Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008051.1 Hibiscus syriacus cultivar Beakdansim tig00110546_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: 579609
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:1058 original size:83 final size:83
Alignment explanation
Indices: 914--1264 Score: 636
Period size: 83 Copynumber: 4.3 Consensus size: 83
904 CTTATTTCTA
* *
914 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
979 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
997 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCATATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1062 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
1080 CTATTAGCAAATCCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1145 GAACACTTCCA-AAGATG
66 GAACACTTCCAGAAGATG
*
1162 CTATTA-CAAATCCATCTTCCAAATTC-ATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1225 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
1243 CTATTAGCAAATTCATCTTCCA
1 CTATTAGCAAATTCATCTTCCA
1265 TTTAATGTTT
Statistics
Matches: 260, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
80 48 0.18
81 32 0.12
82 26 0.10
83 154 0.59
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (83 bp):
CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:1262 original size:163 final size:166
Alignment explanation
Indices: 914--1264 Score: 636
Period size: 163 Copynumber: 2.1 Consensus size: 166
904 CTTATTTCTA
* *
914 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
979 GAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
66 GAACACTTCCAGAAGATGCTATTAGCAAATCCATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
*
1044 CATATCAGATAACTCAAAGAACACTTCCAGAAGATG
131 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
*
1080 CTATTAGCAAATCCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1145 GAACACTTCCA-AAGATGCTATTA-CAAATCCATCTTCCAAATTC-ATGATTGGTTCTGCCAAAC
66 GAACACTTCCAGAAGATGCTATTAGCAAATCCATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
1207 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
131 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
1243 CTATTAGCAAATTCATCTTCCA
1 CTATTAGCAAATTCATCTTCCA
1265 TTTAATGTTT
Statistics
Matches: 179, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
163 75 0.42
164 19 0.11
165 12 0.07
166 73 0.41
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (166 bp):
CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATTAGCAAATCCATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
Found at i:2053 original size:16 final size:16
Alignment explanation
Indices: 2032--2068 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
2022 GAATTTTCGA
2032 AAATAAATTGAA-TCTG
1 AAATAAATTGAACT-TG
2048 AAATAAATTGAACTTG
1 AAATAAATTGAACTTG
2064 AAATA
1 AAATA
2069 GATAGAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (16 bp):
AAATAAATTGAACTTG
Found at i:2401 original size:9 final size:9
Alignment explanation
Indices: 2387--2431 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
2377 TTGACCCCCC
2387 CTTTTTTTT
1 CTTTTTTTT
2396 CTTTTTTCTT
1 CTTTTTT-TT
*
2406 -TTTTTTCT
1 CTTTTTTTT
2414 CTTTTTTTT
1 CTTTTTTTT
2423 CTTTTTTTT
1 CTTTTTTTT
2432 TCTTCAAGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 1 0.03
9 29 0.91
10 2 0.06
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:2402 original size:11 final size:11
Alignment explanation
Indices: 2389--2432 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
2379 GACCCCCCCT
*
2389 TTTTTTTCTTTT
1 TTTTTTT-TTTC
2401 TTCTTTTTTTTC
1 TT-TTTTTTTTC
*
2413 TCTTTTTTTTC
1 TTTTTTTTTTC
2424 TTTTTTTTT
1 TTTTTTTTT
2433 CTTCAAGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 17 0.61
12 6 0.21
13 5 0.18
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:13102 original size:24 final size:23
Alignment explanation
Indices: 13075--13145 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
13065 ATGAAATATT
13075 AATAATATATATAAATACTATAAA
1 AATAATATATATAAATA-TATAAA
*
13099 AATAATATGTAT--ATATATAAA
1 AATAATATATATAAATATATAAA
* *
13120 AAAAATTATAAATTAAATATATAAA
1 AATAA-TATATA-TAAATATATAAA
13145 A
1 A
13146 TTTTAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.26
22 7 0.18
23 1 0.03
24 11 0.28
25 10 0.26
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (23 bp):
AATAATATATATAAATATATAAA
Found at i:15017 original size:16 final size:16
Alignment explanation
Indices: 14996--15038 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
14986 GGAAACCATT
*
14996 GAGGCGGCTGGAGGCA
1 GAGGCGGCTAGAGGCA
15012 GAGGCGGCTAGAGGCA
1 GAGGCGGCTAGAGGCA
15028 GAGGCGGCTAG
1 GAGGCGGCTAG
15039 GGTTAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.53, T:0.07
Consensus pattern (16 bp):
GAGGCGGCTAGAGGCA
Found at i:15129 original size:2 final size:2
Alignment explanation
Indices: 15124--15150 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15114 TTTTTTTTAT
15124 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15151 TTAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15161 original size:6 final size:6
Alignment explanation
Indices: 15152--15232 Score: 99
Period size: 6 Copynumber: 13.5 Consensus size: 6
15142 TATATATATT
* * * *
15152 TAATAA TAATAA TAATAT TTATAA TAATAA TAATAA TTATAA TTATAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * *
15200 TAATTA TAATAA TTATAA TTATAA TAATAA TAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAA
15233 ATAAATTAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
TAATAA
Found at i:15166 original size:9 final size:9
Alignment explanation
Indices: 15152--15232 Score: 99
Period size: 9 Copynumber: 9.0 Consensus size: 9
15142 TATATATATT
15152 TAATAATAA
1 TAATAATAA
*
15161 TAATAATAT
1 TAATAATAA
*
15170 TTATAATAA
1 TAATAATAA
15179 TAATAATAA
1 TAATAATAA
* *
15188 TTATAATTA
1 TAATAATAA
*
15197 TAATAATTA
1 TAATAATAA
*
15206 TAATAATTA
1 TAATAATAA
*
15215 TAATTATAA
1 TAATAATAA
15224 TAATAATAA
1 TAATAATAA
15233 ATAAATTAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAATAATAA
Found at i:15184 original size:24 final size:24
Alignment explanation
Indices: 15152--15232 Score: 135
Period size: 24 Copynumber: 3.4 Consensus size: 24
15142 TATATATATT
* *
15152 TAATAATAATAATAATATTTATAA
1 TAATAATAATAATTATAATTATAA
15176 TAATAATAATAATTATAATTATAA
1 TAATAATAATAATTATAATTATAA
*
15200 TAATTATAATAATTATAATTATAA
1 TAATAATAATAATTATAATTATAA
15224 TAATAATAA
1 TAATAATAA
15233 ATAAATTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TAATAATAATAATTATAATTATAA
Found at i:15242 original size:18 final size:17
Alignment explanation
Indices: 15151--15243 Score: 84
Period size: 18 Copynumber: 5.4 Consensus size: 17
15141 ATATATATAT
15151 TTAATAATAATAATAATA
1 TTAATAATAATAATAA-A
*
15169 TTTATAATAATAATAATAA
1 TTAATAATAATAAT-A-AA
*
15188 TT-ATAATTATAAT-AA
1 TTAATAATAATAATAAA
* *
15203 TT-ATAATAATTATAAT
1 TTAATAATAATAATAAA
15219 TATAATAATAATAAATAAA
1 T-TAATAATAAT-AATAAA
15238 TTAATA
1 TTAATA
15244 TGGGTAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
15 13 0.21
16 2 0.03
17 1 0.02
18 36 0.58
19 9 0.15
20 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAATAATAATAATAAA
Found at i:15242 original size:24 final size:24
Alignment explanation
Indices: 15143--15242 Score: 120
Period size: 24 Copynumber: 4.3 Consensus size: 24
15133 ATATATATAT
15143 ATATATATT-TAATAATAATAAT-A
1 ATATA-ATTATAATAATAATAATAA
15166 ATAT--TTATAATAATAATAATAA
1 ATATAATTATAATAATAATAATAA
* *
15188 TTATAATTATAATAATTATAATAA
1 ATATAATTATAATAATAATAATAA
*
15212 TTATAATTATAATAATAATAAATAA
1 ATATAATTATAATAATAAT-AATAA
15237 AT-TAAT
1 ATATAAT
15243 ATGGGTAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
20 2 0.03
21 13 0.19
22 4 0.06
23 4 0.06
24 39 0.57
25 6 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATAATTATAATAATAATAATAA
Found at i:15243 original size:15 final size:15
Alignment explanation
Indices: 15152--15232 Score: 108
Period size: 15 Copynumber: 5.4 Consensus size: 15
15142 TATATATATT
*
15152 TAATAATAATAATAA
1 TAATAATTATAATAA
* * *
15167 TATTTATAATAATAA
1 TAATAATTATAATAA
*
15182 TAATAATTATAATTA
1 TAATAATTATAATAA
15197 TAATAATTATAATAA
1 TAATAATTATAATAA
*
15212 TTATAATTATAATAA
1 TAATAATTATAATAA
15227 TAATAA
1 TAATAA
15233 ATAAATTAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 57 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATAATTATAATAA
Found at i:25220 original size:95 final size:95
Alignment explanation
Indices: 25057--25245 Score: 378
Period size: 95 Copynumber: 2.0 Consensus size: 95
25047 AAACATGACA
25057 ATTTTCCTCAATAATGAGGCTAATTCAAAGGCAGCGGGTAAGAAGTTTCTATCTCTTTGGGGTGG
1 ATTTTCCTCAATAATGAGGCTAATTCAAAGGCAGCGGGTAAGAAGTTTCTATCTCTTTGGGGTGG
25122 TCATATATTTAAAATTAATTTATTAAGTAC
66 TCATATATTTAAAATTAATTTATTAAGTAC
25152 ATTTTCCTCAATAATGAGGCTAATTCAAAGGCAGCGGGTAAGAAGTTTCTATCTCTTTGGGGTGG
1 ATTTTCCTCAATAATGAGGCTAATTCAAAGGCAGCGGGTAAGAAGTTTCTATCTCTTTGGGGTGG
25217 TCATATATTTAAAATTAATTTATTAAGTA
66 TCATATATTTAAAATTAATTTATTAAGTA
25246 TTATTTTTTA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (95 bp):
ATTTTCCTCAATAATGAGGCTAATTCAAAGGCAGCGGGTAAGAAGTTTCTATCTCTTTGGGGTGG
TCATATATTTAAAATTAATTTATTAAGTAC
Found at i:31949 original size:2 final size:2
Alignment explanation
Indices: 31942--31970 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
31932 TCTAATCTTC
31942 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31971 GGTAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:41838 original size:17 final size:17
Alignment explanation
Indices: 41816--41848 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
41806 GATTAAGCGT
41816 TGAATGATTCGATGGCC
1 TGAATGATTCGATGGCC
41833 TGAATGATTCGATGGC
1 TGAATGATTCGATGGC
41849 TTTGTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (17 bp):
TGAATGATTCGATGGCC
Found at i:53444 original size:29 final size:29
Alignment explanation
Indices: 53401--53483 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
53391 CTCACCTAAC
53401 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
53431 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
53460 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
53484 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:56928 original size:24 final size:24
Alignment explanation
Indices: 56873--56928 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
56863 TTGTTGTAAT
*
56873 TCCAGCCTCGTCCACGACCTCGACT
1 TCCA-CCTCGTCCACGACCTCGACC
* * *
56898 TCCACCTCGTCCATGGCCTCTACC
1 TCCACCTCGTCCACGACCTCGACC
*
56922 TCTACCT
1 TCCACCT
56929 TGGCCACGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.14, C:0.48, G:0.12, T:0.25
Consensus pattern (24 bp):
TCCACCTCGTCCACGACCTCGACC
Found at i:58205 original size:29 final size:29
Alignment explanation
Indices: 58162--58244 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
58152 CTCACCTAAC
58162 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
58192 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
58221 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
58245 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:62696 original size:18 final size:20
Alignment explanation
Indices: 62673--62735 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
62663 CCAATAATCC
62673 TATTCTC-C-GATAATCTTT
1 TATTCTCACAGATAATCTTT
*
62691 TATTCTCACTGATAATCTTT
1 TATTCTCACAGATAATCTTT
*
62711 TATTCTCACAGATAATCTTA
1 TATTCTCACAGATAATCTTT
62731 TATTC
1 TATTC
62736 CGTGAACTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.17
19 1 0.02
20 33 0.80
ACGTcount: A:0.27, C:0.21, G:0.05, T:0.48
Consensus pattern (20 bp):
TATTCTCACAGATAATCTTT
Found at i:74436 original size:26 final size:26
Alignment explanation
Indices: 74407--74458 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
74397 AGTATTTCAA
*
74407 AATTTTTGT-TTTTTAAATATAATTTT
1 AATTTTT-TATTTTTAAATAAAATTTT
74433 AATTTTTTATTTTTAAATAAAATTTT
1 AATTTTTTATTTTTAAATAAAATTTT
74459 TAAAACTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
AATTTTTTATTTTTAAATAAAATTTT
Found at i:75128 original size:31 final size:31
Alignment explanation
Indices: 75088--75146 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
75078 AAGATTTGGC
*
75088 AAAGGACAAAGGGCGTAATATTAGGTTAAGA
1 AAAGCACAAAGGGCGTAATATTAGGTTAAGA
75119 AAAGCACAAAGGGCGTAATATTAGGTTA
1 AAAGCACAAAGGGCGTAATATTAGGTTA
75147 TCACTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.27, T:0.20
Consensus pattern (31 bp):
AAAGCACAAAGGGCGTAATATTAGGTTAAGA
Found at i:76851 original size:15 final size:17
Alignment explanation
Indices: 76825--76859 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
76815 GGTGTCCTTG
76825 TTTTATTGTTATTG-TT
1 TTTTATTGTTATTGATT
76841 TTTTATT-TTATTGATT
1 TTTTATTGTTATTGATT
76857 TTT
1 TTT
76860 GGTTTAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (17 bp):
TTTTATTGTTATTGATT
Found at i:77779 original size:12 final size:12
Alignment explanation
Indices: 77751--77787 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
77741 AAGTTACTTT
*
77751 GGAGATGTTAATA
1 GGAGATGTT-TTA
77764 GGAGATGTTTTA
1 GGAGATGTTTTA
77776 GGAGATGTTTTA
1 GGAGATGTTTTA
77788 CCGATCTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.30, C:0.00, G:0.32, T:0.38
Consensus pattern (12 bp):
GGAGATGTTTTA
Found at i:83552 original size:21 final size:21
Alignment explanation
Indices: 83528--83571 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
83518 CCTGCCGCCG
* *
83528 CCACCCCCACCTCCTCCTCCT
1 CCACCACCACCTCCTCCACCT
*
83549 CCACCACCACCTCTTCCACCT
1 CCACCACCACCTCCTCCACCT
83570 CC
1 CC
83572 GTTTCCGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.68, G:0.00, T:0.18
Consensus pattern (21 bp):
CCACCACCACCTCCTCCACCT
Found at i:83696 original size:18 final size:18
Alignment explanation
Indices: 83675--83720 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
83665 TGATCCAGAG
*
83675 CCACTTCCTCCTCCTCCT
1 CCACTTCCTCCTCCACCT
* * *
83693 CCACCTCCACCTCCACTT
1 CCACTTCCTCCTCCACCT
83711 CCACTTCCTC
1 CCACTTCCTC
83721 TACCAGAACC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.11, C:0.61, G:0.00, T:0.28
Consensus pattern (18 bp):
CCACTTCCTCCTCCACCT
Found at i:89467 original size:45 final size:47
Alignment explanation
Indices: 89408--89496 Score: 137
Period size: 45 Copynumber: 1.9 Consensus size: 47
89398 TCGAATAAAT
* *
89408 GCATGCGAACTAGATATCATGCGGTT-AGGTTTATTTTT-TGAACAA
1 GCATGCAAACTAGATATCATGCGGTTAAGATTTATTTTTGTGAACAA
*
89453 GCATGCAAATTAGATATCATGCGGTTAAGATTTATTTTTGTGAA
1 GCATGCAAACTAGATATCATGCGGTTAAGATTTATTTTTGTGAA
89497 TAACAAAGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 24 0.62
46 11 0.28
47 4 0.10
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.37
Consensus pattern (47 bp):
GCATGCAAACTAGATATCATGCGGTTAAGATTTATTTTTGTGAACAA
Found at i:99186 original size:16 final size:16
Alignment explanation
Indices: 99151--99280 Score: 64
Period size: 16 Copynumber: 8.1 Consensus size: 16
99141 AAGAAGAAAT
99151 AAAA-GAGAAAAAATGAA
1 AAAATGAGAAAAAA-G-A
99168 AAAATGAGAAAAAAGA
1 AAAATGAGAAAAAAGA
99184 AAAATGATGGAAAAAA-A
1 AAAATGA--GAAAAAAGA
99201 CGAAAA-G-GAAAAAAG-
1 --AAAATGAGAAAAAAGA
*
99216 --AA-GA-AAAAATGGA
1 AAAATGAGAAAAA-AGA
**
99229 AAAGGGAAGAAAAAATGA
1 AAAATG-AGAAAAAA-GA
99247 AAAATGA-AAAAAGAGA
1 AAAATGAGAAAAA-AGA
*
99263 AAAATGAAAAAAAAGA
1 AAAATGAGAAAAAAGA
99279 AA
1 AA
99281 TAAAAGGAGG
Statistics
Matches: 91, Mismatches: 5, Indels: 35
0.69 0.04 0.27
Matches are distributed among these distances:
11 8 0.09
12 1 0.01
15 8 0.09
16 28 0.31
17 14 0.15
18 28 0.31
19 4 0.04
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.06
Consensus pattern (16 bp):
AAAATGAGAAAAAAGA
Found at i:99231 original size:19 final size:19
Alignment explanation
Indices: 99165--99250 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 19
99155 GAGAAAAAAT
99165 GAAAAAATGAGAAAAAAGAA
1 GAAAAAATG-GAAAAAAGAA
** *
99185 -AAATGATGGAAAAAA-AC
1 GAAAAAATGGAAAAAAGAA
99202 G--AAAA-GGAAAAAAGAA
1 GAAAAAATGGAAAAAAGAA
**
99218 GAAAAAATGGAAAAGGGAA
1 GAAAAAATGGAAAAAAGAA
99237 GAAAAAAT-GAAAAA
1 GAAAAAATGGAAAAA
99251 TGAAAAAAGA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
15 8 0.15
16 4 0.08
17 1 0.02
18 16 0.31
19 23 0.44
ACGTcount: A:0.71, C:0.01, G:0.22, T:0.06
Consensus pattern (19 bp):
GAAAAAATGGAAAAAAGAA
Found at i:99275 original size:25 final size:25
Alignment explanation
Indices: 99151--99280 Score: 69
Period size: 25 Copynumber: 5.0 Consensus size: 25
99141 AAGAAGAAAT
99151 AAAAGAGAAAAAATG-AAAAAATGAGA
1 AAAAGAG-AAAAATGAAAAAAATGA-A
*
99177 AAAA-AGAAAAATGATGGAAAAAA--ACG
1 AAAAGAGAAAAATGA---AAAAAATGA-A
*
99203 AAAAG-GAAAAAAGAAGAAAAAATGGAA
1 AAAAGAGAAAAATG-A-AAAAAAT-GAA
99230 AAGGGAAGA-AAAAATG--AAAAATGAA
1 AA---AAGAGAAAAATGAAAAAAATGAA
*
99255 AAAAGAGAAAAATGAAAAAAAAGAA
1 AAAAGAGAAAAATGAAAAAAATGAA
99280 A
1 A
99281 TAAAAGGAGG
Statistics
Matches: 82, Mismatches: 6, Indels: 33
0.68 0.05 0.27
Matches are distributed among these distances:
22 4 0.05
23 7 0.09
24 7 0.09
25 23 0.28
26 22 0.27
27 3 0.04
28 7 0.09
30 9 0.11
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.06
Consensus pattern (25 bp):
AAAAGAGAAAAATGAAAAAAATGAA
Found at i:99276 original size:18 final size:18
Alignment explanation
Indices: 99146--99278 Score: 59
Period size: 18 Copynumber: 7.6 Consensus size: 18
99136 GCTTGAAGAA
*
99146 GAAATAAAAGAGAAAAAAT
1 GAAAAAAAAGAG-AAAAAT
* *
99165 G-AAAAAATGAGAAAAAA
1 GAAAAAAAAGAGAAAAAT
* *
99182 GAAAAATGATG-GAAAAA-
1 GAAAAA-AAAGAGAAAAAT
** *
99199 -AACGAAAAG-GAAAAAA
1 GAAAAAAAAGAGAAAAAT
**
99215 GAAGAAAAAATG-GAAAAGG
1 GAA-AAAAAA-GAGAAAAAT
*
99234 GAAGAAAAAA-TGAAAAAT
1 GAA-AAAAAAGAGAAAAAT
99252 G--AAAAAAGAGAAAAAT
1 GAAAAAAAAGAGAAAAAT
99268 GAAAAAAAAGA
1 GAAAAAAAAGA
99279 AATAAAAGGA
Statistics
Matches: 89, Mismatches: 15, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
15 14 0.16
16 11 0.12
17 8 0.09
18 36 0.40
19 20 0.22
ACGTcount: A:0.72, C:0.01, G:0.20, T:0.07
Consensus pattern (18 bp):
GAAAAAAAAGAGAAAAAT
Found at i:100846 original size:55 final size:51
Alignment explanation
Indices: 100601--100904 Score: 482
Period size: 51 Copynumber: 5.9 Consensus size: 51
100591 AAACTCGTTT
* *
100601 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGTGGATAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
*
100652 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
100703 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
*
100754 GTTGAAGATTGAGTCATATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* *
100805 GTTGAAGATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTT
1 GTTGAAGA----TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* * * *
100860 ATTGAAGATCGAGTCTTATACTCTCTGAAAGAATAGGGAGCGGAC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
100905 CCGTTTTATG
Statistics
Matches: 237, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
51 190 0.80
55 47 0.20
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (51 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
Found at i:100874 original size:106 final size:105
Alignment explanation
Indices: 100609--101072 Score: 519
Period size: 106 Copynumber: 4.4 Consensus size: 105
100599 TTGTTGAAGA
* * * * *
100609 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGTGGATAAGTTCGTTGAAGATTGAGTCCTATACT
1 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTCATTGAAGATCGAGT-CTATACT
100674 CTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA----
65 CTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGT
* * *
100711 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCATATACT
1 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTCATTGAAGATCGAGTC-TATACT
*
100776 CTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGT
65 CTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGT
*
100817 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATCGAGTCTTATACT
1 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTCATTGAAGATCGAGTC-TATACT
* ** *
100882 CTCTGAAAGAATAGGGAGCGGACCCGTT-TTATGAAGATTGT
65 CTCTGAATGAATAGGGAGCGGACAAGTTCGT-TGAAGATTGT
* * ** *
100923 TTGAGTTCTATACTCCCTGAACGG-ATAGGGAGCAAACCCGTTC-TATGAAGATTGTTCGAGTTC
1 TTGAGTCCTATACTCTCTGAA-GGAATAGGGAGCGGACACGTTCAT-TGAAGA----TCGAG-TC
* ** **
100986 TATACTCCCTGAATGAATAGGGAGCGGACCCGTTTATTGAAGATTGT
59 TATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGT
* * * * *
101033 TCGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACACG
1 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACG
101073 CCATTTGAAG
Statistics
Matches: 320, Mismatches: 27, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
101 1 0.00
102 97 0.30
105 2 0.01
106 135 0.42
107 2 0.01
109 1 0.00
110 79 0.25
111 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (105 bp):
TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTCATTGAAGATCGAGTCTATACTC
TCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGT
Found at i:100910 original size:51 final size:51
Alignment explanation
Indices: 100596--101072 Score: 474
Period size: 51 Copynumber: 9.0 Consensus size: 51
100586 GAAGCAAACT
* *
100596 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGTGGATA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * *
100647 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
100698 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * *
100749 AGTTCGTTGAAGATTGAGTCATATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
100800 AGTTCGTTGAAGATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGA----TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * * *
100855 CGTTTATTGAAGATCGAGTCTTATACTCTCTGAAAGAATAGGGAGCGGACC
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * ** *
100906 CGTTT-TATGAAGATTGTTTGAGTTCTATACTCCCTGAACGG-ATAGGGAGCAAACC
1 CGTTTGT-TGAAGA----TTGAGTCCTATACTCTCTGAA-GGAATAGGGAGCGGACA
* * * * *
100961 CGTTCT-ATGAAGATTGTTCGAGTTCTATACTCCCTGAATGAATAGGGAGCGGACC
1 CGTT-TGTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * * *
101016 CGTTTATTGAAGATTGTTCGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACA
1 CGTTTGTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
101071 CG
1 CG
101073 CCATTTGAAG
Statistics
Matches: 379, Mismatches: 33, Indels: 24
0.87 0.08 0.06
Matches are distributed among these distances:
50 1 0.00
51 204 0.54
54 5 0.01
55 167 0.44
56 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (51 bp):
CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
Found at i:100955 original size:55 final size:54
Alignment explanation
Indices: 100662--101065 Score: 315
Period size: 55 Copynumber: 7.6 Consensus size: 54
100652 GTTGAAGATT
* * ** *
100662 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGT-TGAAGA---TT-
1 GAGTCTTATACTCCCTGAA-GAATAGGGAGCGGACCCGTT-TTATGAAGATTGTTC
* * ** *
100713 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGT-TGAAGA---TT-
1 GAGTCTTATACTCCCTGAA-GAATAGGGAGCGGACCCGTT-TTATGAAGATTGTTC
* * ** * *
100764 GAGTCATATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGT-TGAAGATTGTTT
1 GAGTCTTATACTCCCTGAA-GAATAGGGAGCGGACCCGTT-TTATGAAGATTGTTC
* * *
100819 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACG-TTTATTGAAGA----TC
1 GAGTCTTATACTCCCTGAA-GAATAGGGAGCGGACCCGTTTTA-TGAAGATTGTTC
* *
100870 GAGTCTTATACTCTCTGAAAGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTT
1 GAGTCTTATACTCCCTG-AAGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
* ** *
100925 GAGT-TCTATACTCCCTGAACGGATAGGGAGCAAACCCGTTCTATGAAGATTGTTC
1 GAGTCT-TATACTCCCTGAA-GAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
100980 GAGT-TCTATACTCCCTGAATGAATAGGGAGCGGACCCG-TTTATTGAAGATTGTTC
1 GAGTCT-TATACTCCCTGAA-GAATAGGGAGCGGACCCGTTTTA-TGAAGATTGTTC
101035 GAGTCTTATACTCCCTGAATGAATAGGGAGC
1 GAGTCTTATACTCCCTGAA-GAATAGGGAGC
101066 AGACACGCCA
Statistics
Matches: 317, Mismatches: 20, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
51 138 0.44
52 6 0.02
53 1 0.00
54 9 0.03
55 162 0.51
56 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (54 bp):
GAGTCTTATACTCCCTGAAGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
Found at i:103628 original size:23 final size:23
Alignment explanation
Indices: 103568--103669 Score: 91
Period size: 23 Copynumber: 4.4 Consensus size: 23
103558 AAATATATAT
**
103568 ATATAAACAAACACTAAATG-A-
1 ATATAAACAAACGTTAAATGAAC
* *
103589 ATATAAAAAAGACCGTTAATTGAAC
1 ATATAAACAA-A-CGTTAAATGAAC
*
103614 ATATAAACAAACGTTAAACGAAC
1 ATATAAACAAACGTTAAATGAAC
* * *
103637 ATATATACAAATGTTAAATGTAC
1 ATATAAACAAACGTTAAATGAAC
*
103660 GTATAAACAA
1 ATATAAACAA
103670 GTACTAAATG
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
21 9 0.14
22 1 0.02
23 43 0.67
24 2 0.03
25 9 0.14
ACGTcount: A:0.55, C:0.13, G:0.09, T:0.24
Consensus pattern (23 bp):
ATATAAACAAACGTTAAATGAAC
Found at i:108082 original size:8 final size:8
Alignment explanation
Indices: 108069--108108 Score: 71
Period size: 8 Copynumber: 4.9 Consensus size: 8
108059 ATTTTCATAC
108069 TAATTTAT
1 TAATTTAT
108077 TAATTTAT
1 TAATTTAT
108085 TAATTTAT
1 TAATTTAT
108093 TAATTTAT
1 TAATTTAT
108101 TATATTTA
1 TA-ATTTA
108109 AAGGGTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 26 0.84
9 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TAATTTAT
Found at i:112227 original size:2 final size:2
Alignment explanation
Indices: 112220--112249 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
112210 TAATTATCTC
112220 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112250 GCTGTCGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:114222 original size:36 final size:35
Alignment explanation
Indices: 114133--114574 Score: 128
Period size: 37 Copynumber: 12.4 Consensus size: 35
114123 TAATAATATA
114133 AAAAATATTTTCCCAAAACTTATATAATATATACTTTT
1 AAAAATATTTT--CAAAA-TTATATAATATATACTTTT
*
114171 AAAAATATTTT-AAAATTATATATTATATACTTTCT
1 AAAAATATTTTCAAAATTATATAATATATACTTT-T
* * * *
114206 ACAAATGTTTTCAAAATTATATAGT-T-T--TTTAA
1 AAAAATATTTTCAAAATTATATAATATATACTTT-T
* * * *
114238 AAAAAAATTTT-AAAACTATATATTATAT-GTTTT
1 AAAAATATTTTCAAAATTATATAATATATACTTTT
* * *
114271 CAAAATGA-TTTCAAAAACTATATAATATATTTATGTTTT
1 AAAAAT-ATTTTC-AAAATTATATAATATA--TA-CTTTT
* * *
114310 CAAAATGTTTTTTAAAA--ACTAT-ATATAT--TTTT
1 AAAAAT-ATTTTCAAAATTA-TATAATATATACTTTT
* * * * *
114342 -AAAATGTTTTAAAAACTATATAACATGTA-TTTT
1 AAAAATATTTTCAAAATTATATAATATATACTTTT
* * * *
114375 CAAAAATATTTTAAAAACTATATATTATATTAATTTT
1 -AAAAATATTTTCAAAATTATATAATATA-TACTTTT
* * * * *
114412 CAAAATGTTTTTAAAAACTATATAATATATATATTTT
1 AAAAAT-ATTTTCAAAATTATATAATATATA-CTTTT
* * * ** * *
114449 CAAAAATGTTTTGACAACCATATATTATATTAATTTT
1 -AAAAATATTTTCAAAATTATATAATATA-TACTTTT
* * * * *
114486 CAAAATGTCTT-AAGAACTATATAATATATAATGTTTT
1 AAAAATATTTTCAA-AATTATATAATATAT-A-CTTTT
* * *
114523 CAAACATGCTTTTC-AAATTATATATTATATATA-TATT
1 -AAAAAT-ATTTTCAAAATTATATA--ATATATACTTTT
*
114560 AAAAATGTTTTCAAA
1 AAAAATATTTTCAAA
114575 CTATATACTG
Statistics
Matches: 321, Mismatches: 48, Indels: 72
0.73 0.11 0.16
Matches are distributed among these distances:
30 8 0.02
31 19 0.06
32 21 0.07
33 12 0.04
34 22 0.07
35 61 0.19
36 50 0.16
37 65 0.20
38 33 0.10
39 21 0.07
40 9 0.03
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (35 bp):
AAAAATATTTTCAAAATTATATAATATATACTTTT
Found at i:114301 original size:40 final size:40
Alignment explanation
Indices: 114255--114342 Score: 126
Period size: 39 Copynumber: 2.2 Consensus size: 40
114245 TTTTAAAACT
114255 ATATATTATATGTTTTCAAAATG-ATTTCAAAAACTATATA
1 ATATATT-TATGTTTTCAAAATGTATTTCAAAAACTATATA
* *
114295 ATATATTTATGTTTTCAAAATGTTTTTTAAAAACTATAT-
1 ATATATTTATGTTTTCAAAATGTATTTCAAAAACTATATA
*
114334 ATATTTTTA
1 ATATATTTA
114343 AAATGTTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 23 0.52
40 21 0.48
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.49
Consensus pattern (40 bp):
ATATATTTATGTTTTCAAAATGTATTTCAAAAACTATATA
Found at i:114323 original size:74 final size:73
Alignment explanation
Indices: 114245--114581 Score: 331
Period size: 74 Copynumber: 4.7 Consensus size: 73
114235 TAAAAAAAAA
* *
114245 TTTTAAAACTATATATTATAT-GTTTTCAAAATGATTTCAAAAACTATATAATATATTTATGTTT
1 TTTTAAAACTATATATTATATAATTTTCAAAATG-TTTTAAAAACTATATAATATA-TTATGTTT
114309 TC-AAAATGTT
64 TCAAAAATG-T
* *
114319 TTTTAAAA--ACTATA-TATAT--TTTT-AAAATGTTTTAAAAACTATATAACAT-GTA--TTTT
1 TTTTAAAACTA-TATATTATATAATTTTCAAAATGTTTTAAAAACTATATAATATATTATGTTTT
*
114375 CAAAAATAT
65 CAAAAATGT
* *
114384 TTTAAAAACTATATATTATATTAATTTTCAAAATGTTTTTAAAAACTATATAATATA-TATATTT
1 TTTTAAAACTATATATTATA-TAATTTTCAAAATG-TTTTAAAAACTATATAATATATTATGTTT
114448 TCAAAAATGT
64 TCAAAAATGT
* * * * * *
114458 TTTGACAACCATATATTATATTAATTTTCAAAATGTCTTAAGAACTATATAATATATAATGTTTT
1 TTTTAAAACTATATATTATA-TAATTTTCAAAATGTTTTAAAAACTATATAATATATTATGTTTT
* *
114523 CAAACATGC
65 CAAAAATGT
* * * * *
114532 TTTTCAAATTATATATTATATATATATTAAAAATGTTTT-CAAACTATATA
1 TTTTAAAACTATATATTATATA-ATTTTCAAAATGTTTTAAAAACTATATA
114582 CTGTATATAT
Statistics
Matches: 222, Mismatches: 26, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
65 13 0.06
66 9 0.04
67 7 0.03
68 1 0.00
69 18 0.08
70 10 0.05
71 10 0.05
72 27 0.12
73 34 0.15
74 93 0.42
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.45
Consensus pattern (73 bp):
TTTTAAAACTATATATTATATAATTTTCAAAATGTTTTAAAAACTATATAATATATTATGTTTTC
AAAAATGT
Found at i:114411 original size:37 final size:36
Alignment explanation
Indices: 114245--114590 Score: 249
Period size: 37 Copynumber: 9.6 Consensus size: 36
114235 TAAAAAAAAA
*
114245 TTTT-AAAACTATATATTATAT-GTTTTC-AAAATG
1 TTTTAAAAACTATATATTATATAATTTTCAAAAATG
* * *
114278 ATTTCAAAAACTATATAATATATTTATGTTTTC-AAAATG
1 -TTTTAAAAACTATAT-AT-TATATA-ATTTTCAAAAATG
114317 TTTTTTAAAAAC--TATA-TATAT--TTTT--AAAATG
1 --TTTTAAAAACTATATATTATATAATTTTCAAAAATG
** * *
114348 TTTTAAAAACTATATAACATGT-ATTTTCAAAAATA
1 TTTTAAAAACTATATATTATATAATTTTCAAAAATG
114383 TTTTAAAAACTATATATTATATTAATTTTC-AAAATG
1 TTTTAAAAACTATATATTATA-TAATTTTCAAAAATG
*
114419 TTTTTAAAAACTATATAATATATATATTTTCAAAAATG
1 -TTTTAAAAACTATATATTATATA-ATTTTCAAAAATG
* * *
114457 TTTTGACAACCATATATTATATTAATTTTC-AAAATG
1 TTTTAAAAACTATATATTATA-TAATTTTCAAAAATG
* * * *
114493 TCTTAAGAACTATATAATATATAATGTTTTCAAACATG
1 TTTTAAAAACTATATATTATATAA--TTTTCAAAAATG
* * *
114531 CTTTT-CAAATTATATATTATATATATATT-AAAAATG
1 -TTTTAAAAACTATATATTATATA-ATTTTCAAAAATG
*
114567 TTTT-CAAACTATATACTGTATATA
1 TTTTAAAAACTATATA-T-TATATA
114591 TATATATATA
Statistics
Matches: 256, Mismatches: 31, Indels: 47
0.77 0.09 0.14
Matches are distributed among these distances:
29 10 0.04
31 10 0.04
32 7 0.03
33 4 0.02
34 3 0.01
35 54 0.21
36 39 0.15
37 74 0.29
38 30 0.12
39 16 0.06
40 9 0.04
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (36 bp):
TTTTAAAAACTATATATTATATAATTTTCAAAAATG
Found at i:114590 original size:2 final size:2
Alignment explanation
Indices: 114585--114611 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
114575 CTATATACTG
114585 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
114612 GTAGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:115362 original size:84 final size:83
Alignment explanation
Indices: 115239--116025 Score: 901
Period size: 84 Copynumber: 9.4 Consensus size: 83
115229 AAAGGTCTTA
* * * *
115239 GCAGATAACCCTTCTTGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGGAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
*
115304 ACTCGAAGGTCTTTTGGTC
66 ACTCGAAGGTC-TTTGGTG
* * * * *
115323 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAGTCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCG
* *
115387 AACTCAAAGGTCTTTTGTTG
65 AACTCGAAGGTC-TTTGGTG
* * * * *
115407 GCAGACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
*
115472 ACTCGAAGGTCTCTGGTTG
66 ACTCGAAGGTCTTTGG-TG
* * * *
115491 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCG
**
115556 AACTCGGGGGTC-TT--TG
65 AACTCGAAGGTCTTTGGTG
* * * *
115572 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCGTT-GAGCTGATCGTAGTCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCG
*
115636 AACTCAAAGGTCTTTGGTTG
65 AACTCGAAGGTCTTTGG-TG
**
115656 GCAGATAACCCTTCTTAACTTAAGTTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCG
* *
115720 AACTCAAAGGTCTTTTGGTC
65 AACTCGAAGGTC-TTTGGTG
* * * * * * * * * *
115740 ACAGATAACTCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCG
* *
115805 AACTCG-GGGT-TCT--TG
65 AACTCGAAGGTCTTTGGTG
*
115820 GCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
*
115885 ACTCAAAGGTCTTTGGTTG
66 ACTCGAAGGTCTTTGG-TG
* * * * *
115904 GCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCG
**
115969 AACTCGGGGGTCTTTGGTCG
65 AACTCGAAGGTCTTTGGT-G
115989 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
116026 AGTTTGTTTA
Statistics
Matches: 593, Mismatches: 91, Indels: 37
0.82 0.13 0.05
Matches are distributed among these distances:
79 22 0.04
80 63 0.11
81 47 0.08
82 2 0.00
83 5 0.01
84 332 0.56
85 122 0.21
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (83 bp):
GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
ACTCGAAGGTCTTTGGTG
Found at i:115634 original size:249 final size:249
Alignment explanation
Indices: 115239--116025 Score: 1073
Period size: 249 Copynumber: 3.1 Consensus size: 249
115229 AAAGGTCTTA
* * * * * * * *
115239 GCAGATAACCCTTCTTGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGCGGAGTCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
** * * * * *
115303 AACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCC
66 AACTCGGGGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
* *
115368 GTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTT
127 GTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTT
* * * *
115433 GTGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTCTGGTTG
192 ATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTG
115491 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
* *
115556 AACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCGTTG
66 AACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCGTTG
*
115621 AGCTGATCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTTA-ACTTAAGTTATG
131 AGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTC-TAGACTTAAGTTATG
* *
115685 CTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGG-TC
195 CTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTG
* * * * * *
115740 ACAGATAACTCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
*
115805 AACTCGGGGTTC-TTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTG
66 AACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCGTT-
*
115868 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
130 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
* * * * * ** *
115933 CTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTCG
195 CTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTG
115989 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
116026 AGTTTGTTTA
Statistics
Matches: 473, Mismatches: 53, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
247 3 0.01
248 126 0.27
249 265 0.56
250 8 0.02
252 45 0.10
253 26 0.05
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (249 bp):
GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
AACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCGTTG
AGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGC
TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTG
Found at i:115779 original size:333 final size:329
Alignment explanation
Indices: 115218--116025 Score: 1004
Period size: 333 Copynumber: 2.4 Consensus size: 329
115208 AAGTTGAATA
* * *
115218 TAATCGAACTCAAAGGTC---TTAGCAGATAACCCTTCTTGACTTAAGCTATACTGCAAATGATG
1 TAATCGAACTCAAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * ** *
115280 TGCCTTGGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGG-TCACAGATAACCCTTC-TAGCCT
66 TGCCTT-GAGCTGATCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTTA-ACT
* * * **
115343 TGAGTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGG
128 TAAGTTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
* * * * *
115408 CAGACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGA
193 CAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGA
115472 ACTCGAAGGTCTCTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCC
258 ACTCG-AGGT-TC---TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CC
*
115537 TCGAAGCTGAGTG
317 TCGAAGCTGAGCG
*** *
115550 TAATCGAACTCGGGGGTC-T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TAATCGAACTCAAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* *
115613 TACCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTTAACTTA
66 TGCC-TTGAGCTGATCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTAACTTA
115678 AGTTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACA
130 AGTTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACA
* * * * * * *
115743 GATAACTCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
195 GACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAAC
* * * *
115808 TCGGGGTTCTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCT
260 TCGAGGTTCTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTCGAAGCT
115873 GAGCG
325 GAGCG
* * *
115878 TAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGA
1 TAATCGAACTCAAAGGTC-TT-GTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGA
* * ** * **
115943 TGTGCCCTCGAAGCTGAGT-GTAATCGAACTCGGGGGTCTTTGGTCGGCAGATAACCCTTCTCGA
64 TGTG-CCTTG-AGCTGA-TCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTAA
116007 CTTAAGTTATGCTGCAAAT
126 CTTAAGTTATGCTGCAAAT
116026 AGTTTGTTTA
Statistics
Matches: 412, Mismatches: 52, Indels: 23
0.85 0.11 0.05
Matches are distributed among these distances:
328 26 0.06
329 45 0.11
330 1 0.00
332 66 0.16
333 246 0.60
334 28 0.07
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (329 bp):
TAATCGAACTCAAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
TGCCTTGAGCTGATCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTAACTTAA
GTTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAG
ACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACT
CGAGGTTCTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTCGAAGCTG
AGCG
Found at i:119441 original size:19 final size:19
Alignment explanation
Indices: 119417--119462 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
119407 AGTTAATGTG
119417 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
119436 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
119455 AATGCAAA
1 AATGCAAA
119463 ATGTCTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:120248 original size:16 final size:16
Alignment explanation
Indices: 120227--120257 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
120217 AATGAAAAAT
120227 TCTACCCCACATGATA
1 TCTACCCCACATGATA
120243 TCTACCCCACATGAT
1 TCTACCCCACATGAT
120258 TATTATTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.39, G:0.06, T:0.26
Consensus pattern (16 bp):
TCTACCCCACATGATA
Found at i:122836 original size:34 final size:36
Alignment explanation
Indices: 122779--122874 Score: 133
Period size: 34 Copynumber: 2.6 Consensus size: 36
122769 TAATAATATA
122779 AAAAATATTTTCCCAAAACTTATATAATATATACTTT-T
1 AAAAATATTTT--CAAAA-TTATATAATATATACTTTCT
*
122817 AAAAATATTTT-AAAATTATATATTATATACTTTCT
1 AAAAATATTTTCAAAATTATATAATATATACTTTCT
*
122852 AAAAATGTTTTCAAAATTATATA
1 AAAAATATTTTCAAAATTATATA
122875 GTTTTTTAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
34 17 0.31
35 15 0.28
36 11 0.20
38 11 0.20
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (36 bp):
AAAAATATTTTCAAAATTATATAATATATACTTTCT
Found at i:122868 original size:36 final size:34
Alignment explanation
Indices: 122792--123162 Score: 226
Period size: 35 Copynumber: 10.6 Consensus size: 34
122782 AATATTTTCC
* *
122792 CAAAACTTATATAATATATACTTTTAAAAATATTTT
1 CAAAAC-TATATATTATATA-TTTTAAAAATGTTTT
*
122828 -AAAATTATATATTATATACTTTCTAAAAATGTTTT
1 CAAAACTATATATTATATA-TTT-TAAAAATGTTTT
122863 CAAAA-T-TATA-TAGT-T-TTTTAAAAATGTTTTTT
1 CAAAACTATATATTA-TATATTTTAAAAATG--TTTT
* * * *
122895 TAAAACTATATATTATATGTTTTCAAAATGATTT
1 CAAAACTATATATTATATATTTTAAAAATGTTTT
* *
122929 CAAAAACTATATAATATATTTATGTTTTCAAAATGTTTTT
1 C-AAAACTATAT-AT-TA--TATATTTTAAAAATGTT-TT
*
122969 TAAAA--ACTATA-TATAT-TTTT-AAAATGTTTT
1 CAAAACTA-TATATTATATATTTTAAAAATGTTTT
* ** * *
122999 AAAAACTATATAACATGTATTTTCAAAAATATTTT
1 CAAAACTATATATTATATATTTT-AAAAATGTTTT
* *
123034 AAAAACTATATATTATATTAATTTTCAAAATGTTTTT
1 CAAAACTATATATTATA-T-ATTTTAAAAATG-TTTT
*
123071 AAAAACTATATAATATATATATTTTCAAAAATGTTTT
1 CAAAACTATAT-AT-TATATATTTT-AAAAATGTTTT
* * * * *
123108 GACAACCATATATTATATTAATTTTCAAAATGTCTT
1 CAAAACTATATATTATA-T-ATTTTAAAAATGTTTT
*
123144 -AAGAACTATATAATATATA
1 CAA-AACTATATATTATATA
123163 AATGTTTTCA
Statistics
Matches: 276, Mismatches: 27, Indels: 66
0.75 0.07 0.18
Matches are distributed among these distances:
30 14 0.05
31 15 0.05
32 16 0.06
33 11 0.04
34 30 0.11
35 60 0.22
36 46 0.17
37 46 0.17
38 12 0.04
39 24 0.09
40 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (34 bp):
CAAAACTATATATTATATATTTTAAAAATGTTTT
Found at i:122907 original size:104 final size:97
Alignment explanation
Indices: 122793--123082 Score: 257
Period size: 104 Copynumber: 2.8 Consensus size: 97
122783 ATATTTTCCC
* *
122793 AAAACT-TATATAATATATACTTTTAAAAATATTTTAAAATTATATATTATATACTTTCTAAAAA
1 AAAACTATATATAATATAT--TTTTAAAAATATTTTAAAACTATATATTATATA-TTT-TCAAAA
* * *
122857 TGTTTTCAAAATTATATAGT-TTTTTAAAAATGTTTTTTT
62 TGTTTTAAAAACTATATA-TATTTTT-AAAATG--TTTTA
* * *
122896 AAAACTATATAT--TATATGTTTTCAAAATGATTTCAAAAACTATATAATATATTTATGTTTTCA
1 AAAACTATATATAATATAT-TTTTAAAAAT-ATTT-TAAAACTATAT-AT-TA--TATATTTTCA
122959 AAATGTTTTTTAAAAACTATATATATTTTTAAAATGTTTTA
59 AAATG--TTTTAAAAACTATATATATTTTTAAAATGTTTTA
* *
123000 AAAACTATATA-ACATGTATTTTCAAAAATATTTTAAAAACTATATATTATATTAATTTTCAAAA
1 AAAACTATATATA-ATATATTTTTAAAAATATTTT-AAAACTATATATTATA-T-ATTTTCAAAA
123064 TGTTTTTAAAAACTATATA
62 TG-TTTTAAAAACTATATA
123083 ATATATATAT
Statistics
Matches: 157, Mismatches: 14, Indels: 34
0.77 0.07 0.17
Matches are distributed among these distances:
100 2 0.01
101 27 0.17
102 22 0.14
103 17 0.11
104 36 0.23
105 17 0.11
106 14 0.09
107 22 0.14
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (97 bp):
AAAACTATATATAATATATTTTTAAAAATATTTTAAAACTATATATTATATATTTTCAAAATGTT
TTAAAAACTATATATATTTTTAAAATGTTTTA
Found at i:122948 original size:40 final size:40
Alignment explanation
Indices: 122902--122989 Score: 126
Period size: 39 Copynumber: 2.2 Consensus size: 40
122892 TTTTAAAACT
122902 ATATATTATATGTTTTCAAAATG-ATTTCAAAAACTATATA
1 ATATATT-TATGTTTTCAAAATGTATTTCAAAAACTATATA
* *
122942 ATATATTTATGTTTTCAAAATGTTTTTTAAAAACTATAT-
1 ATATATTTATGTTTTCAAAATGTATTTCAAAAACTATATA
*
122981 ATATTTTTA
1 ATATATTTA
122990 AAATGTTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 23 0.52
40 21 0.48
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.49
Consensus pattern (40 bp):
ATATATTTATGTTTTCAAAATGTATTTCAAAAACTATATA
Found at i:123229 original size:35 final size:35
Alignment explanation
Indices: 122793--123242 Score: 261
Period size: 37 Copynumber: 12.6 Consensus size: 35
122783 ATATTTTCCC
* *
122793 AAAACT-TATATAATATATACTTTTAAAAATATTTT
1 AAAACTATATATTATATATA-TTTTAAAAATGTTTT
* *
122828 AAAATTATATATTATATACT-TTCTAAAAATGTTTT
1 AAAACTATATATTATATA-TATTTTAAAAATGTTTT
*
122863 CAAAA-T-TATA-TA-GT-T-TTTTAAAAATGTTTTTTT
1 -AAAACTATATATTATATATATTTTAAAAATG---TTTT
* * *
122896 AAAACTATATA-T-TATATGTTTTCAAAATGATTTCA
1 AAAACTATATATTATATATATTTTAAAAATG-TTT-T
* * *
122931 AAAACTATATAATATATTTATGTTTTCAAAATGTTTT
1 AAAACTATAT-AT-TATATATATTTTAAAAATGTTTT
** * *
122968 TTAA--A-A-ACTATATATATTTTTAAAATGTTTT
1 AAAACTATATATTATATATATTTTAAAAATGTTTT
* * *
122999 AAAAACTATATA--ACATGTATTTTCAAAAATATTTT
1 -AAAACTATATATTATATATATTTT-AAAAATGTTTT
*
123034 AAAAACTATATATTATAT-TAATTTTCAAAATGTTTTT
1 -AAAACTATATATTATATAT-ATTTTAAAAATG-TTTT
*
123071 AAAAACTATATAATATATATATTTTCAAAAATGTTTT
1 -AAAACTATATATTATATATATTTT-AAAAATGTTTT
* * * *
123108 GACAACCATATATTATAT-TAATTTTCAAAATGTCTT
1 -AAAACTATATATTATATAT-ATTTTAAAAATGTTTT
* * *
123144 AAGAACTATATAATATATAAATGTTTTCAAACATGCTTTT
1 AA-AACTATAT-AT-TATATATATTTT-AAAAATG-TTTT
* *
123184 CAAAATTATATATTATATATATATTAAAAATGTTTT
1 -AAAACTATATATTATATATATTTTAAAAATGTTTT
*
123220 CAAACTATATACTGTATATATAT
1 AAAACTATATA-T-TATATATAT
123243 ATATGTAGAA
Statistics
Matches: 328, Mismatches: 49, Indels: 74
0.73 0.11 0.16
Matches are distributed among these distances:
30 11 0.03
31 20 0.06
32 8 0.02
33 7 0.02
34 24 0.07
35 63 0.19
36 54 0.16
37 77 0.23
38 28 0.09
39 24 0.07
40 10 0.03
41 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (35 bp):
AAAACTATATATTATATATATTTTAAAAATGTTTT
Found at i:123296 original size:2 final size:2
Alignment explanation
Indices: 123289--123340 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
123279 GAGTGTCTAC
123289 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123329 AT A- AT AT -T AT AT
1 AT AT AT AT AT AT AT
123341 TAAATTTTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
1 4 0.09
2 42 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:135519 original size:26 final size:27
Alignment explanation
Indices: 135490--135544 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
135480 ACCATAATAT
135490 CAGTCATCAGATGATCCAAG-CTTTAA
1 CAGTCATCAGATGATCCAAGTCTTTAA
*
135516 CAGTCATCAGATGATCCAAGTTTTTAA
1 CAGTCATCAGATGATCCAAGTCTTTAA
135543 CA
1 CA
135545 CCCTCAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.29
Consensus pattern (27 bp):
CAGTCATCAGATGATCCAAGTCTTTAA
Found at i:143821 original size:17 final size:16
Alignment explanation
Indices: 143801--143867 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 16
143791 TTTTGTTTTT
*
143801 TTTTCTTTTTAATTTCA
1 TTTTCTTTTTAAATT-A
143818 TTTTCTTTTTTAAATTA
1 TTTTC-TTTTTAAATTA
*
143835 TTTTCTCTTATTATA-TA
1 TTTTCT-TT-TTAAATTA
*
143852 TTTTCTCTTTTTAATT
1 TTTTCT-TTTTAAATT
143868 GTAATTTCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.10
17 25 0.60
18 13 0.31
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTTTTTAAATTA
Found at i:144381 original size:8 final size:8
Alignment explanation
Indices: 144368--144393 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
144358 AATCTATAAT
144368 TATATGTA
1 TATATGTA
144376 TATATGTA
1 TATATGTA
144384 TATATGTA
1 TATATGTA
144392 TA
1 TA
144394 ATAATGCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (8 bp):
TATATGTA
Found at i:153729 original size:2 final size:2
Alignment explanation
Indices: 153722--153750 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
153712 ATTTAATGAT
153722 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
153751 TGTTGTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:159137 original size:21 final size:21
Alignment explanation
Indices: 159085--159138 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
159075 TATTATCAAT
*
159085 TATTGTGGATTATTACATTAA
1 TATTGTGAATTATTACATTAA
* ** * *
159106 CACCGTTAATTATTATATTAA
1 TATTGTGAATTATTACATTAA
159127 TATTGTGAATTA
1 TATTGTGAATTA
159139 CTACGACAAC
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (21 bp):
TATTGTGAATTATTACATTAA
Found at i:163707 original size:23 final size:25
Alignment explanation
Indices: 163663--163711 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
163653 CTGCAGTACT
* *
163663 ATTTATTTTTTACTTAGCAAACATA
1 ATTTATTTTTTACTAAGAAAACATA
163688 ATTT-TTTTTTA-TAAGAAAACATA
1 ATTTATTTTTTACTAAGAAAACATA
163711 A
1 A
163712 CTGAAAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 7 0.32
25 4 0.18
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (25 bp):
ATTTATTTTTTACTAAGAAAACATA
Found at i:164125 original size:24 final size:24
Alignment explanation
Indices: 164090--164135 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
164080 TATTATTATT
164090 TTTTGTTATTTTTATGATTTTTGG
1 TTTTGTTATTTTTATGATTTTTGG
* * *
164114 TTTTGTTTTTTTTTTTATTTTT
1 TTTTGTTATTTTTATGATTTTT
164136 TTTCTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (24 bp):
TTTTGTTATTTTTATGATTTTTGG
Found at i:164185 original size:21 final size:20
Alignment explanation
Indices: 164121--164185 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 20
164111 TGGTTTTGTT
*
164121 TTTTTTTTTAT-TTTTTTTC
1 TTTTTTTTTATATTTTTTTA
*
164140 TTTTTTTTACATTATTTTTTCTTA
1 TTTTTTTT-TA-TA-TTTTT-TTA
164164 TTTTATTTTTATATTTTTTTA
1 TTTT-TTTTTATATTTTTTTA
164185 T
1 T
164186 AATTTCTACA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
19 8 0.22
20 1 0.03
21 5 0.14
22 5 0.14
23 7 0.19
24 7 0.19
25 4 0.11
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTTTTTATATTTTTTTA
Found at i:165508 original size:4 final size:4
Alignment explanation
Indices: 165499--165526 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
165489 ACTTTGTAAG
165499 AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA
165527 GAAAGAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:171853 original size:21 final size:21
Alignment explanation
Indices: 171816--171871 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
171806 TCTAATTTAT
171816 TTTATTAATAATT-TTGTGACA
1 TTTA-TAATAATTATTGTGACA
***
171837 TTTATAATAATTATTGTTTTA
1 TTTATAATAATTATTGTGACA
171858 TTTATATATAATTA
1 TTTATA-ATAATTA
171872 AAATAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.27
21 15 0.50
22 7 0.23
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTATAATAATTATTGTGACA
Found at i:171937 original size:16 final size:17
Alignment explanation
Indices: 171887--171938 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
171877 AAAATATTTA
171887 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
171904 GA-TT-AAA-TTATGAGT
1 AATTTGAAAGTTA-GAGT
171919 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
171935 AATT
1 AATT
171939 AAATTAATTT
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:0.19, T:0.38
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:174618 original size:16 final size:16
Alignment explanation
Indices: 174585--174620 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
174575 ACTAATTGTG
*
174585 AAAACTAAAACCATAA
1 AAAACTAAAACCAAAA
174601 AAAAC-AAAACCAAAA
1 AAAACTAAAACCAAAA
174616 AAAAC
1 AAAAC
174621 CACCAACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.75, C:0.19, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAACTAAAACCAAAA
Found at i:184978 original size:17 final size:17
Alignment explanation
Indices: 184945--184978 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
184935 TTGAATATTT
* *
184945 TGGATTGTTTGATTTTG
1 TGGATTGTTAGACTTTG
184962 TGGATTGTTAGACTTTG
1 TGGATTGTTAGACTTTG
184979 GATTTATTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.29, T:0.53
Consensus pattern (17 bp):
TGGATTGTTAGACTTTG
Found at i:186651 original size:2 final size:2
Alignment explanation
Indices: 186644--186670 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
186634 CGTTTTCTAA
186644 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 A
186671 ATAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:199227 original size:34 final size:35
Alignment explanation
Indices: 199159--199228 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 35
199149 TTCTATGTTA
*
199159 TCGTGATGTAGATTTACTCTTATCTTTTGTAATCTG
1 TCGTGATGTAGATTTACTC-TATCTTTTGCAATCTG
199195 TCGTGATGTAGATTTACTC-ATCTTTTGCAATCTG
1 TCGTGATGTAGATTTACTCTATCTTTTGCAATCTG
199229 CTTTTTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 14 0.42
36 19 0.58
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.47
Consensus pattern (35 bp):
TCGTGATGTAGATTTACTCTATCTTTTGCAATCTG
Found at i:212516 original size:2 final size:2
Alignment explanation
Indices: 212509--212541 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
212499 CTATAAAGCA
212509 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
212542 ACTGTTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:220293 original size:21 final size:22
Alignment explanation
Indices: 220269--220339 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
220259 GTCGAGGATT
*
220269 TCATAGGTCCTTCGGGATA-AC
1 TCATAGGTCCTTCGGGACATAC
* *
220290 TCATAGGTCATTCGGGACATAT
1 TCATAGGTCCTTCGGGACATAC
* * *
220312 TCACAGGTCCTTCAGGACAAAC
1 TCATAGGTCCTTCGGGACATAC
220334 TTCATA
1 -TCATA
220340 TGCCACTCAG
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 17 0.44
22 18 0.46
23 4 0.10
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (22 bp):
TCATAGGTCCTTCGGGACATAC
Found at i:220329 original size:22 final size:21
Alignment explanation
Indices: 220268--220331 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
220258 AGTCGAGGAT
*
220268 TTCATAGGTCCTTCGGGATAA
1 TTCATAGGTCCTTCGGGACAA
* *
220289 CTCATAGGTCATTCGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
* *
220311 TTCACAGGTCCTTCAGGACAA
1 TTCATAGGTCCTTCGGGACAA
220332 ACTTCATATG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:228880 original size:21 final size:21
Alignment explanation
Indices: 228838--228880 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
228828 TTTCTGGTAT
* *
228838 AGGGAAATCGGTACCCATTCA
1 AGGGAAATCGATACCCACTCA
* *
228859 AGGGGAATCGATACCCCCTCA
1 AGGGAAATCGATACCCACTCA
228880 A
1 A
228881 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGAAATCGATACCCACTCA
Found at i:229322 original size:30 final size:29
Alignment explanation
Indices: 229288--229373 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 29
229278 GTTATATGAA
*
229288 TTATGTGATAAAAGTGTGGAAAGTGAAATG
1 TTATGTGATAAAAGTATGGAAA-TGAAATG
* *
229318 TTATGTGATAAAGGTATGGAAATGATATG
1 TTATGTGATAAAAGTATGGAAATGAAATG
* *
229347 TCTATGCGATATAAATTATGTGAAATG
1 T-TATGTGATA-AAAGTATG-GAAATG
229374 TAAAAGCCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 7 0.15
30 28 0.60
31 6 0.13
32 6 0.13
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (29 bp):
TTATGTGATAAAAGTATGGAAATGAAATG
Found at i:229602 original size:25 final size:24
Alignment explanation
Indices: 229549--229610 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
229539 TATATGTGGT
*
229549 CCTTCGGGACAAATTCTACGCGAT
1 CCTTCGGGACAAATTCTACGCGAG
*
229573 CCTTCGGGACAAATTTCTACGTG-G
1 CCTTCGGGACAAA-TTCTACGCGAG
*
229597 CACTTCGGTACAAA
1 C-CTTCGGGACAAA
229611 AACTCTACGC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.42
25 19 0.58
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (24 bp):
CCTTCGGGACAAATTCTACGCGAG
Found at i:229626 original size:26 final size:25
Alignment explanation
Indices: 229550--229631 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 25
229540 ATATGTGGTC
* *
229550 CTTCGGGAC-AAATTCTACGCGATC-
1 CTTCGGTACAAAACTCTACGCGA-CA
* ** * *
229574 CTTCGGGACAAATTTCTACGTGGCA
1 CTTCGGTACAAAACTCTACGCGACA
229599 CTTCGGTACAAAAACTCTACGCGACA
1 CTTCGGTAC-AAAACTCTACGCGACA
229625 CTTCGGT
1 CTTCGGT
229632 GCAATTTATA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
24 10 0.21
25 18 0.38
26 19 0.40
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (25 bp):
CTTCGGTACAAAACTCTACGCGACA
Found at i:235708 original size:21 final size:21
Alignment explanation
Indices: 235666--235708 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
235656 TTTTTGGGCT
*
235666 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
235687 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
235708 A
1 A
235709 ACAAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:236426 original size:25 final size:24
Alignment explanation
Indices: 236381--236460 Score: 81
Period size: 26 Copynumber: 3.2 Consensus size: 24
236371 TATGTAGTCT
*
236381 TTCGGGATAAATTCTACGCGGTC-C
1 TTCGGGACAAATTCTACGCGG-CAC
236405 TTCGGGACAAATTTCTACGCGGCAC
1 TTCGGGACAAA-TTCTACGCGGCAC
* * *
236430 TTCGGTGCAAAAACTCTACGCAGCAC
1 TTCGG-G-ACAAATTCTACGCGGCAC
236456 TTCGG
1 TTCGG
236461 TGCAATTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
24 11 0.23
25 16 0.33
26 17 0.35
27 4 0.08
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (24 bp):
TTCGGGACAAATTCTACGCGGCAC
Found at i:238331 original size:5 final size:5
Alignment explanation
Indices: 238321--238348 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
238311 TGGAAGACAT
238321 ACAAC ACAAC ACAAC ACAAC ACAAC ACA
1 ACAAC ACAAC ACAAC ACAAC ACAAC ACA
238349 TACATGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.39, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAC
Found at i:240602 original size:28 final size:27
Alignment explanation
Indices: 240571--240638 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 27
240561 TACACTGTAT
*
240571 TAAAATTTATATAAATTTACTTTTAACG
1 TAAAATTTATATAAATTTACTTTTAA-A
240599 TAAAATTTATATAAATTTACTTTTAAA
1 TAAAATTTATATAAATTTACTTTTAAA
240626 TAAAATTATATAT
1 TAAAATT-TATAT
240639 TCATACAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (27 bp):
TAAAATTTATATAAATTTACTTTTAAA
Found at i:246318 original size:17 final size:18
Alignment explanation
Indices: 246293--246334 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
246283 AATTTATTTC
* *
246293 ATATAATTAACTA-TAAA
1 ATATTATTAAATATTAAA
246310 ATATTATTAAATATTAAA
1 ATATTATTAAATATTAAA
*
246328 ACATTAT
1 ATATTAT
246335 ATTCAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATTATTAAATATTAAA
Found at i:246933 original size:17 final size:17
Alignment explanation
Indices: 246906--246944 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
246896 AATTTACAAT
246906 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
246922 TAATTATAAATAATATC
1 TAATTATAAATAATATC
246939 TAATTA
1 TAATTA
246945 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:252934 original size:18 final size:18
Alignment explanation
Indices: 252886--252936 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
252876 AATAATCTAT
252886 TATT-TTTTAATAAATAA
1 TATTATTTTAATAAATAA
* *
252903 TAAAATATTATTAATTAATAA
1 T--ATTATT-TTAATAAATAA
252924 TATTATTTTAATA
1 TATTATTTTAATA
252937 CAAAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 7 0.27
20 2 0.08
21 11 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTATTTTAATAAATAA
Found at i:256427 original size:43 final size:43
Alignment explanation
Indices: 256356--256497 Score: 162
Period size: 43 Copynumber: 3.3 Consensus size: 43
256346 TATATAGCCA
*
256356 ACAAACGCCGCAATAGGTATTGATATTTAGCGGCGT-TTGTC-C
1 ACAAACGCCGCAATAGGTATTGAGATTTAGCGGCGTGTT-TCAC
* * * *
256398 ACCAAACGCCGTAATAGGTGTTGAGATTTAGCAGCGTGTTTGAC
1 A-CAAACGCCGCAATAGGTATTGAGATTTAGCGGCGTGTTTCAC
* ** * *
256442 ACAAACGCCGCAATAGGTCTTGAGATTTAGCGATGTTTTTCCC
1 ACAAACGCCGCAATAGGTATTGAGATTTAGCGGCGTGTTTCAC
256485 ACAAACGCCGCAA
1 ACAAACGCCGCAA
256498 AAGATCTGGT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 1 0.01
43 79 0.94
44 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (43 bp):
ACAAACGCCGCAATAGGTATTGAGATTTAGCGGCGTGTTTCAC
Found at i:256726 original size:22 final size:22
Alignment explanation
Indices: 256692--256751 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 22
256682 ATTTTCCAAT
*
256692 AAACTTGACATCCATAAACAAC
1 AAACTTGAAATCCATAAACAAC
* *
256714 AAACTTAAAATCCAT-AACAAG
1 AAACTTGAAATCCATAAACAAC
*
256735 AAAATTGAAATCCATAA
1 AAACTTGAAATCCATAA
256752 TAATAAATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (22 bp):
AAACTTGAAATCCATAAACAAC
Found at i:260318 original size:82 final size:82
Alignment explanation
Indices: 260211--260415 Score: 243
Period size: 82 Copynumber: 2.5 Consensus size: 82
260201 GTTAAATGTG
* * * * *
260211 GTATA-TATATAGCAGCATTTGTATAAAAAAC-CCACTAAAGAATGATTATTTAGCGGCGTTTGT
1 GTATAGTATATAGCAGCGTTTGTAT-AAAAACGCCACTAAAGAACGAGTATTTAGAGGCGTTTGG
* *
260274 GCTTAAAACACCATTTAA
65 GCTTAAAACACCACTAAA
* * * * *
260292 GTATAGTATATAGCGGCGTTTATATAAAAGCGCCACTAAAGTACGAGTATTTGGAGGCGTTTGGG
1 GTATAGTATATAGCAGCGTTTGTATAAAAACGCCACTAAAGAACGAGTATTTAGAGGCGTTTGGG
*
260357 CTTAAAACGCCACTAAA
66 CTTAAAACACCACTAAA
* *
260374 GTATGAGTTTTTAGCAGCGTTTGTATAAAAACGCCACTAAAG
1 GTAT-AGTATATAGCAGCGTTTGTATAAAAACGCCACTAAAG
260416 TACTAGTCTA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
81 10 0.10
82 61 0.59
83 32 0.31
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (82 bp):
GTATAGTATATAGCAGCGTTTGTATAAAAACGCCACTAAAGAACGAGTATTTAGAGGCGTTTGGG
CTTAAAACACCACTAAA
Found at i:260341 original size:41 final size:41
Alignment explanation
Indices: 260228--260573 Score: 270
Period size: 42 Copynumber: 8.4 Consensus size: 41
260218 TATAGCAGCA
* * * *
260228 TTTGTATAAAAAAC-CCACTAAAGAATGATTATTTAGCGGCG
1 TTTGTAT-AAAAACGCCACTAAAGTACGAGTCTTTAGCGGCG
* * * * * * * *
260269 TTTGTGCTTAAAACACCATTTAAGTA-TAGTATATAGCGGCG
1 TTTGT-ATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCG
* * * * *
260310 TTTATATAAAAGCGCCACTAAAGTACGAGTATTTGGAGGCG
1 TTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCG
** * * * *
260351 TTTGGGCTTAAAACGCCACTAAAGTATGAGTTTTTAGCAGCG
1 TTT-GTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCG
* * *
260393 TTTGTATAAAAACGCCACTAAAGTACTAGTCTATAGCCGCG
1 TTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCG
*
260434 TTTGTATAAAAAACGCCACTAAA-TCACGAGTCTATAGCGGCG
1 TTTGTAT-AAAAACGCCACTAAAGT-ACGAGTCTTTAGCGGCG
* * *
260476 TTTGTATAAAAAATGCCACTAAAGTAC-A-TTTTTAGCGTCG
1 TTTGTAT-AAAAACGCCACTAAAGTACGAGTCTTTAGCGGCG
* * * * *
260516 TTTTTATAAAAATGTCGCTATAGTACGAGTCTTTAGCGGCG
1 TTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCG
*
260557 TTTGTTCTAAAAACGCC
1 TTTG-TATAAAAACGCC
260574 GCTACAAATA
Statistics
Matches: 242, Mismatches: 53, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
39 16 0.07
40 30 0.12
41 92 0.38
42 103 0.43
43 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (41 bp):
TTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCG
Found at i:260435 original size:83 final size:84
Alignment explanation
Indices: 260216--260518 Score: 273
Period size: 83 Copynumber: 3.7 Consensus size: 84
260206 ATGTGGTATA
* * * *
260216 TATATAGCAGCATTTGTATAAAAAAC-CCACTAAAG-AATGATTATTTAGCGGCGTTTGTGCTTA
1 TATATAGCAGCGTTTGTATAAAAAACGCCACTAAAGTACT-AGTATTTAGCGGCGTTTGGGCTTA
* * *
260279 AAACACCATTTAAGTAT-AG
65 AAACGCCACTAAAGTATGAG
* * * * * *
260298 TATATAGCGGCGTTTATAT-AAAAGCGCCACTAAAGTACGAGTATTTGGAGGCGTTTGGGCTTAA
1 TATATAGCAGCGTTTGTATAAAAAACGCCACTAAAGTACTAGTATTTAGCGGCGTTTGGGCTTAA
260362 AACGCCACTAAAGTATGAG
66 AACGCCACTAAAGTATGAG
* * * * * ** *
260381 TTTTTAGCAGCGTTTGTAT-AAAAACGCCACTAAAGTACTAGTCTATAGCCGCGTTT-GTATAAA
1 TATATAGCAGCGTTTGTATAAAAAACGCCACTAAAGTACTAGTATTTAGCGGCGTTTGGGCT-TA
*
260444 AAACGCCACTAAA-TCACGAG
65 AAACGCCACTAAAGT-ATGAG
* * * * *
260464 TCTATAGCGGCGTTTGTATAAAAAATGCCACTAAAGTAC-A-TTTTTAGCGTCGTTT
1 TATATAGCAGCGTTTGTATAAAAAACGCCACTAAAGTACTAGTATTTAGCGGCGTTT
260519 TTATAAAAAT
Statistics
Matches: 179, Mismatches: 36, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
81 5 0.03
82 73 0.41
83 83 0.46
84 18 0.10
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (84 bp):
TATATAGCAGCGTTTGTATAAAAAACGCCACTAAAGTACTAGTATTTAGCGGCGTTTGGGCTTAA
AACGCCACTAAAGTATGAG
Found at i:261487 original size:20 final size:20
Alignment explanation
Indices: 261462--261516 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
261452 GCGAAATAAA
*
261462 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCAATTC-CCAG
**
261482 AATCGCAAATCAATTCCCAG
1 AATCGCAACGCAATTCCCAG
261502 AATCGCAACGCAATT
1 AATCGCAACGCAATT
261517 ATGAAGAATC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCAATTCCCAG
Found at i:261580 original size:21 final size:21
Alignment explanation
Indices: 261462--261581 Score: 57
Period size: 21 Copynumber: 5.8 Consensus size: 21
261452 GCGAAATAAA
*
261462 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
261482 AATCGCAAATC-AATTCCCAG
1 AATCGCAACGCGATTTTCCAG
* * **
261502 AATCGCAACGCAATTATGAAG
1 AATCGCAACGCGATTTTCCAG
* ** *
261523 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
** **
261543 AATTCGCATTGTAATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
261565 AATCGCAACGCGATTTT
1 AATCGCAACGCGATTTT
261582 TAAAGCGCCA
Statistics
Matches: 69, Mismatches: 27, Indels: 7
0.67 0.26 0.07
Matches are distributed among these distances:
19 1 0.01
20 25 0.36
21 41 0.59
22 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:262163 original size:20 final size:19
Alignment explanation
Indices: 262134--262224 Score: 85
Period size: 20 Copynumber: 4.6 Consensus size: 19
262124 TTCTAAACTT
262134 AAAATCGCAACATGAAAATG
1 AAAATCGCAACA-GAAAATG
*
262154 AAAATTGCAACACGAAAATG
1 AAAATCGCAACA-GAAAATG
**
262174 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC-AGA-AAATG
* *
262195 AAAATCGCAAC-GCGAAATT
1 AAAATCGCAACAG-AAAATG
262214 AAAATCGCAAC
1 AAAATCGCAAC
262225 GCGAAACCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
19 16 0.27
20 28 0.47
21 15 0.25
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (19 bp):
AAAATCGCAACAGAAAATG
Found at i:262217 original size:19 final size:19
Alignment explanation
Indices: 262189--262241 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
262179 CGCAACGAGA
*
262189 GAAATGAAAATCGCAACGC
1 GAAATCAAAATCGCAACGC
*
262208 GAAATTAAAATCGCAACGC
1 GAAATCAAAATCGCAACGC
*
262227 GAAACCAAAATCGCA
1 GAAATCAAAATCGCA
262242 TTGCGATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.49, C:0.23, G:0.17, T:0.11
Consensus pattern (19 bp):
GAAATCAAAATCGCAACGC
Found at i:262221 original size:40 final size:41
Alignment explanation
Indices: 262132--262225 Score: 113
Period size: 40 Copynumber: 2.3 Consensus size: 41
262122 GTTTCTAAAC
*
262132 TTAAAATCGCAAC-ATGAAAATGAAAATTGCAACACGAAAA
1 TTAAAATCGCAACGATGAAAATGAAAATCGCAACACGAAAA
* ** *
262172 TGACTATCGCAACGA-GAGAAATGAAAATCGCAACGCG-AAA
1 TTAAAATCGCAACGATGA-AAATGAAAATCGCAACACGAAAA
262212 TTAAAATCGCAACG
1 TTAAAATCGCAACG
262226 CGAAACCAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
40 26 0.59
41 18 0.41
ACGTcount: A:0.49, C:0.18, G:0.17, T:0.16
Consensus pattern (41 bp):
TTAAAATCGCAACGATGAAAATGAAAATCGCAACACGAAAA
Found at i:262331 original size:40 final size:39
Alignment explanation
Indices: 262237--262336 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 39
262227 GAAACCAAAA
* **
262237 TCGCATTGCGATTTTCATTT-CGCGTTGCGATTTTAATT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATAGTAATT
* *
262275 TCGCGTTGCGATTTTTCATTTCCGCATTGCGATAGTCATT
1 TCGCATTGCGA-TTTTCATTTCCGCATTGCGATAGTAATT
*
262315 CTCTCATTGCGATTTTCATTTC
1 -TCGCATTGCGATTTTCATTTC
262337 AACCAAAAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
38 10 0.19
39 9 0.17
40 24 0.46
41 9 0.17
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (39 bp):
TCGCATTGCGATTTTCATTTCCGCATTGCGATAGTAATT
Found at i:262333 original size:20 final size:19
Alignment explanation
Indices: 262237--262336 Score: 119
Period size: 19 Copynumber: 5.1 Consensus size: 19
262227 GAAACCAAAA
262237 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
262256 TCGCGTTGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
262275 TCGCGTTGCGATTTTTCATT
1 TCGCATTGCGA-TTTTCATT
**
262295 TCCGCATTGCGATAGTCATT
1 T-CGCATTGCGATTTTCATT
*
262315 CTCTCATTGCGATTTTCATT
1 -TCGCATTGCGATTTTCATT
262335 TC
1 TC
262337 AACCAAAAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
19 30 0.43
20 29 0.42
21 10 0.14
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:264245 original size:42 final size:42
Alignment explanation
Indices: 264169--264248 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
264159 GACTCGCCTG
* * *
264169 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* *
264211 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
264249 AATGTCATCG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.23, C:0.39, G:0.16, T:0.23
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
Found at i:265681 original size:186 final size:186
Alignment explanation
Indices: 265367--265740 Score: 730
Period size: 186 Copynumber: 2.0 Consensus size: 186
265357 TATACGAGAC
*
265367 GCTGCCTACTTGCATCCGCGTTATAAAAATGTCCATAAACAATTGGTAAGTTTATAGGCTTTTGG
1 GCTGCCTACCTGCATCCGCGTTATAAAAATGTCCATAAACAATTGGTAAGTTTATAGGCTTTTGG
*
265432 TTTGAAAATGTTTGGTTAAGTACCTAGAATTCAATAATTTGTTGTTTGTAGGTTTTAGATGTGTA
66 TTTGAAAATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTA
265497 GAAAGTGTTGTTTGAGCAAATGTTTAGTTTCTGCAGGTTAATCTCAGAAGTGAGCT
131 GAAAGTGTTGTTTGAGCAAATGTTTAGTTTCTGCAGGTTAATCTCAGAAGTGAGCT
265553 GCTGCCTACCTGCATCCGCGTTATAAAAATGTCCATAAACAATTGGTAAGTTTATAGGCTTTTGG
1 GCTGCCTACCTGCATCCGCGTTATAAAAATGTCCATAAACAATTGGTAAGTTTATAGGCTTTTGG
265618 TTTGAAAATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTA
66 TTTGAAAATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTA
265683 GAAAGTGTTGTTTGAGCAAATGTTTAGTTTCTGCAGGTTAATCTCAGAAGTGAGCT
131 GAAAGTGTTGTTTGAGCAAATGTTTAGTTTCTGCAGGTTAATCTCAGAAGTGAGCT
265739 GC
1 GC
265741 GTGAAAATGA
Statistics
Matches: 186, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 186 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (186 bp):
GCTGCCTACCTGCATCCGCGTTATAAAAATGTCCATAAACAATTGGTAAGTTTATAGGCTTTTGG
TTTGAAAATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTA
GAAAGTGTTGTTTGAGCAAATGTTTAGTTTCTGCAGGTTAATCTCAGAAGTGAGCT
Found at i:265843 original size:14 final size:14
Alignment explanation
Indices: 265824--265859 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
265814 ATTGTTTAAT
265824 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
265838 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
265852 TGATTTGT
1 TGATTTGT
265860 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:265982 original size:19 final size:19
Alignment explanation
Indices: 265966--266043 Score: 87
Period size: 19 Copynumber: 4.4 Consensus size: 19
265956 AAAAATGACT
265966 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
265985 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
265999 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
266018 ATCGCAACGCGAAACT-AAA
1 ATCGCAATGCGAAA-TGAAA
266037 ATCGCAA
1 ATCGCAA
266044 CGTGAAACTA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 33 0.66
20 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:266044 original size:19 final size:19
Alignment explanation
Indices: 265998--266060 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
265988 GCAACGAGAG
*
265998 AATCGCAATGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
266017 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
266036 AATCGCAACGTGAAACTAA
1 AATCGCAACGCGAAACTAA
*
266055 ATTCGC
1 AATCGC
266061 GTTGCGATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 39 0.98
20 1 0.03
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.16
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:266078 original size:19 final size:19
Alignment explanation
Indices: 266056--266121 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
266046 TGAAACTAAA
266056 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
266075 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
266090 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
266108 TTCGCATTGCGATT
1 TTCGCGTTGCGATT
266122 CTCTCGTTGC
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
14 8 0.23
16 3 0.09
17 3 0.09
19 21 0.60
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:266102 original size:33 final size:33
Alignment explanation
Indices: 266060--266134 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
266050 ACTAAATTCG
*
266060 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
266093 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
266126 CGTTGCGAT
1 CGTTGCGAT
266135 AGTAATTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:266143 original size:33 final size:33
Alignment explanation
Indices: 266073--266154 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
266063 TGCGATTTTC
* ** *
266073 ATTTCGCTTTGCGATTCCCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCCCTCGTTGCGATAGTA
*
266106 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTA
1 ATTTCGCATTGCGATTCCCTCGTTGCGATAGTA
*
266139 ATTTCCGCGTTGCGAT
1 ATTT-CGCATTGCGAT
266155 AGACATTAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 32 0.76
34 10 0.24
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.41
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCCCTCGTTGCGATAGTA
Found at i:266200 original size:20 final size:20
Alignment explanation
Indices: 266127--266200 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
266117 CGATTCTCTC
* *
266127 GTTGCGATAGTAATTTCCGC
1 GTTGCGATAGTCATTTCCGT
* **
266147 GTTGCGATAGACA-TTAAGAT
1 GTTGCGATAGTCATTTCCG-T
266167 GATTGCGA-ACGTCATTTCCGT
1 G-TTGCGATA-GTCATTTCCGT
266188 GTTGCGATAGTCA
1 GTTGCGATAGTCA
266201 AATGAATGCC
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.07
20 23 0.56
21 12 0.29
22 3 0.07
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:268715 original size:24 final size:24
Alignment explanation
Indices: 268688--268734 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
268678 CAAAATCCGA
*
268688 GTATTTACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
268712 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
268735 AATACTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:268743 original size:24 final size:24
Alignment explanation
Indices: 268694--268743 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
268684 CCGAGTATTT
** *
268694 ACCAAGATCAAAGTTCGGGTATTG
1 ACCAAGATCAAAGTTCGAATACTG
*
268718 ACCAAGATCAAATTTCGAATACTG
1 ACCAAGATCAAAGTTCGAATACTG
268742 AC
1 AC
268744 TAGTACTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (24 bp):
ACCAAGATCAAAGTTCGAATACTG
Found at i:269612 original size:20 final size:20
Alignment explanation
Indices: 269589--269627 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
269579 GAATCTCGTT
269589 GCGATTTAC-TAAATCGCAAC
1 GCGA-TTACGTAAATCGCAAC
269609 GCGATTACGTAAATCGCAA
1 GCGATTACGTAAATCGCAA
269628 TGTGAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (20 bp):
GCGATTACGTAAATCGCAAC
Found at i:269666 original size:20 final size:20
Alignment explanation
Indices: 269641--269751 Score: 204
Period size: 20 Copynumber: 5.5 Consensus size: 20
269631 GAATATGTAT
269641 TCGCGTTGCGATTTACGTAA
1 TCGCGTTGCGATTTACGTAA
269661 TCGCGTTGCGATTTACGTAA
1 TCGCGTTGCGATTTACGTAA
269681 TCGCGTTGCGATTTACGTAA
1 TCGCGTTGCGATTTACGTAA
269701 TCGCGTTGCGATTTACGTAA
1 TCGCGTTGCGATTTACGTAA
*
269721 TCGCGTTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGTAA
*
269741 TCGCATTGCGA
1 TCGCGTTGCGA
269752 ATTAGGAAAA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 89 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (20 bp):
TCGCGTTGCGATTTACGTAA
Found at i:269772 original size:21 final size:21
Alignment explanation
Indices: 269748--269793 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
269738 TATTCGCATT
269748 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
269769 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
269790 GCGA
1 GCGA
269794 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:270193 original size:2 final size:2
Alignment explanation
Indices: 270186--270220 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
270176 GTAAGGAATA
270186 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
270221 TAGGATCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:271929 original size:133 final size:137
Alignment explanation
Indices: 271738--272074 Score: 476
Period size: 137 Copynumber: 2.5 Consensus size: 137
271728 AAATCTTTAT
* *
271738 ATCTAAAAGGAATGATCCCATAATTAAA-GATGGTGTAAATTCTATAACATATATAATCAATTA-
1 ATCTAAAAGGAATGATCCCATAATTAAATGATGGTGTAAATTCTATAAAACATATAATC-ATTAG
* * *
271801 GATATTAGCGATTATTATCAAACA-TTAAAAA-CTTTAAATAT-TAT-TATTATATTCATTCC-G
65 GATATGACCGATTATTATCAAACAGTTAAAAATCTTTAAACATGTATATA-TATATTCA-TCCAG
*
271861 AGT-AAACAA
128 AGTAAAAAAA
271870 ATCTAAAAGGAATGATCCCATAATTAAATGATGGTGTAAATTCTATAAAACATATAATCATTAGG
1 ATCTAAAAGGAATGATCCCATAATTAAATGATGGTGTAAATTCTATAAAACATATAATCATTAGG
* *
271935 ATATGACCGTTTATTATCAAATAGTTAAAAATCTTTAAACATGTATATATATATTCATCCAGAGT
66 ATATGACCGATTATTATCAAACAGTTAAAAATCTTTAAACATGTATATATATATTCATCCAGAGT
272000 AAAAAAA
131 AAAAAAA
* *
272007 ATCTAAAAGGAATGATCCCATAATTAAATGATGGTTTATATTCTAT-AAACATACATAATCATTA
1 ATCTAAAAGGAATGATCCCATAATTAAATGATGGTGTAAATTCTATAAAACAT--ATAATCATTA
272071 GGAT
64 GGAT
272075 CATTGAACAT
Statistics
Matches: 185, Mismatches: 10, Indels: 14
0.89 0.05 0.07
Matches are distributed among these distances:
132 32 0.17
133 48 0.26
134 7 0.04
135 12 0.06
136 21 0.11
137 51 0.28
138 14 0.08
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (137 bp):
ATCTAAAAGGAATGATCCCATAATTAAATGATGGTGTAAATTCTATAAAACATATAATCATTAGG
ATATGACCGATTATTATCAAACAGTTAAAAATCTTTAAACATGTATATATATATTCATCCAGAGT
AAAAAAA
Found at i:285385 original size:203 final size:201
Alignment explanation
Indices: 284998--285403 Score: 769
Period size: 203 Copynumber: 2.0 Consensus size: 201
284988 AATTAAGGGA
284998 GTAACGTAACTAAAAAGTAGGAAATTATATATCCCTACAAGGAAATCCAGCACCCAAAGAGGCTG
1 GTAACGTAACTAAAAAGTA-GAAATTATATATCCCTACAAGGAAATCCAGCACCCAAAGAGGCTG
285063 TTCTTCACACCATATAATATACCAAATGTGCATACATTCAGAATTTCTTCAAAGATGCAGTAGCT
65 TTCTTCACACCATATAATATACCAAATGTGCATACATTCAGAATTTCTTCAAAGATGCAGTAGCT
285128 TTGACCCTACAAAAATACCCGTATAAGACACATACCCGCATCCGACACACACCCGAGTCCAAGTA
130 TTGACCCTACAAAAATACCCGTATAAGACACATACCCGCATCCGACACACACCCGAGTCCAAGTA
285193 ACAAAAG
195 ACAAAAG
285200 GTAACGTAACTAAAAAGTA-AAATTATATATCCCTACAAGGAAATCCAGCACCCAAAGAGGCTGT
1 GTAACGTAACTAAAAAGTAGAAATTATATATCCCTACAAGGAAATCCAGCACCCAAAGAGGCTGT
285264 TCTTCACACCATATAATATACCAAAATGTGCATACATTCAGAAATTTCTTCAAAAGATGCAGTAG
66 TCTTCACACCATATAATATACC-AAATGTGCATACATTCAG-AATTTCTTC-AAAGATGCAGTAG
285329 CTTTGACCCTACAAAAATACCCGTATAAGACACATACCCGCATCCGACACACACCCGAGTCCAAG
128 CTTTGACCCTACAAAAATACCCGTATAAGACACATACCCGCATCCGACACACACCCGAGTCCAAG
285394 TAACAAAAG
193 TAACAAAAG
285403 G
1 G
285404 CAACCGCGAA
Statistics
Matches: 201, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
200 67 0.33
201 18 0.09
202 28 0.14
203 88 0.44
ACGTcount: A:0.40, C:0.25, G:0.14, T:0.21
Consensus pattern (201 bp):
GTAACGTAACTAAAAAGTAGAAATTATATATCCCTACAAGGAAATCCAGCACCCAAAGAGGCTGT
TCTTCACACCATATAATATACCAAATGTGCATACATTCAGAATTTCTTCAAAGATGCAGTAGCTT
TGACCCTACAAAAATACCCGTATAAGACACATACCCGCATCCGACACACACCCGAGTCCAAGTAA
CAAAAG
Found at i:299488 original size:103 final size:103
Alignment explanation
Indices: 299207--299514 Score: 528
Period size: 102 Copynumber: 3.0 Consensus size: 103
299197 TTTGTTTATG
*
299207 CTTGGTGAGTTTTGTTCCTTCTTAAAATCTGCGTTTGGTTTGAACTGGTCTTGAATGGTAATTGT
1 CTTGGTGAGTTTTGTTCCTTCTTAAAATCTGCATTTGGTTTGAACTGGTCTTGAATGGTAATTGT
* *
299272 TAGTTCCTCCGATTGTACTGTATTTTGTTCTTCTTCTT
66 TAGTTACTCCGATGGTACTGTATTTTGTTCTTCTTCTT
* * *
299310 CTTGGTTAGTTTTGTTCCTTCTT-CAATCTGCATTTGGTTTGAACTGGTCTTGTATGGTAATTGT
1 CTTGGTGAGTTTTGTTCCTTCTTAAAATCTGCATTTGGTTTGAACTGGTCTTGAATGGTAATTGT
299374 TAGTTACTCCGATGGTACTGTATTTTGTTCTTCTTCTT
66 TAGTTACTCCGATGGTACTGTATTTTGTTCTTCTTCTT
* *
299412 CTTGGTGAGTTTTGTTCCTTCTTAAAATCTGCATTTGGTTTGAACTGGTCTTCAATGGTAATTGC
1 CTTGGTGAGTTTTGTTCCTTCTTAAAATCTGCATTTGGTTTGAACTGGTCTTGAATGGTAATTGT
*
299477 TAGTTACTCCGATGGTATTGTATTTTGTTCTTCTTCTT
66 TAGTTACTCCGATGGTACTGTATTTTGTTCTTCTTCTT
299515 TGTATCCATA
Statistics
Matches: 192, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
102 96 0.50
103 96 0.50
ACGTcount: A:0.15, C:0.16, G:0.20, T:0.50
Consensus pattern (103 bp):
CTTGGTGAGTTTTGTTCCTTCTTAAAATCTGCATTTGGTTTGAACTGGTCTTGAATGGTAATTGT
TAGTTACTCCGATGGTACTGTATTTTGTTCTTCTTCTT
Found at i:300396 original size:24 final size:24
Alignment explanation
Indices: 300368--300432 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
300358 TAGTATTTTG
*
300368 TGTTTGGGTTGTTAGTTAAAATGT
1 TGTTTGAGTTGTTAGTTAAAATGT
* *
300392 TGTTTGAGTTTTTGGTTAAAATGT
1 TGTTTGAGTTGTTAGTTAAAATGT
300416 TGTTTGAGTT-TTA-TTAA
1 TGTTTGAGTTGTTAGTTAA
300433 TATTTTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.11
23 2 0.05
24 31 0.84
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.54
Consensus pattern (24 bp):
TGTTTGAGTTGTTAGTTAAAATGT
Found at i:300547 original size:15 final size:17
Alignment explanation
Indices: 300516--300547 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
300506 ATGTATTTTT
300516 ATCTATCTTGCAATTTA
1 ATCTATCTTGCAATTTA
300533 ATCTA-CTTG-AATTTA
1 ATCTATCTTGCAATTTA
300548 TTATATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (17 bp):
ATCTATCTTGCAATTTA
Found at i:300669 original size:28 final size:27
Alignment explanation
Indices: 300628--300681 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
300618 ATAAAATAAT
300628 ATAACAAAGAAAAGGAAAAGAAAAAAAA
1 ATAACAAAGAAAAGGAAAA-AAAAAAAA
*
300656 ATAACAAA-AGAAAGTAAAAAAAAAAA
1 ATAACAAAGA-AAAGGAAAAAAAAAAA
300682 CAAAAACCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.06
Consensus pattern (27 bp):
ATAACAAAGAAAAGGAAAAAAAAAAAA
Found at i:300687 original size:23 final size:22
Alignment explanation
Indices: 300644--300686 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
300634 AAGAAAAGGA
300644 AAAGAAAAAAAAATAACAAAAG
1 AAAGAAAAAAAAATAACAAAAG
300666 AAAGTAAAAAAAAA-AACAAAA
1 AAAG-AAAAAAAAATAACAAAA
300687 ACCAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.84, C:0.05, G:0.07, T:0.05
Consensus pattern (22 bp):
AAAGAAAAAAAAATAACAAAAG
Found at i:300692 original size:29 final size:29
Alignment explanation
Indices: 300637--300693 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 29
300627 TATAACAAAG
*
300637 AAAAGGAAAAGAAAAAAAAATAACAAAAG
1 AAAAGGAAAAGAAAAAAAAAAAACAAAAG
*
300666 -AAAGTAAAA-AAAAAAACAAAAACCAAAA
1 AAAAGGAAAAGAAAAAAA-AAAAA-CAAAA
300694 ATCTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
27 7 0.29
28 12 0.50
29 5 0.21
ACGTcount: A:0.81, C:0.07, G:0.09, T:0.04
Consensus pattern (29 bp):
AAAAGGAAAAGAAAAAAAAAAAACAAAAG
Found at i:300715 original size:22 final size:22
Alignment explanation
Indices: 300649--300718 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
300639 AAGGAAAAGA
* *
300649 AAAAAAAATAACAAAAGAAAGT
1 AAAAAAAATAACAAAAAAAAAT
*
300671 AAAAAAAAAAACAAAAACCAAAAAT
1 AAAAAAAATAAC-AAAA--AAAAAT
**
300696 CTAAAAAATAACAAAAAAAAAT
1 AAAAAAAATAACAAAAAAAAAT
300718 A
1 A
300719 TAATATGTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
22 17 0.45
23 4 0.11
24 4 0.11
25 13 0.34
ACGTcount: A:0.80, C:0.09, G:0.03, T:0.09
Consensus pattern (22 bp):
AAAAAAAATAACAAAAAAAAAT
Done.