 GATGCCTTCAAGTTCCAGAGGAAGGCATTCAACTGCGAGCTTTTTCGACCTCAATGTCGA
1 GATGCCTTCAAGTTCAAGAGGAAGACATGCAACTACCAGCTTTTTCGACCTAAATGTCGA
*
9357688 GATGCCTTCAAGTTCAA-AGGGAAGACATGCAACTACCAG-TTTGTTTGACCTAAATG
1 GATGCCTTCAAGTTCAAGA-GGAAGACATGCAACTACCAGCTTT-TTCGACCTAAATG
9357744 CCGATAGTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 4 0.09
60 43 0.91
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (60 bp):
GATGCCTTCAAGTTCAAGAGGAAGACATGCAACTACCAGCTTTTTCGACCTAAATGTCGA
Found at i:9361614 original size:219 final size:219
Alignment explanation
Indices: 9361235--9361668 Score: 742
Period size: 219 Copynumber: 2.0 Consensus size: 219
9361225 AATATATAAA
*
9361235 ATTCTTATCAAAATAATAATCTAATTATATAACGATAATTAATAGTAGATTTTGTTATTTAAATA
1 ATTCTTATCAAAATAATAATCTAATTATATAACGATAATTAAAAGTAGATTTTGTTATTTAAATA
* *
9361300 CATACCTCTGTATCAGCCTTCTGATCAATGAGTAGCCTAATTTTTTCTAATTCATCAGGTAAATC
66 CATACCTCTGTATCAACCTTCTGATCAATGAGTAGCCTAATTTCTTCTAATTCATCAGGTAAATC
* *
9361365 TTGATAATATTTCCTTGCAACTGACCACCTATTCAATTAAATAATTTATATTATATACTAAATAA
131 TCGATAATATTTCCTTGCAACTGACCACCTATTAAATTAAATAATTTATATTATATACTAAATAA
9361430 AATTATTAATATACCAAATCTAAT
196 AATTATTAATATACCAAATCTAAT
*
9361454 ATTCTTATCAAAATAATAATCTAATTATATAACGATAATTAAAAGTATATTTTGTTATTTAAATA
1 ATTCTTATCAAAATAATAATCTAATTATATAACGATAATTAAAAGTAGATTTTGTTATTTAAATA
* * *
9361519 CATACCTTTGTGTCAACCTTCTGATCAATGAGTAGCCTAATTTCTTCTAATTCATCAGGTATATC
66 CATACCTCTGTATCAACCTTCTGATCAATGAGTAGCCTAATTTCTTCTAATTCATCAGGTAAATC
* * **
9361584 TCGATGATCTTTCCTTGCAGTTGACCACCTATTAAATTAAATAATTTATATTATATACTAAATAA
131 TCGATAATATTTCCTTGCAACTGACCACCTATTAAATTAAATAATTTATATTATATACTAAATAA
*
9361649 AATTATTAATATACGAAATC
196 AATTATTAATATACCAAATC
9361669 AGTATAGTAA
Statistics
Matches: 201, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
219 201 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (219 bp):
ATTCTTATCAAAATAATAATCTAATTATATAACGATAATTAAAAGTAGATTTTGTTATTTAAATA
CATACCTCTGTATCAACCTTCTGATCAATGAGTAGCCTAATTTCTTCTAATTCATCAGGTAAATC
TCGATAATATTTCCTTGCAACTGACCACCTATTAAATTAAATAATTTATATTATATACTAAATAA
AATTATTAATATACCAAATCTAAT
Found at i:9362694 original size:17 final size:17
Alignment explanation
Indices: 9362672--9362714 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
9362662 GAATTTGACC
9362672 GGGTTTGAGTTTTAAGA
1 GGGTTTGAGTTTTAAGA
* * *
9362689 GGGTTTGGGTTTTGATA
1 GGGTTTGAGTTTTAAGA
9362706 GGGTTTGAG
1 GGGTTTGAG
9362715 AGGATTTGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (17 bp):
GGGTTTGAGTTTTAAGA
Found at i:9363992 original size:34 final size:34
Alignment explanation
Indices: 9363939--9364003 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
9363929 CCACTGCTGT
* * *
9363939 CGACGTAGTCTCTGTCATCATCCTAGTTATATGC
1 CGACATAGCCTCTGCCATCATCCTAGTTATATGC
9363973 CGACATAGCCTCTGCCATCATCCTAGTTATA
1 CGACATAGCCTCTGCCATCATCCTAGTTATA
9364004 CACCACCGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.32
Consensus pattern (34 bp):
CGACATAGCCTCTGCCATCATCCTAGTTATATGC
Found at i:9366268 original size:31 final size:31
Alignment explanation
Indices: 9366232--9366291 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
9366222 AACTTAAAAG
* *
9366232 AGTTTTGCAATACTGATATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
9366263 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
9366292 CATACAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:9367006 original size:40 final size:40
Alignment explanation
Indices: 9366927--9367217 Score: 130
Period size: 40 Copynumber: 7.3 Consensus size: 40
9366917 TAAAATTTTA
9366927 ATAATATATAAAATAATTTATATGATATAAAATTAAATATCTATAAT
1 ATAATAT-TAAAA-AA-TTAT-T-AT-TAAAATT-AATATCTATAAT
*
9366974 ATAATATTAAAAAATTATTATTAAAATTAATATATATAAT
1 ATAATATTAAAAAATTATTATTAAAATTAATATCTATAAT
* * * * * *
9367014 ATGATATTAAAAAATTAATATT-TAATT--TATTTAAAAA
1 ATAATATTAAAAAATTATTATTAAAATTAATATCTATAAT
* * * * *
9367051 ATTAATA-T-CAAAATTAATATCTATAATATAATAT-TAAAAA
1 A-TAATATTAAAAAATTATTAT-TAAAAT-TAATATCTATAAT
* * * *
9367091 ATTAATATT--TAATTTATT-TAAAAAATTAATATC-AAAAT
1 A-TAATATTAAAAAATTATTAT-TAAAATTAATATCTATAAT
*
9367129 -TAATATCTATAATATAA-TATTA-AAAAATTAATAT-T-TAAT
1 ATAATAT-TA-AA-A-AATTATTATTAAAATTAATATCTATAAT
* *
9367168 -TTAT-TTAAAAAACTTAATATTAAAATTAATATCTATAAT
1 ATAATATTAAAAAA-TTATTATTAAAATTAATATCTATAAT
*
9367207 ATAAAATTAAA
1 ATAATATTAAA
9367218 TATAAAACCT
Statistics
Matches: 197, Mismatches: 24, Indels: 52
0.72 0.09 0.19
Matches are distributed among these distances:
34 2 0.01
35 1 0.01
36 23 0.12
37 24 0.12
38 20 0.10
39 20 0.10
40 64 0.32
41 21 0.11
42 3 0.02
43 1 0.01
44 4 0.02
45 2 0.01
46 5 0.03
47 7 0.04
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (40 bp):
ATAATATTAAAAAATTATTATTAAAATTAATATCTATAAT
Found at i:9367064 original size:64 final size:64
Alignment explanation
Indices: 9366980--9367217 Score: 413
Period size: 64 Copynumber: 3.7 Consensus size: 64
9366970 TAATATAATA
* * * *
9366980 TTAAAAAATTATTATTAAAATTAATATATATAATATGATATTAAAAAATTAATATTTAATTTAT
1 TTAAAAAATTAATATCAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTAT
9367044 TTAAAAAATTAATATCAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTAT
1 TTAAAAAATTAATATCAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTAT
9367108 TTAAAAAATTAATATCAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTAT
1 TTAAAAAATTAATATCAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTAT
* *
9367172 TTAAAAAACTTAATATTAAAATTAATATCTATAATATAAAATTAAA
1 TTAAAAAA-TTAATATCAAAATTAATATCTATAATATAATATTAAA
9367218 TATAAAACCT
Statistics
Matches: 167, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 132 0.79
65 35 0.21
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (64 bp):
TTAAAAAATTAATATCAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTAT
Found at i:9367065 original size:12 final size:12
Alignment explanation
Indices: 9367048--9367135 Score: 61
Period size: 12 Copynumber: 7.0 Consensus size: 12
9367038 ATTTATTTAA
9367048 AAAATTAATATC
1 AAAATTAATATC
9367060 AAAATTAATATC
1 AAAATTAATATC
* *
9367072 TATAATATAATATTAA
1 -AAAAT-TAATA-T-C
9367088 AAAATTAATAT-
1 AAAATTAATATC
** * * *
9367099 TTAATTTATTTAA
1 AAAATTAATAT-C
9367112 AAAATTAATATC
1 AAAATTAATATC
9367124 AAAATTAATATC
1 AAAATTAATATC
9367136 TATAATATAA
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
11 7 0.12
12 24 0.41
13 12 0.21
14 10 0.17
15 5 0.09
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTAATATC
Found at i:9367152 original size:104 final size:104
Alignment explanation
Indices: 9366951--9367162 Score: 263
Period size: 104 Copynumber: 2.0 Consensus size: 104
9366941 AATTTATATG
* * *
9366951 ATATAAAATTAAATATCTATAATATAATATTAAAAAATTATTATTAAAATTAATATATATAATAT
1 ATATAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTAAAATTAATATAAAAAATAT
* *
9367016 GATATTAAAAAATTAATATTTAATTTATTTAAAAAATTA
66 AATATTAAAAAATTAATATTTAATTAATTTAAAAAATTA
* * *
9367055 ATATCAAAATT-AATATCTATAATATAATATTAAAAAATTAATATT-TAATTTATTTAAAAAAT-
1 ATAT-AAAATTAAATATCTATAATATAATATTAAAAAATTAATATTAAAATTAATATAAAAAATA
*
9367117 TAATA-T-CAAAATTAATATCTATAATATAATATTAAAAAATTA
65 TAATATTAAAAAATTAATAT-T-TAAT-TAAT-TTAAAAAATTA
9367159 ATAT
1 ATAT
9367163 TTAATTTATT
Statistics
Matches: 94, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
100 11 0.12
101 2 0.02
102 8 0.09
103 15 0.16
104 52 0.55
105 6 0.06
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (104 bp):
ATATAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTAAAATTAATATAAAAAATAT
AATATTAAAAAATTAATATTTAATTAATTTAAAAAATTA
Found at i:9367161 original size:28 final size:26
Alignment explanation
Indices: 9366996--9367199 Score: 124
Period size: 24 Copynumber: 7.9 Consensus size: 26
9366986 AATTATTATT
*
9366996 AAAATTAATATATATAATATGATATTAA
1 AAAATTAATAT-TATAAT-TAATATTAA
*
9367024 AAAATTAATATT-TAATTTAT-TTAA
1 AAAATTAATATTATAATTAATATTAA
* * *
9367048 AAAATTAATATCAAAATTAATATCTAT
1 AAAATTAATATTATAATTAATAT-TAA
* *
9367075 AATA-TAATATTAAAAAATTAATATT--
1 AAAATTAATATT--ATAATTAATATTAA
* * * *
9367100 -TAATTTAT-TTAAAAAATTAATA-T-C
1 AAAATTAATATT--ATAATTAATATTAA
9367124 AAAATTAATATCTATAATATAATATTAA
1 AAAATTAATAT-TATAAT-TAATATTAA
*
9367152 AAAATTAATATT-TAATTTAT-TTAA
1 AAAATTAATATTATAATTAATATTAA
*
9367176 AAAACTTAATATTAAAATTAATAT
1 AAAA-TTAATATTATAATTAATAT
9367200 CTATAATATA
Statistics
Matches: 143, Mismatches: 17, Indels: 33
0.74 0.09 0.17
Matches are distributed among these distances:
23 1 0.01
24 38 0.27
25 33 0.23
26 27 0.19
27 11 0.08
28 33 0.23
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
AAAATTAATATTATAATTAATATTAA
Found at i:9367883 original size:60 final size:58
Alignment explanation
Indices: 9367723--9367886 Score: 172
Period size: 60 Copynumber: 2.7 Consensus size: 58
9367713 TTATGAACCT
* * * *
9367723 CATTTTAAATTAGTCCCTAACTTTTAAACATTCCAATTTCATCCCTAAATAATGACTAT
1 CATTCTAAATTAGT-CCTAACTTTTGAACATTTCAATTTCATCCCTAAATAATGACTAC
* * *
9367782 CATTCTAAATTAGTCCTAAAACTTTTGAAAATTTTACTTTCATCCC-AAACT-ATGATCT-C
1 CATTCTAAATTAGTCCT--AACTTTTGAACATTTCAATTTCATCCCTAAA-TAATGA-CTAC
9367841 CATTCTAAATTAGTCCATAGACTTTTTGAACATTTCAATTTCATCC
1 CATTCTAAATTAGTCC-TA-AC-TTTTGAACATTTCAATTTCATCC
9367887 GACATTGTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
58 4 0.05
59 38 0.43
60 46 0.52
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.40
Consensus pattern (58 bp):
CATTCTAAATTAGTCCTAACTTTTGAACATTTCAATTTCATCCCTAAATAATGACTAC
Found at i:9368891 original size:21 final size:21
Alignment explanation
Indices: 9368865--9368905 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
9368855 AGGCAACTTT
9368865 AAGGCATTTGGGGTAGGTATC
1 AAGGCATTTGGGGTAGGTATC
9368886 AAGGCATTTGGGGTAGGTAT
1 AAGGCATTTGGGGTAGGTAT
9368906 TAATTTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.39, T:0.29
Consensus pattern (21 bp):
AAGGCATTTGGGGTAGGTATC
Found at i:9369045 original size:21 final size:21
Alignment explanation
Indices: 9368999--9369069 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 21
9368989 ACGCGGGTTA
9368999 TTTTTTTCTTTTAAAAATAAT
1 TTTTTTTCTTTTAAAAATAAT
* *
9369020 ATTTTTATCTTTT-AAAATTAT
1 -TTTTTTTCTTTTAAAAATAAT
9369041 TTTTTAAAATTCTTTTAAAAAATAAT
1 TTTTT----TTCTTTT-AAAAATAAT
9369067 TTT
1 TTT
9369070 AAGTGTTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 5 0.13
21 7 0.18
22 11 0.28
24 6 0.15
26 10 0.26
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTTTTCTTTTAAAAATAAT
Found at i:9375913 original size:66 final size:67
Alignment explanation
Indices: 9375841--9375965 Score: 173
Period size: 67 Copynumber: 1.9 Consensus size: 67
9375831 GTTTTTTCCT
* *
9375841 TTGAAACAAAAT-TTCATCTCACTTGAGACAGTTTCC-CTTGAAATACAAATTTTGAAATTGTTT
1 TTGAAACAAAATATTCATATCACTTGAGACA-TTTCCTCTTGAAATACAAATTTTAAAATTGTTT
9375904 CAC
65 CAC
* * * *
9375907 TTGAAACAAAATATTTATATCACTTTAGATATTTCCTCTTGAAATACACATTTTAAAAT
1 TTGAAACAAAATATTCATATCACTTGAGACATTTCCTCTTGAAATACAAATTTTAAAAT
9375966 CATTTAATTC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
66 17 0.33
67 34 0.67
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (67 bp):
TTGAAACAAAATATTCATATCACTTGAGACATTTCCTCTTGAAATACAAATTTTAAAATTGTTTC
AC
Found at i:9377676 original size:29 final size:30
Alignment explanation
Indices: 9377599--9377737 Score: 90
Period size: 29 Copynumber: 4.7 Consensus size: 30
9377589 ATGACAATCC
* * *
9377599 AAGTTTGGGGATGAAATTAGAACG-TTCAC
1 AAGTTTGGGGATGAAATTAGAATGAGTCAT
* * *
9377628 AATTTTGGAGACT-AATTTAGAATGAGTCAT
1 AAGTTTGGGGA-TGAAATTAGAATGAGTCAT
* * *
9377658 AA-TTTGGGGATGAAATTAGAAT-ATTTAA
1 AAGTTTGGGGATGAAATTAGAATGAGTCAT
* * * * *
9377686 AAGTTTAGGGATCAATTTAAAATGAAAGTAAT
1 AAGTTTGGGGATGAAATTAGAATG--AGTCAT
9377718 -AGTTTGGGGATGAAATTAGA
1 AAGTTTGGGGATGAAATTAGA
9377738 TTGTTATGCC
Statistics
Matches: 81, Mismatches: 22, Indels: 12
0.70 0.19 0.10
Matches are distributed among these distances:
28 6 0.07
29 50 0.62
30 6 0.07
31 16 0.20
32 3 0.04
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (30 bp):
AAGTTTGGGGATGAAATTAGAATGAGTCAT
Found at i:9377736 original size:60 final size:58
Alignment explanation
Indices: 9377543--9377737 Score: 157
Period size: 60 Copynumber: 3.3 Consensus size: 58
9377533 TTAAGATGAA
* * * * * *
9377543 TTTGGGG-TTAAATTGGAAGATTCAAAAGTTT-GGGGACTAATTTAGAATGA-CAATCCAAG
1 TTTGGGGATGAAATTAGAACATTCAAAA-TTTAGGAGACTAATTTAAAATGAGTAAT---AG
* * * * * *
9377602 TTTGGGGATGAAATTAGAACGTTCACAATTTTGGAGACTAATTTAGAATGAGTCATAA
1 TTTGGGGATGAAATTAGAACATTCAAAATTTAGGAGACTAATTTAAAATGAGTAATAG
* *
9377660 TTTGGGGATGAAATTAGAATATTTAAAAGTTTAGG-GA-TCAATTTAAAATGAAAGTAATAG
1 TTTGGGGATGAAATTAGAACATTCAAAA-TTTAGGAGACT-AATTTAAAATG--AGTAATAG
9377720 TTTGGGGATGAAATTAGA
1 TTTGGGGATGAAATTAGA
9377738 TTGTTATGCC
Statistics
Matches: 112, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
57 1 0.01
58 37 0.33
59 15 0.13
60 57 0.51
61 2 0.02
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (58 bp):
TTTGGGGATGAAATTAGAACATTCAAAATTTAGGAGACTAATTTAAAATGAGTAATAG
Found at i:9379157 original size:23 final size:23
Alignment explanation
Indices: 9379131--9379232 Score: 125
Period size: 23 Copynumber: 4.4 Consensus size: 23
9379121 ATAAATTACA
9379131 CCGAAGTG-CCACGTAGAAATGTC
1 CCGAAG-GACCACGTAGAAATGTC
* *
9379154 CCGAAGGACCACATAGATATGTC
1 CCGAAGGACCACGTAGAAATGTC
* * *
9379177 CCGAAGGACTAAGTAGAAATATC
1 CCGAAGGACCACGTAGAAATGTC
* *
9379200 CCAAAGGACCACGTAGAATTGTC
1 CCGAAGGACCACGTAGAAATGTC
9379223 CCGAAGGACC
1 CCGAAGGACC
9379233 GCGAAGAACC
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
22 1 0.02
23 64 0.98
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (23 bp):
CCGAAGGACCACGTAGAAATGTC
Found at i:9382105 original size:57 final size:57
Alignment explanation
Indices: 9382017--9382131 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
9382007 TCTGAAGCCT
9382017 ACTTTAGATGTGGTGACACCGAGCATTTTATCTTGGATTGTCCATTGATGACTGATG
1 ACTTTAGATGTGGTGACACCGAGCATTTTATCTTGGATTGTCCATTGATGACTGATG
9382074 ACTTTAGATGTGGTGACACCGAGCATTTTATCTTGGATTGTCCATTGATGACTGATG
1 ACTTTAGATGTGGTGACACCGAGCATTTTATCTTGGATTGTCCATTGATGACTGATG
9382131 A
1 A
9382132 GGCTACATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (57 bp):
ACTTTAGATGTGGTGACACCGAGCATTTTATCTTGGATTGTCCATTGATGACTGATG
Found at i:9384892 original size:23 final size:23
Alignment explanation
Indices: 9384862--9384934 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
9384852 GAGTCGAGGG
9384862 TTCTACGCGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
* *
9384885 TTCTACGCGGTCCTTCGGGAAAA
1 TTCTACGCGGTCCTTCGGGACAT
* * *
9384908 TACTATGTGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
9384931 TTCT
1 TTCT
9384935 CTGTGGCACT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.16, C:0.26, G:0.25, T:0.33
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGGGACAT
Found at i:9384939 original size:23 final size:23
Alignment explanation
Indices: 9384870--9384948 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
9384860 GGTTCTACGC
*
9384870 GGTCCTTCGGGACATTTCTAC-GC
1 GGTCCTTCGGGACATTTCT-CTGT
* * * *
9384893 GGTCCTTCGGGAAAATACTATGT
1 GGTCCTTCGGGACATTTCTCTGT
9384916 GGTCCTTCGGGACATTTCTCTGT
1 GGTCCTTCGGGACATTTCTCTGT
9384939 GG-CACTTCGG
1 GGTC-CTTCGG
9384949 TGCAATTTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
22 1 0.02
23 44 0.98
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.32
Consensus pattern (23 bp):
GGTCCTTCGGGACATTTCTCTGT
Found at i:9387051 original size:19 final size:19
Alignment explanation
Indices: 9387027--9387069 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
9387017 AAAATACTTT
9387027 ATCTCCAATATCAAACTCG
1 ATCTCCAATATCAAACTCG
*
9387046 ATCTCCAATATCGAACTCG
1 ATCTCCAATATCAAACTCG
9387065 ATCTC
1 ATCTC
9387070 TTTTCTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.28
Consensus pattern (19 bp):
ATCTCCAATATCAAACTCG
Found at i:9392882 original size:23 final size:23
Alignment explanation
Indices: 9392849--9392910 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
9392839 CATCTTATAT
9392849 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* * *
9392872 GGCACTTCGGTGCAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
*
9392895 GGCACTCCGGTGCATT
1 GGCACTACGGTGCATT
9392911 AATATGAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.16, C:0.29, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:9395276 original size:46 final size:46
Alignment explanation
Indices: 9395226--9395323 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 46
9395216 GAAGTGCCAT
* * *
9395226 GTAGAAATGTTCCAAATGACCACATAG-ATATGTCTCGAAGGACCGC
1 GTAGAAATGTCCCAAAGGACCACATAGAAT-TGTCCCGAAGGACCGC
* *
9395272 GTAGAAATGTCCCAAAGGACCACATAGAATTGTCCCGAAGGATCGT
1 GTAGAAATGTCCCAAAGGACCACATAGAATTGTCCCGAAGGACCGC
9395318 GTAGAA
1 GTAGAA
9395324 CCCTTGACTC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 44 0.96
47 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (46 bp):
GTAGAAATGTCCCAAAGGACCACATAGAATTGTCCCGAAGGACCGC
Found at i:9395305 original size:23 final size:23
Alignment explanation
Indices: 9395227--9395313 Score: 93
Period size: 23 Copynumber: 3.8 Consensus size: 23
9395217 AAGTGCCATG
* *
9395227 TAGAAATGTTCCAAATGACCACA
1 TAGAAATGTCCCAAAGGACCACA
* * * * *
9395250 TAGATATGTCTCGAAGGACCGCG
1 TAGAAATGTCCCAAAGGACCACA
9395273 TAGAAATGTCCCAAAGGACCACA
1 TAGAAATGTCCCAAAGGACCACA
* *
9395296 TAGAATTGTCCCGAAGGA
1 TAGAAATGTCCCAAAGGA
9395314 TCGTGTAGAA
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (23 bp):
TAGAAATGTCCCAAAGGACCACA
Found at i:9398204 original size:30 final size:30
Alignment explanation
Indices: 9398137--9398353 Score: 165
Period size: 30 Copynumber: 7.3 Consensus size: 30
9398127 TTAAAATCAC
**
9398137 ATCTTAACATTAAAAAATATATTTTATT-TT
1 ATCTTAAC-TTATTAAATATATTTTATTCTT
* *
9398167 -T-TTAACTTATTGAATTTATTTTATTCTT
1 ATCTTAACTTATTAAATATATTTTATTCTT
* * * **
9398195 ATCTTAACTTATAAAATATGTTTTATGCCA
1 ATCTTAACTTATTAAATATATTTTATTCTT
* * *
9398225 ACCTTAACTTA-AAAATATATTTTATTTTT
1 ATCTTAACTTATTAAATATATTTTATTCTT
** * *
9398254 ATCTTAACTTGCTACATATATTATATTCTT
1 ATCTTAACTTATTAAATATATTTTATTCTT
* * * * *
9398284 AACTTAAATTATTAAATATGTTATATTTTT
1 ATCTTAACTTATTAAATATATTTTATTCTT
* *
9398314 ACCTTAAATTATTAAATAT-TATTTATTCTT
1 ATCTTAACTTATTAAATATAT-TTTATTCTT
*
9398344 ATATTAACTT
1 ATCTTAACTT
9398354 GAAAATAGAT
Statistics
Matches: 146, Mismatches: 36, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
27 15 0.10
28 7 0.05
29 25 0.17
30 99 0.68
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (30 bp):
ATCTTAACTTATTAAATATATTTTATTCTT
Found at i:9398320 original size:89 final size:88
Alignment explanation
Indices: 9398139--9398309 Score: 213
Period size: 89 Copynumber: 1.9 Consensus size: 88
9398129 AAAATCACAT
** * * *
9398139 CTTAACATTAAAAAATATATTTTA-TTTT-TTTAACTTATTGAATTTATTTTATTCTTATCTTAA
1 CTTAAC-TT-AAAAATATATTTTATTTTTATTTAACTTGCTGAATATATTATATTCTTAACTTAA
* *
9398202 CTTATAAAATATGTTTTATGCCAAC
64 ATTATAAAATATGTTATATGCCAAC
9398227 CTTAACTTAAAAATATATTTTATTTTTATCTTAACTTGCT-ACATATATTATATTCTTAACTTAA
1 CTTAACTTAAAAATATATTTTATTTTTAT-TTAACTTGCTGA-ATATATTATATTCTTAACTTAA
*
9398291 ATTATTAAATATGTTATAT
64 ATTATAAAATATGTTATAT
9398310 TTTTACCTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
86 14 0.20
87 6 0.08
88 8 0.11
89 43 0.61
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (88 bp):
CTTAACTTAAAAATATATTTTATTTTTATTTAACTTGCTGAATATATTATATTCTTAACTTAAAT
TATAAAATATGTTATATGCCAAC
Found at i:9398380 original size:50 final size:48
Alignment explanation
Indices: 9398325--9398422 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 48
9398315 CCTTAAATTA
9398325 TTAAATAT-TATTTATTCTTATATTAACTTGA-AAATAGATATTTTATTTTT
1 TTAAATATAT-TTTATTCTTATATTAA-TTGAGAAAT--ATATTTTATTTTT
* *
9398375 TTAAATATATTTTATTCTTATTTTAATTTAGAAATATATTTTATTTTT
1 TTAAATATATTTTATTCTTATATTAATTGAGAAATATATTTTATTTTT
9398423 AGCTTAACTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
48 13 0.30
49 3 0.07
50 27 0.61
51 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (48 bp):
TTAAATATATTTTATTCTTATATTAATTGAGAAATATATTTTATTTTT
Found at i:9410739 original size:5 final size:5
Alignment explanation
Indices: 9409293--9410730 Score: 1984
Period size: 5 Copynumber: 299.8 Consensus size: 5
9409283 CATGTTAAGT
*
9409293 ATAAC ATAAC A-GAC AT-AC ATAAC ATAAC --AAC AT-A- ATAAC ATAAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC AT-AAC
* *
9409338 AAAAAC ATAAC ATAAC ATAAC ATAAC ATAAC AGAAC ATAAC -TAAC A-AAC
1 -ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
*
9409387 --AAC ATAAC ATAAC -TAAC AT-AC ATAAC AGAAC --AAC ATAAC A-AAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
*
9409430 ATAAC ATAAC AGAAC A-AAC ATAAC A-AAC ATAAC ATAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
*
9409478 ATAA- A-AAC ATAAC ATAAC A-AAC ATAAC ATACC ATAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
* *
9409525 ATAAC ATAAC ATAAC A-AAC ATAAC ATAAC ATAAC AGAAC AGAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
* *
9409574 ATAAC ATAAC A-AAC ATAAC AT-AC AGAAAC ATAAC ATAAC AGAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC A-TAAC ATAAC ATAAC ATAAC ATAAC
* *
9409623 AGAAC ATAAC AGAAC ATAAAAC ATAAC ATAAC ATAAC --AAC AT-AC ATAAC
1 ATAAC ATAAC ATAAC AT--AAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
* *
9409672 AT-A- ATAAC AGAAC ATAAC A-ACC ATAAC ATAAC A-AAC -TAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
* * * *
9409717 AGAAC --AAC A-AAC AT-AC ATAAC ATAAC AGAAC A-AAC AGAAC AGAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
* * * * *
9409762 ATAAC AGAAC --AAC ATAAC AGAAC AGAA- ATAAC ATAAC AGAAC CT-AC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
*
9409808 A-AAC AGAAC --AAC ATAAC --AAC AT-AC ATAAC -TAAC --AAC A-AAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9409848 A-AAC ATAAC ATAAC ATAAC AT-AC ATAAC ATAAC ATAAC --AAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9409894 ATAAC ATAAC ATAAC ATAAC AT-AC ATAAC ATAAC ATAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9409943 ATAACAC ATAAC ATAAC ATAAC ATAAC ATAAC AT-AC ATAAC ATAAC ATAAC
1 AT-A-AC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9409994 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC AT-AC ATAAC ATAAC AT-AC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9410042 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC AT-AAC ATAAC ATAAC
9410093 ATAAC AT-AC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9410142 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC AT-AC AT-AC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9410190 ATAAC ATAAC -TAAC ATAAC ATAAC ATAAC ATAAC -TAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9410238 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC AT-AC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9410287 ATAAC AT-A- ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9410335 A-AAC ATACAAC ATAAC ATAAC ATAAC ATAAC AT-AC ATAAC ATAAC ATAAAAC
1 ATAAC AT--AAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC AT--AAC
9410387 ATAAC -TAAC ATAACAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC AT-AC
1 ATAAC ATAAC AT-A-AC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9410437 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9410487 ATAAC ATAAC AT-AC ATAAC -TAAC ATAAC ATAAC ATAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
*
9410535 AGAAC AT-AC ATAAC AT--C ATAAC ATAAC ATAAC ATAAC ATAAC ATAAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC AT-AAC
9410583 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC AT-AC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9410632 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
9410682 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAA
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAA
9410731 TAAAATAAAT
Statistics
Matches: 1313, Mismatches: 35, Indels: 170
0.86 0.02 0.11
Matches are distributed among these distances:
3 41 0.03
4 182 0.14
5 1043 0.79
6 23 0.02
7 24 0.02
ACGTcount: A:0.60, C:0.21, G:0.01, T:0.18
Consensus pattern (5 bp):
ATAAC
Found at i:9415290 original size:2 final size:2
Alignment explanation
Indices: 9415283--9415315 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9415273 TGTCTTATCC
*
9415283 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9415316 TCACATGTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9418232 original size:160 final size:159
Alignment explanation
Indices: 9418046--9418377 Score: 598
Period size: 160 Copynumber: 2.1 Consensus size: 159
9418036 ACTCATCCCT
9418046 TTCATTTCTTTATTCCATTATTCCTTTATTTTTTTCTTTATACCCC-AAATCATAGCTTTCCTTT
1 TTCA-TTCTTTATTCCATTATTCCTTTA-TTTTTTCTTTATACCCCAAAATCATAGCTTTCCTTT
9418110 CTTGTTCACATACTCTTGTCTTATCACCTATACTCATCTCTATGTACCAATCTTCATGGCATCCT
64 CTTGTTCACATACTCTTGTCTTATCACCTATACTCATCTCTA-GTACCAATCTT-ATGGCATCCT
9418175 CATAACTTTGATAACCCATTTACTT-TACAAAA-
127 CATAACTTTGATAACCCATTTA-TTATACAAAAC
9418207 TTCATTCTTTATTCCATTATTCCTTTATTTTTTCTTTATACCCCAAAATCATAGCTTTCCTTTCT
1 TTCATTCTTTATTCCATTATTCCTTTATTTTTTCTTTATACCCCAAAATCATAGCTTTCCTTTCT
9418272 TGTTCACATACTCTTGTCTTATCACCTATACTCATCTCTAGTACCAATCTTATGGCATCCTCATA
66 TGTTCACATACTCTTGTCTTATCACCTATACTCATCTCTAGTACCAATCTTATGGCATCCTCATA
9418337 ACTTTGATAACCCATTTATTATACAAAAC
131 ACTTTGATAACCCATTTATTATACAAAAC
9418366 TTCATTCTTTAT
1 TTCATTCTTTAT
9418378 CATTCTTATA
Statistics
Matches: 168, Mismatches: 0, Indels: 8
0.95 0.00 0.05
Matches are distributed among these distances:
157 2 0.01
158 39 0.23
159 40 0.24
160 83 0.49
161 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.04, T:0.45
Consensus pattern (159 bp):
TTCATTCTTTATTCCATTATTCCTTTATTTTTTCTTTATACCCCAAAATCATAGCTTTCCTTTCT
TGTTCACATACTCTTGTCTTATCACCTATACTCATCTCTAGTACCAATCTTATGGCATCCTCATA
ACTTTGATAACCCATTTATTATACAAAAC
Found at i:9420360 original size:2 final size:2
Alignment explanation
Indices: 9420353--9420414 Score: 103
Period size: 2 Copynumber: 32.5 Consensus size: 2
9420343 TGTCTTATCC
9420353 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9420393 TA -A TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
9420415 CACATGTTCA
Statistics
Matches: 57, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 3 0.05
2 54 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9420480 original size:2 final size:2
Alignment explanation
Indices: 9420473--9420511 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9420463 TTCATCTTCC
9420473 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9420512 TTTTCCTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9421679 original size:64 final size:64
Alignment explanation
Indices: 9421605--9421765 Score: 184
Period size: 64 Copynumber: 2.5 Consensus size: 64
9421595 TTCCCTTGAA
* * *
9421605 GTGCATCGATGCACTACCCATGCATCGATACACCAATCACCTTCAATGTTT-TCA-TTTTAAGGG
1 GTGCATCGATGCACTTCCTATGCATCGATACACCAATCACATTCAATGTTTCT-ATTTTTAA-GG
9421668 G
64 G
* * ** *
9421669 GTGCATCGATGCA-TTCCTTATGCATCGATGCACTAATTGCATTCAATGTTTCTATTTTTAATGG
1 GTGCATCGATGCACTTCC-TATGCATCGATACACCAATCACATTCAATGTTTCTATTTTTAAGGG
* *
9421733 GTGCATCGATGCACTTCTTGTGCATCGATACAC
1 GTGCATCGATGCACTTCCTATGCATCGATACAC
9421766 ACTGAACAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
63 3 0.04
64 69 0.84
65 10 0.12
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (64 bp):
GTGCATCGATGCACTTCCTATGCATCGATACACCAATCACATTCAATGTTTCTATTTTTAAGGG
Found at i:9422859 original size:7 final size:7
Alignment explanation
Indices: 9422831--9423124 Score: 224
Period size: 7 Copynumber: 42.6 Consensus size: 7
9422821 ATTCATAATC
9422831 AAGAACAA
1 AAGAA-AA
9422839 AA-AAAA
1 AAGAAAA
*
9422845 GAGAAAA
1 AAGAAAA
9422852 ATAG-AAA
1 A-AGAAAA
9422859 AAGAAAA
1 AAGAAAA
9422866 AAGAAAGAA
1 AAG-AA-AA
9422875 AAGAAAA
1 AAGAAAA
9422882 AAGAAAA
1 AAGAAAA
*
9422889 GAGAAAA
1 AAGAAAA
*
9422896 GAGAAAA
1 AAGAAAA
*
9422903 GAGAAAA
1 AAGAAAA
9422910 AAGAGAGAA
1 AAGA-A-AA
*
9422919 AAGAGAA
1 AAGAAAA
*
9422926 AAGAGAA
1 AAGAAAA
*
9422933 AAGAGAA
1 AAGAAAA
* *
9422940 AA-CACA
1 AAGAAAA
*
9422946 CAGAAAA
1 AAGAAAA
*
9422953 TAG-AAA
1 AAGAAAA
*
9422959 CA-AAAA
1 AAGAAAA
*
9422965 CAGAAAA
1 AAGAAAA
9422972 AA-AAAA
1 AAGAAAA
9422978 AA-AAAA
1 AAGAAAA
9422984 AA-AAAA
1 AAGAAAA
9422990 AA-AAAA
1 AAGAAAA
9422996 AA-AAAA
1 AAGAAAA
9423002 AAGAAAAAA
1 AAG--AAAA
*
9423011 AAAAAAA
1 AAGAAAA
9423018 AAGAAAAA
1 AAG-AAAA
9423026 AAGAAAA
1 AAGAAAA
9423033 AAGAAAA
1 AAGAAAA
9423040 AAGAAAA
1 AAGAAAA
9423047 AAGAAAA
1 AAGAAAA
9423054 AAGAAAA
1 AAGAAAA
9423061 AA-AAAA
1 AAGAAAA
9423067 AA-AAAA
1 AAGAAAA
9423073 AA-AAAA
1 AAGAAAA
9423079 AA-AAAA
1 AAGAAAA
9423085 AA-AAAA
1 AAGAAAA
*
9423091 GAGAAATAA
1 AAG-AA-AA
9423100 AAGAAAGA
1 AAGAAA-A
9423108 AA-AAAA
1 AAGAAAA
*
9423114 TAGAAAA
1 AAGAAAA
9423121 AAGA
1 AAGA
9423125 GAATAAATCA
Statistics
Matches: 247, Mismatches: 20, Indels: 39
0.81 0.07 0.13
Matches are distributed among these distances:
6 77 0.31
7 126 0.51
8 23 0.09
9 21 0.09
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.01
Consensus pattern (7 bp):
AAGAAAA
Found at i:9422877 original size:32 final size:31
Alignment explanation
Indices: 9422841--9423120 Score: 180
Period size: 31 Copynumber: 9.1 Consensus size: 31
9422831 AAGAACAAAA
9422841 AAAAGAGAAAAATAGAAAAAGAAAAAAGAAAG
1 AAAAGAGAAAAA-AGAAAAAGAAAAAAGAAAG
*
9422873 -AAA-AGAAAAAAG-AAAAGAGAAAAG--AG
1 AAAAGAGAAAAAAGAAAAAGAAAAAAGAAAG
*
9422899 AAAAGAGAAAAAAGAGAGAAAAGAGAAAAG--AG
1 AAAAGAG-AAAAA-AGA-AAAAGAAAAAAGAAAG
9422931 AAAAGAGAAAACACACAGAAAATAGAAACAAA-AACAG
1 AAAAGAG-AAA-A-A-AGAAAA-AGAAA-AAAGAA-AG
* * * * *
9422968 AAAA-AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAGAGAAAAAAGAAAAAGAAAAAAGAAAG
* * *
9422998 AAAAAAGAAAAAA-AAAAAAAAAGAAAAAAAG
1 AAAAGAGAAAAAAGAAAAAGAAA-AAAGAAAG
*
9423029 AAAAAAGAAAAAAGAAAAAAGAAAAAAGAAA-
1 AAAAGAGAAAAAAG-AAAAAGAAAAAAGAAAG
* *
9423060 AAAA-A-AAAAAA-AAAAA-AAAAAAAAAAA
1 AAAAGAGAAAAAAGAAAAAGAAAAAAGAAAG
* *
9423087 AAAAGAGAAATAAA-AGAAAGAAAAAA-ATAG
1 AAAAGAGAAA-AAAGAAAAAGAAAAAAGAAAG
9423117 AAAA
1 AAAA
9423121 AAGAGAATAA
Statistics
Matches: 210, Mismatches: 15, Indels: 48
0.77 0.05 0.18
Matches are distributed among these distances:
26 11 0.05
27 12 0.06
28 14 0.07
29 16 0.08
30 40 0.19
31 46 0.22
32 36 0.17
33 13 0.06
34 9 0.04
35 6 0.03
36 1 0.00
37 6 0.03
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.01
Consensus pattern (31 bp):
AAAAGAGAAAAAAGAAAAAGAAAAAAGAAAG
Found at i:9422894 original size:44 final size:43
Alignment explanation
Indices: 9422831--9423124 Score: 251
Period size: 41 Copynumber: 6.9 Consensus size: 43
9422821 ATTCATAATC
*
9422831 AAGAACAAAAAAAAGAGAAAAATAGAAAAAGAAAAAAGAAAGAA
1 AAGAA-AAAAAAAAGAGAAAAAAAGAAAAAGAAAAAAGAAAGAA
* *
9422875 AAGAAAAAAGAAAAGAG-AAAAGAGAAAAGAGAAAAAAGAGAGAA
1 AAGAAAAAA-AAAAGAGAAAAAAAGAAAA-AGAAAAAAGAAAGAA
9422919 AAGAGAAAAGAGAAAAGAGAAAACACACAGAAAATAGAAACAAA-AACAGAA
1 AAGA-AAAA-A-AAAAGAGAAAA-A-A-AGAAAA-AGAAA-AAAGAA-AGAA
9422970 AA-AAAAAAAAAA-A-AAAAAAA-AAAAA-AAAAAA-AAAGAA
1 AAGAAAAAAAAAAGAGAAAAAAAGAAAAAGAAAAAAGAAAGAA
9423007 AA-AAAAAAAAAA-AGAAAAAAAGAAAAAAGAAAAAAG-AA-AA
1 AAGAAAAAAAAAAGAGAAAAAAAG-AAAAAGAAAAAAGAAAGAA
* * * *
9423047 AAGAAAAAAGAAAA-A-AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAGAAAAAA-AAAAGAGAAAAAAAGAAAAAGAAAAAAGAAAGAA
* * * *
9423089 AAGAGAAATAAAAGA-AAGAAAA-AAATAGAAAAAAGA
1 AAGAAAAAAAAAAGAGAAAAAAAGAAAAAGAAAAAAGA
9423125 GAATAAATCA
Statistics
Matches: 216, Mismatches: 14, Indels: 43
0.79 0.05 0.16
Matches are distributed among these distances:
37 17 0.08
38 12 0.06
39 3 0.01
40 21 0.10
41 42 0.19
42 22 0.10
43 15 0.07
44 31 0.14
45 8 0.04
46 10 0.05
47 7 0.03
48 2 0.01
49 4 0.02
50 13 0.06
51 9 0.04
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.01
Consensus pattern (43 bp):
AAGAAAAAAAAAAGAGAAAAAAAGAAAAAGAAAAAAGAAAGAA
Done.