Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007777.1 Hibiscus syriacus cultivar Beakdansim tig00110059_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: 1720799
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:864040 original size:77 final size:74
Alignment explanation
Indices: 863889--864107 Score: 186
Period size: 79 Copynumber: 3.0 Consensus size: 74
863879 TTGAAACAAT
* ** * *
863889 TATATATATATATATATAT-ATATATATATATATTACGTATAAAATATAGTT-TATTAATATAAA
1 TATATATATATATATATATAATATATATATAAATTA--TAT-ATTTATATTTATATTAATATATA
*
863952 CTATATATATAAAT
63 C--TATATATAAAC
* *
863966 TATGTATATATATATATATATAATATGTATATAAATTATATAGTTTATATTTATATTATTATATA
1 TA--TATATATATATATATATAATATATATATAAATTATATA-TTTATATTTATATTAATATATA
864031 CTATATATAAAC
63 CTATATATAAAC
* ** *
864043 TATATATATAT-TAT-TATAA-A-CTATAT-GGTT-TATATTTATATATTATA-TACTATATACT
1 TATATATATATATATATATAATATATATATAAATTATATATTTATAT-TTATATTAATATATACT
864101 ATATATA
65 ATATATA
864108 TGTATAAACT
Statistics
Matches: 124, Mismatches: 12, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
68 24 0.19
69 9 0.07
70 2 0.02
71 5 0.04
72 1 0.01
73 5 0.04
74 3 0.02
75 9 0.07
77 15 0.12
78 9 0.07
79 28 0.23
80 14 0.11
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (74 bp):
TATATATATATATATATATAATATATATATAAATTATATATTTATATTTATATTAATATATACTA
TATATAAAC
Found at i:864239 original size:21 final size:21
Alignment explanation
Indices: 864208--864271 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 21
864198 ATAGTTTACA
*
864208 TAAATTATATATGAATTATATT
1 TAAA-TATATATCAATTATATT
864230 TAAATATATA-CAACTTATATT
1 TAAATATATATCAA-TTATATT
*
864251 TAAATATTATATATAATTATA
1 TAAATA-TATAT-CAATTATA
864272 AATTATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
20 2 0.06
21 19 0.53
22 8 0.22
23 5 0.14
24 2 0.06
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAATATATATCAATTATATT
Found at i:864391 original size:69 final size:66
Alignment explanation
Indices: 864260--864582 Score: 194
Period size: 69 Copynumber: 4.8 Consensus size: 66
864250 TTAAATATTA
* * * * *
864260 TATATAATTATAAATTATATATACTATGTATAA-ATTATATAGTTTATTA-ATAAACTATATAAA
1 TATATAA-TATAAAGTATATATAC-ATATATAATA-TATAAAGTATATTATATATA-TATATAAA
864323 CTAAAT
62 -TAAAT
864329 TATATATATATAAAGTATATATACATATATAATATATAAAGTATATTATATATATATAATAAAGT
1 TATATA-ATATAAAGTATATATACATATATAATATATAAAGTATATTATATATATAT-ATAAA-T
864394 ATAAT
63 A-AAT
* * *
864399 TATA-AAGACTAAAGTATATAGT--ATACA-AAGTTATCTAAAGTATA-TATATATATATAT--A
1 TATATAATA-TAAAGTATATA-TACATATATAA--TATATAAAGTATATTATATATATATATAAA
*
864457 TAAGT
62 TAAAT
* * *
864462 T-T-TAGTATAAAGTATATATAAATATATAATAATATAAAGTA-AGTATATTATATATATATATA
1 TATATAATATAAAGTATATATACATATATAAT-ATATAAAGTATA-T-TA-TATATATATATAAA
864524 TAAA-
62 TAAAT
* * * *
864528 -GTATAATATAAA-TACTA-A-AGATATAAATATAATATAAAGTATATAAGTATATATA
1 TATATAATATAAAGTA-TATATACATATATA-AT-ATATAAAGTATATTA-TATATATA
864583 AACTATAAAG
Statistics
Matches: 209, Mismatches: 20, Indels: 54
0.74 0.07 0.19
Matches are distributed among these distances:
60 1 0.00
61 13 0.06
62 16 0.08
63 5 0.02
64 4 0.02
65 28 0.13
66 18 0.09
67 19 0.09
68 39 0.19
69 57 0.27
70 9 0.04
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (66 bp):
TATATAATATAAAGTATATATACATATATAATATATAAAGTATATTATATATATATATAAATAAA
T
Found at i:864531 original size:55 final size:62
Alignment explanation
Indices: 864467--864600 Score: 158
Period size: 63 Copynumber: 2.2 Consensus size: 62
864457 TAAGTTTTAG
* * *
864467 TATAAAGTATATATAAATA-T-ATA-AT-AATATAA-AGT-AAGTATATTA-TATATATATA-
1 TATAAAGTATATATAAATACTAAGATATAAATATAATA-TAAAGTATATAAGTATATATAAAC
864522 TATAAAGTATAATATAAATACTAAAGATATAAATATAATATAAAGTATATAAGTATATATAAAC
1 TATAAAGTAT-ATATAAATACT-AAGATATAAATATAATATAAAGTATATAAGTATATATAAAC
864586 TATAAAGTATATATA
1 TATAAAGTATATATA
864601 CACTTATATT
Statistics
Matches: 66, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
55 10 0.15
56 9 0.14
57 1 0.02
59 2 0.03
60 2 0.03
61 8 0.12
62 10 0.15
63 14 0.21
64 10 0.15
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (62 bp):
TATAAAGTATATATAAATACTAAGATATAAATATAATATAAAGTATATAAGTATATATAAAC
Found at i:864579 original size:130 final size:128
Alignment explanation
Indices: 864337--864582 Score: 326
Period size: 135 Copynumber: 1.9 Consensus size: 128
864327 ATTATATATA
*
864337 TATAAAGTATATATACATATATAATATATAAAGTATATTATATATATATAATAAAGTATAATTAT
1 TATAAAGTATATATAAATATATAATATATAAAGTATATTATATATATATAATAAAGTATAATTAT
*
864402 AAAGACTAAAGTATATAGTATACAAAGTTATCTAAAGTATATATATATATATATATAAGTTTTAG
66 AAAGACTAAAGTATATAGAATACAAAG-TA-CTAAAGTATATATATATATATATATAAGTTTTAG
864467 TATAAAGTATATATAAATATATAATAATATAAAGTAAGTATATTATATATATATATATAAAGTAT
1 TATAAAGTATATATAAATATATAAT-ATAT--A--AAGTATATTATATATATATA-ATAAAGTAT
* *
864532 AA-TATAAATACTAAAG-ATATA-AATA-TAA-TA-TAAAGTATATA-AGTATATATA
60 AATTATAAAGACTAAAGTATATAGAATACAAAGTACTAAAGTATATATA-TATATATA
864583 AACTATAAAG
Statistics
Matches: 105, Mismatches: 4, Indels: 16
0.84 0.03 0.13
Matches are distributed among these distances:
127 1 0.01
128 19 0.18
130 26 0.25
131 4 0.04
132 2 0.02
133 4 0.04
134 5 0.05
135 33 0.31
136 11 0.10
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (128 bp):
TATAAAGTATATATAAATATATAATATATAAAGTATATTATATATATATAATAAAGTATAATTAT
AAAGACTAAAGTATATAGAATACAAAGTACTAAAGTATATATATATATATATATAAGTTTTAG
Found at i:864995 original size:135 final size:134
Alignment explanation
Indices: 864850--865137 Score: 334
Period size: 135 Copynumber: 2.1 Consensus size: 134
864840 ATATTATATA
* * * * * *
864850 TATATTTATATTATATAAGTAAATATACTTTATATGATATACTTATATACTTTAGTCT-TTATAT
1 TATATATATA-TATATAA-TAAAT-TAATATATATGATATACTTATATA-TGTA-TATAATATAT
* *
864914 A-TTA-T-ATAAATATATTATATATTATTATTAT-TTATATTAATTTTATATGTATATATACTTT
61 ACTTAGTCATAAATATAATATATAATATT-TTATATTATATTAA--TTATATGTATATATACTTT
864975 ATACTAAAACTT
123 ATACTAAAACTT
* * *
864987 TATATATATATATATAATATATTAATATATATTATATACTTGTATATGTATATAATATATACTTT
1 TATATATATATATATAATAAATTAATATATATGATATACTTATATATGTATATAATATATAC-TT
* * *
865052 AGTCTTATATATAATATATAATATTTTTTATTATATTAATTATATGTATATATACTTTATACTAA
65 AGTCATAAATATAATATATAATATTTTATATTATATTAATTATATGTATATATACTTTATACTAA
865117 AACTT
130 AACTT
865122 TATATATATATATATA
1 TATATATATATATATA
865138 TTACTTATAT
Statistics
Matches: 131, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
132 2 0.02
133 9 0.07
134 20 0.15
135 54 0.41
136 11 0.08
137 35 0.27
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52
Consensus pattern (134 bp):
TATATATATATATATAATAAATTAATATATATGATATACTTATATATGTATATAATATATACTTA
GTCATAAATATAATATATAATATTTTATATTATATTAATTATATGTATATATACTTTATACTAAA
ACTT
Found at i:865189 original size:137 final size:140
Alignment explanation
Indices: 864915--865307 Score: 413
Period size: 135 Copynumber: 2.7 Consensus size: 140
864905 TCTTTATATA
864915 TTATATAAATATATTATATATTATTATTATTTATATTAATTTTATATGTATATATACTTTATACT
1 TTATATAAATATATTATATATTATTATTATTTATATTAA-TTTATATGTATATATACTTTATACT
*
864980 AAAACTTTATATATATATATATAATATATTAATATATATTATATACTTGTATATGTATATAATAT
65 AAAACTTTATATATATATATATAATATATTAATATATAATATATACTTGTATATGTATATAATAT
865045 ATACTTTAGTC
130 ATACTTTAGTC
865056 TTATATATAATATA-TA-ATATT-TT-TTA-TTATATTAA-TTATATGTATATATACTTTATACT
1 TTATATA-AATATATTATATATTATTATTATTTATATTAATTTATATGTATATATACTTTATACT
* *
865115 AAAACTTTATATATATATATATATTACTTATATAATTATACTTAATATATACTTGTGTATTATAT
65 AAAACTTTATATATATATATATAATA--TAT-TAA-TATA--TAATATATAC-T-TGTA-TATGT
* *
865180 ATAGTCTTTATAATATACTTTA-TA
121 ATA----TAAT-ATATACTTTAGTC
* * * *
865204 TATATATATATATATATATATATATATAATCAACTTATACTTTATATTATATATATGTATATATA
1 T-TATATAAATATAT-TATATAT-TATTAT-TATTTATA--TTA-A-T-T-TATATGTATATATA
865269 CTTTATACTAAAACTTTATATATATATATATATATATAT
56 CTTTATACTAAAACTTTATATATATATATATA-ATATAT
865308 ATCTATATAT
Statistics
Matches: 211, Mismatches: 9, Indels: 43
0.80 0.03 0.16
Matches are distributed among these distances:
135 49 0.23
137 12 0.06
138 6 0.03
139 6 0.03
140 5 0.02
141 18 0.09
142 7 0.03
143 4 0.02
144 7 0.03
148 10 0.05
149 16 0.08
150 2 0.01
151 4 0.02
152 1 0.00
153 1 0.00
154 1 0.00
155 1 0.00
156 5 0.02
158 3 0.01
159 1 0.00
162 4 0.02
163 46 0.22
164 2 0.01
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (140 bp):
TTATATAAATATATTATATATTATTATTATTTATATTAATTTATATGTATATATACTTTATACTA
AAACTTTATATATATATATATAATATATTAATATATAATATATACTTGTATATGTATATAATATA
TACTTTAGTC
Found at i:865202 original size:120 final size:118
Alignment explanation
Indices: 865011--865455 Score: 271
Period size: 114 Copynumber: 3.8 Consensus size: 118
865001 TAATATATTA
* *
865011 ATATATATTATATACTTGTATATGTATATAATATATACTTTAGTCTTATATATAATATATAATAT
1 ATATATATTATATACTTATATATGTATATAATATATACTTTAGTATTATATATAATATATAATAT
** *
865076 TTTTTAT-TATAT-TA-AT-TATATGTATATATACTTTATACTAAAACTTTAT
66 ACTTTATATATATATATATATATATATATATATACTTTATACTAAAACTTTAT
* *
865125 ATATATATATATATTACTTATATAAT-TATACTTAATATATACTTGT-GTATTATATATAGTCTT
1 ATATATAT-TATA-TACTTATAT-ATGTATA--TAATATATACTT-TAGTATTATATATA--ATA
* * *
865188 TATAATATACTTTATATATATATATATATATATATATATATA--TAATCAACTTATACTTTAT
58 TATAATATACTTTATATATATATATATATATATATATATATACTTTAT--ACTAAAACTTTAT
* * *
865249 AT-TATA-TATAT-GTATATATACT-T-TATACTA-AAACTTTA-TA-TATATAT-ATATATATA
1 ATATATATTATATACT-TATATA-TGTATATAATATATACTTTAGTATTATATATAATATATA-A
* * * *
865305 TATA-TCTATATATATATA-ATAT-TATA-AGTATA-A-TATATA-T-AAAGTTTTT
63 TATACTTTATATATATATATATATATATATA-TATATACTTTATACTAAAACTTTAT
* * * * * * * *
865354 TTATAAAGTGTATATACTT-TATATATATACTTATACTTATACTTT-TTTTTATATAT-GTATTT
1 ATATATA-T-TATATACTTATATATGTATA-TAATA--TATACTTTAGTATTATATATAATATAT
* *
865416 AATATTCTATATATATATATATATATATATATTATATATA
61 AATATACTTTATATATATATATATATATATA-TATATATA
865456 TATAACTATA
Statistics
Matches: 260, Mismatches: 32, Indels: 74
0.71 0.09 0.20
Matches are distributed among these distances:
105 7 0.03
106 4 0.02
107 2 0.01
108 7 0.03
109 18 0.07
110 8 0.03
111 18 0.07
112 5 0.02
113 11 0.04
114 40 0.15
115 11 0.04
116 21 0.08
117 10 0.04
118 25 0.10
119 5 0.02
120 22 0.08
121 9 0.03
122 5 0.02
123 6 0.02
124 26 0.10
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (118 bp):
ATATATATTATATACTTATATATGTATATAATATATACTTTAGTATTATATATAATATATAATAT
ACTTTATATATATATATATATATATATATATATACTTTATACTAAAACTTTAT
Found at i:865221 original size:118 final size:114
Alignment explanation
Indices: 865011--865229 Score: 253
Period size: 118 Copynumber: 1.8 Consensus size: 114
865001 TAATATATTA
* *
865011 ATATATATTATATACTTGTATATGTATATAATATATACTTTAGTCTTATATATAATATATAATAT
1 ATATATATTATATACTTATATATGTATATAATATATACTTTAGTATTATATATAATATATAATAT
** *
865076 TTTTTATTATATTAATTATATGTATATATACTTTATACTAAAACTTTAT
66 ACTTTATTATATTAATTATATATATATATACTTTATACTAAAACTTTAT
* *
865125 ATATATATATATATTACTTATATAAT-TATACTTAATATATACTTGT-GTATTATATATAGTCTT
1 ATATATAT-TATA-TACTTATAT-ATGTATA--TAATATATACTT-TAGTATTATATATA--ATA
865188 TATAATATACTTTATATATATATATATATATATATATATATA
58 TATAATATACTTTAT-TATAT-TA-AT-TATATATATATATA
865230 TAATCAACTT
Statistics
Matches: 86, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
114 8 0.09
115 4 0.05
116 12 0.14
117 2 0.02
118 23 0.27
119 1 0.01
120 14 0.16
121 5 0.06
122 2 0.02
123 2 0.02
124 13 0.15
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (114 bp):
ATATATATTATATACTTATATATGTATATAATATATACTTTAGTATTATATATAATATATAATAT
ACTTTATTATATTAATTATATATATATATACTTTATACTAAAACTTTAT
Found at i:865379 original size:163 final size:156
Alignment explanation
Indices: 865042--865382 Score: 363
Period size: 163 Copynumber: 2.1 Consensus size: 156
865032 ATGTATATAA
* ** *
865042 TATATACTTTAGTCT-TATATATAATATATAATATTTTTTATTATATTAATTATATGTATATATA
1 TATATACTTTA-TATATATATATAATATATAATAACTTATATTATATTAATTATATGTATATATA
*
865106 CTTTATACTAAAACTTTATATATATATATATATTACTTATATAATTATACTTAATATATACTTGT
65 CTTTATACTAAAACTTTATATATATATATATATTACTTATATAATTATAC-TAATATATAC-AGT
* * * *
865171 GTATTATATATAGTCTTTATAATATACTT
128 ATATTATATAAAGTCTTTATAATAAACTG
865200 TATATA-TATATATATATATATATATATATATAATCAACTTATACTTTATATT-ATATATATGTA
1 TATATACT-T-TATATATATATATA-ATATATAAT-AACTTATA--TTATATTAAT-TATATGTA
*
865263 TATATACTTTATACTAAAACTTTATATATATATATATATATA-TATATCTATATATATA-TAATA
59 TATATACTTTATACTAAAACTTTATATATATATATATAT-TACT-TATATA-AT-TATACTAATA
* * *
865326 TTATA-AGTATAATATATATAAAGT-TTTTTTATAAAGTG
120 -TATACAGTAT-AT-TATATAAAGTCTTTATAATAAACTG
865364 TATATACTTTATATATATA
1 TATATACTTTATATATATA
865383 CTTATACTTA
Statistics
Matches: 154, Mismatches: 13, Indels: 27
0.79 0.07 0.14
Matches are distributed among these distances:
157 1 0.01
158 9 0.06
159 10 0.06
160 9 0.06
161 5 0.03
162 2 0.01
163 68 0.44
164 30 0.19
165 16 0.10
166 4 0.03
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (156 bp):
TATATACTTTATATATATATATAATATATAATAACTTATATTATATTAATTATATGTATATATAC
TTTATACTAAAACTTTATATATATATATATATTACTTATATAATTATACTAATATATACAGTATA
TTATATAAAGTCTTTATAATAAACTG
Found at i:865556 original size:2 final size:2
Alignment explanation
Indices: 865549--865581 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
865539 TCATAAAAAT
865549 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
865582 ATTGTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:866012 original size:2 final size:2
Alignment explanation
Indices: 866005--866082 Score: 133
Period size: 2 Copynumber: 39.5 Consensus size: 2
865995 AAAGTATAAG
866005 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
866046 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA GTA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T
866083 GTATGTATGT
Statistics
Matches: 73, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.03
2 69 0.95
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:866087 original size:4 final size:4
Alignment explanation
Indices: 866080--866106 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
866070 ATATATAGTA
866080 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
866107 AAAGTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:866587 original size:23 final size:23
Alignment explanation
Indices: 866561--866605 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
866551 TATAAAGTAT
*
866561 AAGTAT-ATGTATATATATATATA
1 AAGTATAATGTACAT-TATATATA
866584 AAGTATAATGTACATTATATAT
1 AAGTATAATGTACATTATATAT
866606 GTACATGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (23 bp):
AAGTATAATGTACATTATATATA
Found at i:866591 original size:29 final size:30
Alignment explanation
Indices: 866541--866605 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
866531 CTTTATATAC
*
866541 ATATATAAACTATAAAGTATAA-GTATATGT
1 ATATATAAACTATAAAGTATAATGTACAT-T
*
866571 ATATATATA-TATAAAGTATAATGTACATT
1 ATATATAAACTATAAAGTATAATGTACATT
866600 ATATAT
1 ATATAT
866606 GTACATGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (30 bp):
ATATATAAACTATAAAGTATAATGTACATT
Found at i:866981 original size:24 final size:24
Alignment explanation
Indices: 866941--866986 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
866931 TTTAGTCCAT
*
866941 TTTTATATTGATATCAACTTCACA
1 TTTTATATTAATATCAACTTCACA
*
866965 TTTTATAATTAAT-TCAATTTCA
1 TTTTAT-ATTAATATCAACTTCA
866987 TCCCTCGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTATATTAATATCAACTTCACA
Found at i:867098 original size:14 final size:14
Alignment explanation
Indices: 867081--867215 Score: 76
Period size: 14 Copynumber: 9.8 Consensus size: 14
867071 AACTAGAAAG
867081 TATAAGTATATATA
1 TATAAGTATATATA
867095 TAT-A-TATATATA
1 TATAAGTATATATA
867107 TATATA-TATATATA
1 TATA-AGTATATATA
*
867121 TATAAAGTATAAAGTA
1 TAT-AAGTATATA-TA
867137 TATAA--AGTA-AT-
1 TATAAGTA-TATATA
*
867148 TA-AAGTATATAAA
1 TATAAGTATATATA
*
867161 TATAAGTAT-TAAA
1 TATAAGTATATATA
867174 TATAAAGTATATTAATTA
1 TAT-AAGTATA-T-A-TA
*
867192 TCATAATTA-ATATA
1 T-ATAAGTATATATA
867206 T-TAAGTATAT
1 TATAAGTATAT
867216 TTATTAATTT
Statistics
Matches: 98, Mismatches: 5, Indels: 37
0.70 0.04 0.26
Matches are distributed among these distances:
10 2 0.02
11 4 0.04
12 19 0.19
13 14 0.14
14 33 0.34
15 9 0.09
16 7 0.07
17 2 0.02
18 6 0.06
19 2 0.02
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (14 bp):
TATAAGTATATATA
Found at i:867138 original size:18 final size:18
Alignment explanation
Indices: 867077--867158 Score: 56
Period size: 16 Copynumber: 4.9 Consensus size: 18
867067 TATAAACTAG
867077 AAAGTAT-AAGTATATAT
1 AAAGTATAAAGTATATAT
*
867094 --A-TATATA-TATATAT
1 AAAGTATAAAGTATATAT
* *
867108 ATA-TATATA-TATATAT
1 AAAGTATAAAGTATATAT
867124 AAAGTATAAAG--TATAT
1 AAAGTATAAAGTATATAT
867140 AAAGTAATTAAAGTATATA
1 AAAGT-A-TAAAGTATATA
867159 AATATAAGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
14 10 0.19
15 2 0.04
16 26 0.49
17 6 0.11
18 5 0.09
20 4 0.08
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (18 bp):
AAAGTATAAAGTATATAT
Found at i:867140 original size:2 final size:2
Alignment explanation
Indices: 867087--867124 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
867077 AAAGTATAAG
867087 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
867125 AAGTATAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:867159 original size:18 final size:16
Alignment explanation
Indices: 867119--867185 Score: 88
Period size: 18 Copynumber: 4.3 Consensus size: 16
867109 TATATATATA
867119 TATATAAAGTATAAAG
1 TATATAAAGTATAAAG
867135 TATATAAAGTAATTAAAG
1 TATATAAAGT-A-TAAAG
867153 TATATAAA-TAT-AAG
1 TATATAAAGTATAAAG
867167 TAT-TAAA-TATAAAG
1 TATATAAAGTATAAAG
867181 TATAT
1 TATAT
867186 TAATTATCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.15
14 12 0.26
15 2 0.04
16 11 0.23
17 2 0.04
18 13 0.28
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (16 bp):
TATATAAAGTATAAAG
Found at i:867175 original size:13 final size:15
Alignment explanation
Indices: 867091--867185 Score: 90
Period size: 14 Copynumber: 6.3 Consensus size: 15
867081 TATAAGTATA
* *
867091 TATATATATATATA-
1 TATATAAATATAAAG
* *
867105 TATATATATATATA-
1 TATATAAATATAAAG
867119 TATATAAAGTATAAAG
1 TATATAAA-TATAAAG
867135 TATATAAAGTAATTAAAG
1 TATATAAA-T-A-TAAAG
867153 TATATAAATAT-AAG
1 TATATAAATATAAAG
867167 TAT-TAAATATAAAG
1 TATATAAATATAAAG
867181 TATAT
1 TATAT
867186 TAATTATCAT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
13 7 0.10
14 33 0.45
15 7 0.10
16 11 0.15
17 2 0.03
18 13 0.18
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (15 bp):
TATATAAATATAAAG
Found at i:867207 original size:21 final size:21
Alignment explanation
Indices: 867181--867241 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
867171 AAATATAAAG
867181 TATATTAATTATCATAATTAA
1 TATATTAATTATCATAATTAA
* *
867202 TATATTAAGTAT-AT--TTAT
1 TATATTAATTATCATAATTAA
867220 TA-ATTTAATTATCATAATTAA
1 TATA-TTAATTATCATAATTAA
867241 T
1 T
867242 GTTTTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 1 0.03
18 12 0.38
19 2 0.06
20 2 0.06
21 15 0.47
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (21 bp):
TATATTAATTATCATAATTAA
Found at i:867239 original size:18 final size:19
Alignment explanation
Indices: 867182--867241 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 19
867172 AATATAAAGT
867182 ATATTAATTATCATAATTAA
1 ATATTAATTATCATAATT-A
* *
867202 TATATTAAGTAT-ATTTATTA
1 -ATATTAATTATCA-TAATTA
867222 AT-TTAATTATCATAATTA
1 ATATTAATTATCATAATTA
867240 AT
1 AT
867242 GTTTTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 14 0.42
19 3 0.09
20 2 0.06
21 14 0.42
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (19 bp):
ATATTAATTATCATAATTA
Found at i:871930 original size:37 final size:38
Alignment explanation
Indices: 871889--871962 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 38
871879 TTATTTTTTA
* **
871889 CAATTATTAATTTACTTTGTATTTA-TTTTTTAAAATG
1 CAATTACTAATTTACTTTGTAACTATTTTTTTAAAATG
* *
871926 CAATTACTATTTTTCTTTGTAACTATTTTTTTAAAAT
1 CAATTACTAATTTACTTTGTAACTATTTTTTTAAAAT
871963 TTTTATCCGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 20 0.65
38 11 0.35
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (38 bp):
CAATTACTAATTTACTTTGTAACTATTTTTTTAAAATG
Found at i:873395 original size:18 final size:19
Alignment explanation
Indices: 873358--873395 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
873348 ATTTATTCCC
* *
873358 TCATTTTTTTGTATTTTAT
1 TCATTTTTTAGTATTATAT
873377 TCATTTTTTAGT-TTATAT
1 TCATTTTTTAGTATTATAT
873395 T
1 T
873396 GTAATTTCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.71
Consensus pattern (19 bp):
TCATTTTTTAGTATTATAT
Found at i:876157 original size:17 final size:18
Alignment explanation
Indices: 876100--876164 Score: 105
Period size: 18 Copynumber: 3.7 Consensus size: 18
876090 TGTTTCTGAT
876100 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
876118 GGAATTGAAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
876136 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
876153 GGAATTGGAATC
1 GGAATTGGAATC
876165 CAATTCCATA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
17 13 0.30
18 31 0.70
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:887998 original size:2 final size:2
Alignment explanation
Indices: 887991--888023 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
887981 GAAGTAATTC
887991 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
888024 CATACACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:893031 original size:11 final size:12
Alignment explanation
Indices: 893015--893043 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
893005 TACATTTTAA
893015 TATTAT-GATTT
1 TATTATGGATTT
893026 TATTATGGATTT
1 TATTATGGATTT
893038 TATTAT
1 TATTAT
893044 TCTAGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (12 bp):
TATTATGGATTT
Found at i:893085 original size:75 final size:75
Alignment explanation
Indices: 892963--893160 Score: 215
Period size: 75 Copynumber: 2.6 Consensus size: 75
892953 TTTGAGTTTA
* * *
892963 TATTTTTCTAGACTTAATATTATAGTTTGAGTCTT-AAGATTTTACATTTTAATATT-ATGATTT
1 TATTATTCTAGAATTAATATTATAGTTTGAGTCTTGAA-ATTTGACATTTTAATATTGATG-TTT
893026 -TATTATGGATTT
64 GT-TTATGGATTT
* * * *
893038 TATTATTCTAGAATTAATATTATGGTTTGAATATTGAAATTTGACATTTTAATATTGTTGTTTGT
1 TATTATTCTAGAATTAATATTATAGTTTGAGTCTTGAAATTTGACATTTTAATATTGATGTTTGT
893103 TTATGGATTT
66 TTATGGATTT
* * * * * *
893113 TACTGTTATA-AATTTAATATTGTTGTTTGAGTCTTGATATTTGACATT
1 TATTATTCTAGAA-TTAATATTATAGTTTGAGTCTTGAAATTTGACATT
893161 ATTTATGATT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
74 2 0.02
75 97 0.93
76 5 0.05
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.54
Consensus pattern (75 bp):
TATTATTCTAGAATTAATATTATAGTTTGAGTCTTGAAATTTGACATTTTAATATTGATGTTTGT
TTATGGATTT
Found at i:893303 original size:12 final size:12
Alignment explanation
Indices: 893258--893297 Score: 80
Period size: 12 Copynumber: 3.3 Consensus size: 12
893248 TTGCCGTTTC
893258 CCGTCCCCGTAT
1 CCGTCCCCGTAT
893270 CCGTCCCCGTAT
1 CCGTCCCCGTAT
893282 CCGTCCCCGTAT
1 CCGTCCCCGTAT
893294 CCGT
1 CCGT
893298 ATCCGTGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.07, C:0.50, G:0.17, T:0.25
Consensus pattern (12 bp):
CCGTCCCCGTAT
Found at i:893303 original size:24 final size:24
Alignment explanation
Indices: 893258--893303 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
893248 TTGCCGTTTC
*
893258 CCGTCCCCGTATCCGTCCCCGTAT
1 CCGTCCCCGTATCCGTACCCGTAT
*
893282 CCGTCCCCGTATCCGTATCCGT
1 CCGTCCCCGTATCCGTACCCGT
893304 GCAACATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.09, C:0.48, G:0.17, T:0.26
Consensus pattern (24 bp):
CCGTCCCCGTATCCGTACCCGTAT
Found at i:894034 original size:17 final size:18
Alignment explanation
Indices: 894004--894037 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
893994 TCAGTTCCTC
*
894004 ATAATAAATTTACTTTAT
1 ATAATAAATATACTTTAT
894022 ATAA-AAATATACTTTA
1 ATAATAAATATACTTTA
894038 AGAATAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATAAATATACTTTAT
Found at i:895053 original size:13 final size:13
Alignment explanation
Indices: 895035--895065 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
895025 AATGTAAAAC
895035 GCGGCTAATAATT
1 GCGGCTAATAATT
895048 GCGGCTAATAATT
1 GCGGCTAATAATT
895061 GCGGC
1 GCGGC
895066 GTTTGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (13 bp):
GCGGCTAATAATT
Found at i:899490 original size:22 final size:22
Alignment explanation
Indices: 899462--899506 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
899452 TATGGTATGA
899462 TTTTGAGATGCAAGTGTTCTAG
1 TTTTGAGATGCAAGTGTTCTAG
899484 TTTTGAGATGCAAGTGTTCTAG
1 TTTTGAGATGCAAGTGTTCTAG
899506 T
1 T
899507 GAGATTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.27, T:0.42
Consensus pattern (22 bp):
TTTTGAGATGCAAGTGTTCTAG
Found at i:899760 original size:20 final size:22
Alignment explanation
Indices: 899716--899766 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
899706 CAAGGATCAT
**
899716 TATCGATACTGATTGAGGGAGG
1 TATCGATACTGAAAGAGGGAGG
899738 TATCGATACTGAAAG-GGGA-G
1 TATCGATACTGAAAGAGGGAGG
899758 TATCGATAC
1 TATCGATAC
899767 CAAGAGTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 10 0.37
21 4 0.15
22 13 0.48
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.25
Consensus pattern (22 bp):
TATCGATACTGAAAGAGGGAGG
Found at i:900466 original size:21 final size:23
Alignment explanation
Indices: 900417--900471 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
900407 TCGAGGGTTT
*
900417 TATGTGGTTATTCGGGACAAAAC
1 TATGTGGTCATTCGGGACAAAAC
*
900440 TATGTGGTCCTTCGGGAC-AAA-
1 TATGTGGTCATTCGGGACAAAAC
900461 TATGTGG-CATT
1 TATGTGGTCATT
900472 TTGGTGCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.10
21 7 0.24
22 3 0.10
23 16 0.55
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (23 bp):
TATGTGGTCATTCGGGACAAAAC
Found at i:900845 original size:7 final size:7
Alignment explanation
Indices: 900833--900857 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
900823 TGTAGGTTTC
900833 TTGTAAA
1 TTGTAAA
900840 TTGTAAA
1 TTGTAAA
900847 TTGTAAA
1 TTGTAAA
900854 TTGT
1 TTGT
900858 TAACATGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (7 bp):
TTGTAAA
Found at i:906380 original size:16 final size:16
Alignment explanation
Indices: 906361--906443 Score: 80
Period size: 16 Copynumber: 5.2 Consensus size: 16
906351 ATTATATTTT
906361 AACCGAAATCAACCCG
1 AACCGAAATCAACCCG
* * *
906377 AACCGAAAACAATCCA
1 AACCGAAATCAACCCG
*
906393 AACCGAAAACAACCCG
1 AACCGAAATCAACCCG
* *
906409 AAACGAAAGT-AA-CCA
1 AACCGAAA-TCAACCCG
*
906424 AACCGAAATCAATCCG
1 AACCGAAATCAACCCG
906440 AACC
1 AACC
906444 AAAAAATCTA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 1 0.02
15 11 0.20
16 42 0.78
ACGTcount: A:0.51, C:0.33, G:0.11, T:0.06
Consensus pattern (16 bp):
AACCGAAATCAACCCG
Found at i:906397 original size:32 final size:31
Alignment explanation
Indices: 906361--906451 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 31
906351 ATTATATTTT
906361 AACCGAAATCAACCCGAACCGAAAACAATCCA
1 AACCGAAATCAACCCGAACCGAAAA-AATCCA
* * *
906393 AACCGAAAACAACCCGAAACGAAAGTAA-CCA
1 AACCGAAATCAACCCGAACCGAAA-AAATCCA
*
906424 AACCGAAATCAATCCGAACC-AAAAAATC
1 AACCGAAATCAACCCGAACCGAAAAAATC
906452 TAACCCGTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 2 0.04
30 4 0.08
31 20 0.40
32 24 0.48
ACGTcount: A:0.53, C:0.31, G:0.10, T:0.07
Consensus pattern (31 bp):
AACCGAAATCAACCCGAACCGAAAAAATCCA
Found at i:906535 original size:3 final size:3
Alignment explanation
Indices: 906527--906563 Score: 56
Period size: 3 Copynumber: 11.7 Consensus size: 3
906517 ATTTATTTCT
906527 TTA TTA TTAA TTA TTA TTA TTA TTA TTA TTA TCTA TT
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TT
906564 TTTACTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 26 0.81
4 6 0.19
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:907116 original size:46 final size:46
Alignment explanation
Indices: 907062--907177 Score: 153
Period size: 46 Copynumber: 2.5 Consensus size: 46
907052 CCAAAGTTGA
* *
907062 CTGAATTGAACTAAAAATCTAAAGGTTGATCTGAACCAAAATCAAC
1 CTGAATTGAACTGAAAATCTAAAGGTTGATCTGAACCAAAACCAAC
*
907108 CTGAATTG-ACTTGAAAATCTAAAGGTTGATCTGAACCGAAACCAAC
1 CTGAATTGAAC-TGAAAATCTAAAGGTTGATCTGAACCAAAACCAAC
** * *
907154 CAAAATTGACCCGAAAATCTAAAG
1 CTGAATTGAACTGAAAATCTAAAG
907178 CTTGGGCCGA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
45 2 0.03
46 58 0.95
47 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (46 bp):
CTGAATTGAACTGAAAATCTAAAGGTTGATCTGAACCAAAACCAAC
Found at i:907190 original size:46 final size:46
Alignment explanation
Indices: 907075--907199 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 46
907065 AATTGAACTA
* * ** **
907075 AAAATCTAAAGGTTGATCTGAACCAAAATCAACCTGAATTGACTTG
1 AAAATCTAAAGGTTGATCTGAACCGAAACCAACCAAAATTGACCCG
907121 AAAATCTAAAGGTTGATCTGAACCGAAACCAACCAAAATTGACCCG
1 AAAATCTAAAGGTTGATCTGAACCGAAACCAACCAAAATTGACCCG
* ** *
907167 AAAATCTAAAGCTTGGGCCGAACCGAAACCAAC
1 AAAATCTAAAGGTTGATCTGAACCGAAACCAAC
907200 TGATCCGATA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.19
Consensus pattern (46 bp):
AAAATCTAAAGGTTGATCTGAACCGAAACCAACCAAAATTGACCCG
Found at i:907237 original size:32 final size:32
Alignment explanation
Indices: 907192--907278 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
907182 GGCCGAACCG
* *
907192 AAACCAACTGATCCGATATTGACCCGACTAGA
1 AAACCAACCGATCCGATATTGACCCAACTAGA
* * *
907224 GAACCAACCGATCCGAGATTAACCCAACTAGA
1 AAACCAACCGATCCGATATTGACCCAACTAGA
*
907256 AAATCAACCGA-CCTGAT-TTGACC
1 AAACCAACCGATCC-GATATTGACC
907279 GACCCGAACT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
31 7 0.16
32 38 0.84
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.17
Consensus pattern (32 bp):
AAACCAACCGATCCGATATTGACCCAACTAGA
Found at i:908811 original size:22 final size:21
Alignment explanation
Indices: 908759--908803 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
908749 TTAACTTATT
*
908759 AAAATTTTAATTAAATCTTCA
1 AAAATTTCAATTAAATCTTCA
*
908780 AAAATATTCAATTAAGTCTTCA
1 AAAAT-TTCAATTAAATCTTCA
908802 AA
1 AA
908804 CTATTTCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAATTTCAATTAAATCTTCA
Found at i:913242 original size:27 final size:27
Alignment explanation
Indices: 913179--913267 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 27
913169 CTCTTTGGGT
*
913179 TTGGGCCTCCGGGTCCTTGTAAATCAA
1 TTGGGCCTCCGGGTACTTGTAAATCAA
* * *
913206 TTGAGTCTCCGGGTTCTTGTAAATCAA
1 TTGGGCCTCCGGGTACTTGTAAATCAA
913233 TTGGGCCTCC---TAACTTGTAAATCAA
1 TTGGGCCTCCGGGT-ACTTGTAAATCAA
*
913258 TAGGGCCTCC
1 TTGGGCCTCC
913268 AAACTTGTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
24 1 0.02
25 21 0.39
27 32 0.59
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.31
Consensus pattern (27 bp):
TTGGGCCTCCGGGTACTTGTAAATCAA
Found at i:913255 original size:25 final size:25
Alignment explanation
Indices: 913221--913277 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
913211 TCTCCGGGTT
* *
913221 CTTGTAAATCAATTGGGCCTCCTAA
1 CTTGTAAATCAATAGGGCCTCCAAA
913246 CTTGTAAATCAATAGGGCCTCCAAA
1 CTTGTAAATCAATAGGGCCTCCAAA
913271 CTTGTAA
1 CTTGTAA
913278 TCGAGCCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (25 bp):
CTTGTAAATCAATAGGGCCTCCAAA
Found at i:913375 original size:16 final size:16
Alignment explanation
Indices: 913350--913381 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
913340 TAATAAGAAT
*
913350 AATAATAGTAATAATA
1 AATAAAAGTAATAATA
913366 AATAAAAGTAATAATA
1 AATAAAAGTAATAATA
913382 GTAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AATAAAAGTAATAATA
Found at i:913407 original size:3 final size:3
Alignment explanation
Indices: 913340--913395 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
913330 TGTAATAATT
* * *
913340 TAA TAA GAA TAA TAA TAG TAA TAA TAAA TAA -AA GTAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA -TAA TAA TAA TAA
913386 TAA TAA TAA T
1 TAA TAA TAA T
913396 GTACTAATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 37 0.84
4 5 0.11
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:914196 original size:29 final size:30
Alignment explanation
Indices: 914164--914229 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
914154 TATGAAGAAC
914164 AAAAAT-TTATAAAAAATCATTAAAAATTT
1 AAAAATGTTATAAAAAATCATTAAAAATTT
* *
914193 -AAAATGTTCTAAAAAATCATTAAAACTTT
1 AAAAATGTTATAAAAAATCATTAAAAATTT
914222 -AAAATGTT
1 AAAAATGTT
914230 CACCATAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 5 0.15
29 29 0.85
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAAATGTTATAAAAAATCATTAAAAATTT
Found at i:917293 original size:20 final size:21
Alignment explanation
Indices: 917268--917313 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
917258 CCTTACAGTG
* *
917268 TCAATAAC-TTCTCTATAGTA
1 TCAATAACATTCTCTACAATA
917288 TCAAT-ACATTCTCTACAATA
1 TCAATAACATTCTCTACAATA
917308 TCAATA
1 TCAATA
917314 CCCTTCCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (21 bp):
TCAATAACATTCTCTACAATA
Found at i:920752 original size:24 final size:24
Alignment explanation
Indices: 920725--920798 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
920715 AAAACAATTA
920725 AGGGAATTATCTTTTGTGATTTTT
1 AGGGAATTATCTTTTGTGATTTTT
* *
920749 AGGGAATTATCTTTTATAATTTTT
1 AGGGAATTATCTTTTGTGATTTTT
*
920773 A-GGAATTA--TTTTGAGCATTTTT
1 AGGGAATTATCTTTTGTG-ATTTTT
920795 AGGG
1 AGGG
920799 TTTTAGGATG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.09
22 7 0.16
23 9 0.21
24 23 0.53
ACGTcount: A:0.26, C:0.04, G:0.20, T:0.50
Consensus pattern (24 bp):
AGGGAATTATCTTTTGTGATTTTT
Found at i:934615 original size:20 final size:21
Alignment explanation
Indices: 934571--934617 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
934561 ATTTACGTAT
934571 TTTTATATTTTTTATTAATAA
1 TTTTATATTTTTTATTAATAA
*
934592 -TTTATTTTTATTTA-TAA-AA
1 TTTTATATTT-TTTATTAATAA
934611 TTTTATA
1 TTTTATA
934618 AATTCAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.09
20 16 0.73
21 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTATATTTTTTATTAATAA
Found at i:938877 original size:22 final size:22
Alignment explanation
Indices: 938852--938894 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
938842 CATAACTTTT
938852 TATTTTGATTAAATTTAATATA
1 TATTTTGATTAAATTTAATATA
*
938874 TATTTTTATTAAATTTAATAT
1 TATTTTGATTAAATTTAATAT
938895 GTTATTGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TATTTTGATTAAATTTAATATA
Found at i:943316 original size:139 final size:138
Alignment explanation
Indices: 943135--943398 Score: 438
Period size: 139 Copynumber: 1.9 Consensus size: 138
943125 GTTACAAAAC
* *
943135 TTGTCACTATATAACATTTTTGCACCAAAAACTAGGGAGAAATATTTCTGATAGTATAAGTTTTC
1 TTGTCACTATATAACATTTTTGCACCAAAAAATAGGGAGAAATAGTTCTGATAGTATAAGTTTTC
943200 ATAATGATTAAAATATATAACTACAAAAATAATTAATTACAAAAAACTTAAATTTTATTAATTAC
66 ATAATGATTAAAATATATAACTACAAAAATAATTAATTACAAAAAACTTAAATTTTATTAATTAC
943265 AATATATT
131 AATATATT
* * * *
943273 TTGTTACTATATAACATTTTTGACACTAAAAAATAGGGAGAAATGGTTCTGATAGTATAATTTTT
1 TTGTCACTATATAACATTTTTG-CACCAAAAAATAGGGAGAAATAGTTCTGATAGTATAAGTTTT
* * *
943338 CATAATGATTAAAATATATAAGTACAAAAATAATTTATTACAAAAAACTTGAATTTTATTA
65 CATAATGATTAAAATATATAACTACAAAAATAATTAATTACAAAAAACTTAAATTTTATTA
943399 TTTGATGTGA
Statistics
Matches: 116, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
138 21 0.18
139 95 0.82
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (138 bp):
TTGTCACTATATAACATTTTTGCACCAAAAAATAGGGAGAAATAGTTCTGATAGTATAAGTTTTC
ATAATGATTAAAATATATAACTACAAAAATAATTAATTACAAAAAACTTAAATTTTATTAATTAC
AATATATT
Found at i:943706 original size:181 final size:177
Alignment explanation
Indices: 943518--944052 Score: 484
Period size: 181 Copynumber: 3.0 Consensus size: 177
943508 AATATATGCT
* * * * *
943518 ATCACTATAGTTAAAATTTATAATTACAAATATAATTTGTCACAAAAACGTGAATATCATTATTT
1 ATCACTATAATTAAAATATATAATTACAAACATAATTTATCACAAAAAC-TGAATCTCATTATTT
* * *
943583 TTTGTGACAATATTTTTTGTAATAATTATTAACACTTATAGTTACAAAATTTGTCACTATATGAC
65 GTTGTGAAAAT-TTTTTTGTAATAATTATTAA-ACTTATAGTTACAAAACTTGTCACTATATGAC
* *
943648 TTTTTTGGCGCAAAAAAAATATGGAGGGAAATATTTGTGACAATATATTTC
128 TTTTTTGGCGCACAAAAAAT-TGGAGGGAAATATTTGTGACAATACATTTC
* ** * ** * * *
943699 GTCACTATAATTAAAATATATAACGAAAAACATTGTTTTTTACTAAAAAATTGAATCTCATTATT
1 ATCACTATAATTAAAATATATAATTACAAACATAATTTATCAC--AAAAACTGAATCTCATTATT
* * * * * *
943764 TGTTGTGATAATTTTTCTGTAACAATAATTATAGCTTATAGTTACAAAACATGTCACTATATGA-
64 TGTTGTGAAAATTTTTTTGTAATAATTATTA-AACTTATAGTTACAAAACTTGTCACTATATGAC
*** * * * * *
943828 TTTTGTTTTTGTACCAAAAATTGGA--GATGATCATTTGTGACTATACATTTT
128 TTTT-TTGGCGCACAAAAAATTGGAGGGA-AAT-ATTTGTGACAATACATTTC
* * * *
943879 ATCACTATATTTAAAATATATAATTACAAAGAAAATTTATCACAACAAATCTAAATCTCATTATT
1 ATCACTATAATTAAAATATATAATTACAAACATAATTTATCACAA-AAA-CTGAATCTCATTATT
* * * * * *
943944 TGTTGTGAAAATTTTTTCTGTCATAGTTACTAAAACTTTTAGTTACAAAAGTTGTCACTATATGC
64 TGTTGTGAAAATTTTTT-TGTAATAATTA-TTAAACTTATAGTTACAAAACTTGTCACTATATGA
* * *
944009 CTTCAATTTGGCGC-CAAAAAATTGGAGGGAAACATTTGTAACAA
127 CTT--TTTTGGCGCACAAAAAATTGGAGGGAAATATTTGTGACAA
944053 AAATTCGTAA
Statistics
Matches: 273, Mismatches: 66, Indels: 29
0.74 0.18 0.08
Matches are distributed among these distances:
178 4 0.01
179 5 0.02
180 84 0.31
181 120 0.44
182 48 0.18
183 9 0.03
184 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (177 bp):
ATCACTATAATTAAAATATATAATTACAAACATAATTTATCACAAAAACTGAATCTCATTATTTG
TTGTGAAAATTTTTTTGTAATAATTATTAAACTTATAGTTACAAAACTTGTCACTATATGACTTT
TTTGGCGCACAAAAAATTGGAGGGAAATATTTGTGACAATACATTTC
Found at i:943938 original size:180 final size:179
Alignment explanation
Indices: 943345--944052 Score: 442
Period size: 181 Copynumber: 3.9 Consensus size: 179
943335 TTTCATAATG
* * * * * * * *
943345 ATTAAAATATATAAGTACAAAAATAATTTATTACAAAAAACTTGAATTTTATTATTTGATGTGAT
1 ATTAAAATATATAATTACAAACATAATTTATCACAAAAATC-TGAATCTCATTATTTGTTGTGAA
* * * * *
943410 AATTTTTCTATAACAATAACTATAA-A-TTATAATTATAAAA-ATTGTTA--ATATAAC--TTTT
65 AATTTTTCTGTAACAATAA-T-TAACACTTATAGTTACAAAACA-TGTCACTATATGACTTTTTT
*** * * * * *
943468 GAAACAAAAAAAAAAGTAGAGAAAAATAGTTATGACAATTA-ATATATGCTATCACTATA
127 GGCGCAAAAAAAATA-TGGAG-GAAATATTTGTGACAA-TACAT-T-T--TATCACTATA
* * * * * *
943527 GTTAAAATTTATAATTACAAATATAATTTGTCACAAAAA-CGTGAATATCATTATTTTTTGTGAC
1 ATTAAAATATATAATTACAAACATAATTTATCACAAAAATC-TGAATCTCATTATTTGTTGTGA-
* * **
943591 AATATTTTT-TGTAATAATTATTAACACTTATAGTTACAAAATTTGTCACTATATGACTTTTTTG
64 AA-ATTTTTCTGTAACAATAATTAACACTTATAGTTACAAAACATGTCACTATATGACTTTTTTG
* **
943655 GCGCAAAAAAAATATGGAGGGAAATATTTGTGACAATATATTTCGTCACTATA
128 GCGCAAAAAAAATATGGA-GGAAATATTTGTGACAATACATTTTATCACTATA
** * ** * *
943708 ATTAAAATATATAACGAAAAACATTGTTTTTTACTAAAAAAT-TGAATCTCATTATTTGTTGTGA
1 ATTAAAATATATAATTACAAACATAATTTATCAC--AAAAATCTGAATCTCATTATTTGTTGTGA
* *
943772 TAATTTTTCTGTAACAATAATTATA-GCTTATAGTTACAAAACATGTCACTATATGA-TTTTGTT
64 AAATTTTTCTGTAACAATAATTA-ACACTTATAGTTACAAAACATGTCACTATATGACTTTT-TT
*** * ** * *
943835 TTTGTACCAAAAAT-TGGA-GATGATCATTTGTGACTATACATTTTATCACTATA
127 GGCGCAAAAAAAATATGGAGGA-AAT-ATTTGTGACAATACATTTTATCACTATA
* * * *
943888 TTTAAAATATATAATTACAAAGAAAATTTATCACAACAAATCTAAATCTCATTATTTGTTGTGAA
1 ATTAAAATATATAATTACAAACATAATTTATCACAA-AAATCTGAATCTCATTATTTGTTGTGAA
* * * * * * * ** * *
943953 AATTTTTTCTGTCATAGTTACTAAAACTTTTAGTTACAAAAGTTGTCACTATATGCCTTCAATTT
65 AA-TTTTTCTGTAACAATAATTAACACTTATAGTTACAAAACATGTCACTATATGACTT--TTTT
* * *
944018 GGCGC-CAAAAAAT-TGGAGGGAAACATTTGTAACAA
127 GGCGCAAAAAAAATATGGA-GGAAATATTTGTGACAA
944053 AAATTCGTAA
Statistics
Matches: 407, Mismatches: 91, Indels: 56
0.73 0.16 0.10
Matches are distributed among these distances:
178 4 0.01
179 6 0.01
180 89 0.22
181 145 0.36
182 101 0.25
183 16 0.04
184 12 0.03
185 18 0.04
186 16 0.04
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (179 bp):
ATTAAAATATATAATTACAAACATAATTTATCACAAAAATCTGAATCTCATTATTTGTTGTGAAA
ATTTTTCTGTAACAATAATTAACACTTATAGTTACAAAACATGTCACTATATGACTTTTTTGGCG
CAAAAAAAATATGGAGGAAATATTTGTGACAATACATTTTATCACTATA
Found at i:944225 original size:15 final size:15
Alignment explanation
Indices: 944202--944234 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
944192 AAAAAGCTAC
944202 TAATATTGACAAAAT
1 TAATATTGACAAAAT
*
944217 TAATTTTGACAAAAT
1 TAATATTGACAAAAT
944232 TAA
1 TAA
944235 ATTTATCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (15 bp):
TAATATTGACAAAAT
Found at i:945415 original size:48 final size:48
Alignment explanation
Indices: 945363--945459 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
945353 GACACGTGAC
945363 ACCATCGGATAAAAGAAAAATAAATTGATTTAAATTGTGCTTTTTGTG
1 ACCATCGGATAAAAGAAAAATAAATTGATTTAAATTGTGCTTTTTGTG
945411 ACCATCGGATAAAAGAAAAATAAATTGATTTAAATTGTGCTTTTTGTG
1 ACCATCGGATAAAAGAAAAATAAATTGATTTAAATTGTGCTTTTTGTG
945459 A
1 A
945460 GGTTCAATCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.35
Consensus pattern (48 bp):
ACCATCGGATAAAAGAAAAATAAATTGATTTAAATTGTGCTTTTTGTG
Found at i:954222 original size:39 final size:39
Alignment explanation
Indices: 954179--954297 Score: 111
Period size: 39 Copynumber: 3.1 Consensus size: 39
954169 TTTAAACAAT
* *
954179 AATTTAGAATATTAATGTGAAATAATTTAAGGAATTAAA
1 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAA
* * **
954218 AATTTAGAATGTT-ATGGTAGCAA-AATTTAATAAATTATG
1 AATTTAGAATGTTAAT-GT-GAAATAATTTAAGAAATTAAA
* *
954257 AATTTAGAATGTTAGA-GTGAAATAATTTGA-AAATTATA
1 AATTTAGAATGTTA-ATGTGAAATAATTTAAGAAATTAAA
954295 AAT
1 AAT
954298 AAAAATTAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
38 15 0.23
39 47 0.71
40 3 0.05
41 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.14, T:0.37
Consensus pattern (39 bp):
AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAA
Found at i:954721 original size:14 final size:14
Alignment explanation
Indices: 954704--954751 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
954694 ATATTATTTA
954704 AAATATAATACTGT
1 AAATATAATACTGT
** *
954718 AAATAT-ATTTTAT
1 AAATATAATACTGT
954731 AAATATAATACTGT
1 AAATATAATACTGT
954745 AAATATA
1 AAATATA
954752 TTTTATAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (14 bp):
AAATATAATACTGT
Found at i:954735 original size:13 final size:13
Alignment explanation
Indices: 954717--954759 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
954707 TATAATACTG
954717 TAAATATATTTTA
1 TAAATATATTTTA
** *
954730 TAAATATAATACTG
1 TAAATAT-ATTTTA
954744 TAAATATATTTTA
1 TAAATATATTTTA
954757 TAA
1 TAA
954760 TTTTAGATTG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (13 bp):
TAAATATATTTTA
Found at i:954740 original size:27 final size:27
Alignment explanation
Indices: 954700--954759 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
954690 AACTATATTA
954700 TTTA-AAATATAATACTGTAAATATAT
1 TTTATAAATATAATACTGTAAATATAT
954726 TTTATAAATATAATACTGTAAATATAT
1 TTTATAAATATAATACTGTAAATATAT
954753 TTTATAA
1 TTTATAA
954760 TTTTAGATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (27 bp):
TTTATAAATATAATACTGTAAATATAT
Found at i:958863 original size:3 final size:3
Alignment explanation
Indices: 958855--958916 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
958845 CAAAATATGT
*
958855 ATA ATA ATA AGTA A-A ATA ATA ATA ATA AT- ATT ATA AT- ATA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
958898 GTT ATA ATA ATA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA AT
958917 TTTAATATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
2 8 0.16
3 38 0.78
4 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:958872 original size:9 final size:9
Alignment explanation
Indices: 958855--958916 Score: 60
Period size: 8 Copynumber: 7.2 Consensus size: 9
958845 CAAAATATGT
958855 ATAATAATA
1 ATAATAATA
958864 AGTAA-AATA
1 A-TAATAATA
958873 ATAATAATA
1 ATAATAATA
*
958882 AT-ATTATA
1 ATAATAATA
958890 AT-ATAATA
1 ATAATAATA
* *
958898 GTTATAATA
1 ATAATAATA
958907 ATAAT-ATA
1 ATAATAATA
958915 AT
1 AT
958917 TTTAATATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
8 21 0.47
9 21 0.47
10 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (9 bp):
ATAATAATA
Found at i:958907 original size:31 final size:31
Alignment explanation
Indices: 958870--958935 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
958860 AATAAGTAAA
958870 ATAATAATAATA-ATATTATAATATAATAGTT
1 ATAATAATAATATA-ATTATAATATAATAGTT
* *
958901 ATAATAATAATATAATTTTAATATAATATTT
1 ATAATAATAATATAATTATAATATAATAGTT
958932 ATAA
1 ATAA
958936 CCCGGACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (31 bp):
ATAATAATAATATAATTATAATATAATAGTT
Found at i:960541 original size:24 final size:23
Alignment explanation
Indices: 960509--960570 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 23
960499 TGTTGAGACC
960509 GATGATGACGATGAAGACAACGAA
1 GATGATGACGATGAAGACAACG-A
*
960533 GATGATGACGATGATGACAACGA
1 GATGATGACGATGAAGACAACGA
960556 GAATGATGACGATGA
1 G-ATGATGACGATGA
960571 GGAGGAGGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 2 0.06
24 34 0.94
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.16
Consensus pattern (23 bp):
GATGATGACGATGAAGACAACGA
Found at i:963092 original size:31 final size:31
Alignment explanation
Indices: 962971--963080 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
962961 AGGGTCGAGG
962971 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
963002 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
963033 GTTTACCTATATTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
963064 GATTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
963081 AGAATCTATG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:963601 original size:21 final size:21
Alignment explanation
Indices: 963576--963618 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
963566 AAAGAATATA
963576 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
963597 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
963618 T
1 T
963619 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:967378 original size:31 final size:31
Alignment explanation
Indices: 967340--967405 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
967330 AGGGTCGAGG
967340 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
967371 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
967402 GTTT
1 GTTT
967406 TCGGGACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:967431 original size:47 final size:50
Alignment explanation
Indices: 967349--967452 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 50
967339 GGTTTACCTA
967349 TGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGAC
1 TGTT-TTCGGGACATATGGA-TGTTTACCTATGTTCTTCGGGACATATGGAC
967401 TGTTTTCGGGACATAT-G-T-TTTACCTATGTTCTTCGGGACATATGGAC
1 TGTTTTCGGGACATATGGATGTTTACCTATGTTCTTCGGGACATATGGAC
967448 TGTTT
1 TGTTT
967453 ACTATGTTCT
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
47 34 0.65
48 1 0.02
50 1 0.02
51 12 0.23
52 4 0.08
ACGTcount: A:0.18, C:0.17, G:0.24, T:0.40
Consensus pattern (50 bp):
TGTTTTCGGGACATATGGATGTTTACCTATGTTCTTCGGGACATATGGAC
Found at i:967460 original size:30 final size:31
Alignment explanation
Indices: 967401--967495 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 31
967391 ACATATGGAC
967401 TGTT-TTCGGGACATAT-G--T-TTTACCTA
1 TGTTCTTCGGGACATATGGACTGTTTACCTA
967427 TGTTCTTCGGGACATATGGACTGTTTA-CTA
1 TGTTCTTCGGGACATATGGACTGTTTACCTA
*
967457 TGTTCTTCGGGACATATGGACTGATTACCTA
1 TGTTCTTCGGGACATATGGACTGTTTACCTA
*
967488 GGTTCTTC
1 TGTTCTTC
967496 AGAATCTATG
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.07
27 12 0.20
28 1 0.02
30 30 0.49
31 14 0.23
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (31 bp):
TGTTCTTCGGGACATATGGACTGTTTACCTA
Found at i:967506 original size:31 final size:30
Alignment explanation
Indices: 967428--967510 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
967418 TTTTACCTAT
* * * *
967428 GTTCTTCGGGACATATGGACTGTTTACTAT
1 GTTCTTCAGAACATATGGACTGATTACTAG
* *
967458 GTTCTTCGGGACATATGGACTGATTACCTAG
1 GTTCTTCAGAACATATGGACTGATTA-CTAG
967489 GTTCTTCAGAATC-TATGGACTG
1 GTTCTTCAGAA-CATATGGACTG
967511 GTCCTTTGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
30 25 0.53
31 21 0.45
32 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (30 bp):
GTTCTTCAGAACATATGGACTGATTACTAG
Found at i:968016 original size:21 final size:21
Alignment explanation
Indices: 967991--968033 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
967981 AAAGAATATA
967991 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
968012 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
968033 T
1 T
968034 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:968493 original size:26 final size:27
Alignment explanation
Indices: 968446--968500 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
968436 TTTGGTATTC
*
968446 TTAATTTCATGATTAATAGTTTATTGT
1 TTAATTTAATGATTAATAGTTTATTGT
* * *
968473 TTAATTTAATG-TTCATGGTTTGTTGT
1 TTAATTTAATGATTAATAGTTTATTGT
968499 TT
1 TT
968501 TCATAGTCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.15, T:0.58
Consensus pattern (27 bp):
TTAATTTAATGATTAATAGTTTATTGT
Found at i:969469 original size:83 final size:82
Alignment explanation
Indices: 969369--969784 Score: 381
Period size: 83 Copynumber: 5.0 Consensus size: 82
969359 AATAGTAATT
* * *
969369 CATCTCATCTGAAATGAAAGGTGTGTTTCGAGAGAAGTGTTTTCCATTATTATTTAGAGAATCTC
1 CATCTCATCTGAAATGAAAGGTGTATTTCG-GAGAAATGTTTTCCATTATTATTCAGAGAATCTC
*
969434 TTCCATGTCAGAGTGTTT
65 TTCCATGTCAGAGTGTTC
* * * * *
969452 CATCCCATCTGAAATGAAAGGTGCATTTTGGGGAAATCGTTTTCCATTATTATTCAAAGAATCTC
1 CATCTCATCTGAAATGAAAGGTGTATTTCGGAGAAAT-GTTTTCCATTATTATTCAGAGAATCTC
* *
969517 TTCCATGTCAAAGTGTTA
65 TTCCATGTCAGAGTGTTC
* * *** ** * *
969535 CATCCCATCTAAAATGAAAGACATATTTCAGG-GAAAACATTTTCTATTATTATTCAGAGAATTT
1 CATCTCATCTGAAATGAAAGGTGTATTTC-GGAG-AAATGTTTTCCATTATTATTCAGAGAATCT
* *
969599 ATGCCATGTCAGAGTGTTC
64 CTTCCATGTCAGAGTGTTC
* * * * *
969618 CATCTCATTTGAAATGAAAGGCGCATTTTGGGGAAA-GCATTTTCCATTATTATTCAGAGAATCT
1 CATCTCATCTGAAATGAAAGGTGTATTTCGGAGAAATG--TTTTCCATTATTATTCAGAGAATCT
* *
969682 CTAT-TATGTTAGAGTGTTC
64 CT-TCCATGTCAGAGTGTTC
* * * * * * * *
969701 CATCTCATTTGAAATGAAAAGTGAATTTCGGTGAAAATGTTTTTCATTATTATTTAGAGAATATA
1 CATCTCATCTGAAATGAAAGGTGTATTTCGGAG-AAATGTTTTCCATTATTATTCAGAGAATCTC
*
969766 TGT-CATGTCAAAGTGTTC
65 T-TCCATGTCAGAGTGTTC
969784 C
1 C
969785 GTTAACATAT
Statistics
Matches: 272, Mismatches: 52, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
82 10 0.04
83 253 0.93
84 8 0.03
85 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (82 bp):
CATCTCATCTGAAATGAAAGGTGTATTTCGGAGAAATGTTTTCCATTATTATTCAGAGAATCTCT
TCCATGTCAGAGTGTTC
Found at i:969718 original size:166 final size:166
Alignment explanation
Indices: 969408--969784 Score: 456
Period size: 166 Copynumber: 2.3 Consensus size: 166
969398 GAGAGAAGTG
* * * * *
969408 TTTTCCATTATTATTTAGAGAATCTCTTCCATGTCAGAGTGTTTCATCCCATCTGAAATGAAAGG
1 TTTTCTATTATTATTTAGAGAATATATGCCATGTCAGAGTGTTCCATCCCATCTGAAATGAAAGG
* * *
969473 TGCATTTTGGGGAAATCGTTTTCCATTATTATTCAAAGAATCTCTTCCATGTCAAAGTGTTACAT
66 CGCATTTTGGGGAAAGCATTTTCCATTATTATTCAAAGAATCTCTTCCATGTCAAAGTGTTACAT
969538 CCCATCTAAAATG-AAAGACATATTTCAGG-GAAAACA
131 CCCATCTAAAATGAAAAGACA-ATTTC-GGTGAAAACA
* * * *
969574 TTTTCTATTATTATTCAGAGAATTTATGCCATGTCAGAGTGTTCCATCTCATTTGAAATGAAAGG
1 TTTTCTATTATTATTTAGAGAATATATGCCATGTCAGAGTGTTCCATCCCATCTGAAATGAAAGG
* * * * *
969639 CGCATTTTGGGGAAAGCATTTTCCATTATTATTCAGAGAATCTCTAT-TATGTTAGAGTGTTCCA
66 CGCATTTTGGGGAAAGCATTTTCCATTATTATTCAAAGAATCTCT-TCCATGTCAAAGTGTTACA
* * * ** **
969703 TCTCATTTGAAATGAAAAGTGAATTTCGGTGAAAATG
130 TCCCATCTAAAATGAAAAGACAATTTCGGTGAAAACA
* *
969740 TTTT-TCATTATTATTTAGAGAATATATGTCATGTCAAAGTGTTCC
1 TTTTCT-ATTATTATTTAGAGAATATATGCCATGTCAGAGTGTTCC
969785 GTTAACATAT
Statistics
Matches: 180, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
165 3 0.02
166 171 0.95
167 6 0.03
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (166 bp):
TTTTCTATTATTATTTAGAGAATATATGCCATGTCAGAGTGTTCCATCCCATCTGAAATGAAAGG
CGCATTTTGGGGAAAGCATTTTCCATTATTATTCAAAGAATCTCTTCCATGTCAAAGTGTTACAT
CCCATCTAAAATGAAAAGACAATTTCGGTGAAAACA
Found at i:972450 original size:462 final size:459
Alignment explanation
Indices: 971589--972508 Score: 1714
Period size: 462 Copynumber: 2.0 Consensus size: 459
971579 TCAATGTTTG
971589 TAAGGAATATTAAGATCAAAATCCAATGCTTTCTTGGGGAGGTTGTCTTTGTTATCAACTCCAGC
1 TAAGGAATATTAAGATCAAAATCCAATGCTTTCTTGGGGAGGTTGTCTTTGTTATCAACTCCAGC
* *
971654 TTCATTTTTTTGGTCTTGCACTGTTAACTTACTGGTGGTGATCAATGCAGTCGCCACATTGTTGA
66 TTCATTTTTTGGGTCTTGCACTGTTAACGTACTGGTGGTGATCAATGCAGTCGCCACATTGTTGA
*
971719 TCCTTCCATGGCCGACCCCACTTATGAAATTGTCAGCGTTGCAAGCACTCCCAACTTCTTCTTCT
131 TCCTTCCAAGGCCGACCCCACTTATGAAATTGTCAGCGTTGCAAGCACTCCCAACTTCTTCTTCT
* * *
971784 TTGAAATTTCCTCTTTGTGGGGAATTCGTTTCCAAGATTTGTGATTCTTGTTGATTCTTTTCTGC
196 TTAAAATTTCCTCTTTGTGGGGAATCCGTTTCCAAGATTTGTGATTCATGTTGATTCTTTTCTGC
971849 AACTCCACTGATATGAAGCTTCTTGGCTTCTAGACCTCTCTTTCCGGTGACTAACCAGTTGGGTA
261 AACTCCACTGATATGAAGCTTCTTGGCTTCTAGACCTCTCTTTCCGGTGACTAACCAGTTGGGTA
971914 ATCCATCTAACAAGTTGATTACGTCAGGCTTTAGTTGAGGCCTGACACTGTTCCAGTTGTTATCT
326 ATCCATCTAACAAGTTGATTACGTCAGGCTTTAGTTGAGGCCTGACACTGTTCCAGTTGTTATCT
*
971979 TTCTTCATCTTGCGGGTGATCGGGAAAGGGCGATATTCATCGTCTCCGGCAGCATCTTGGGGCTT
391 TTCTTCATCTTGCGGGTGATCGGGAAAGGGCGATATTCATCGTCTCCGGCAGCATCTTGGAGCTT
972044 TTTA
456 TTTA
*
972048 TAAGGAATATTAAGATCAAAATCCAATGCTTTCTTGGGGAGGTTGTCTTTGTTATCAACTCCTGC
1 TAAGGAATATTAAGATCAAAATCCAATGCTTTCTTGGGGAGGTTGTCTTTGTTATCAACTCCAGC
972113 TTCATTTTTTGGGTCTTGCACTGTTAACGTACTGGTGGTGATCAATGCAGTCGCCACATTGTTGA
66 TTCATTTTTTGGGTCTTGCACTGTTAACGTACTGGTGGTGATCAATGCAGTCGCCACATTGTTGA
972178 TCCTTCCAAGGCCGACCCCACTTATGAAATTGTCAGCGTTGCAAGCACTCCCAACTTCTTCTTCT
131 TCCTTCCAAGGCCGACCCCACTTATGAAATTGTCAGCGTTGCAAGCACTCCCAA---CTTCTTCT
*
972243 TCTTTAAAATTTCCTCTTTGTGGGGAATCCGTTTCCAAGATTTGTGATTCATGTTGGTTCTTTTC
193 TCTTTAAAATTTCCTCTTTGTGGGGAATCCGTTTCCAAGATTTGTGATTCATGTTGATTCTTTTC
*
972308 TGCAACTCCACTGATATGAAGCTTCTTGGCTTCTCGACCTCTCTTTCCGGTGACTAACCAGTTGG
258 TGCAACTCCACTGATATGAAGCTTCTTGGCTTCTAGACCTCTCTTTCCGGTGACTAACCAGTTGG
972373 GTAATCCATCTAACAAGTTGATTACGTCAGGCTTTAGTTGAGGCCTGACACTGTTCCAGTTGTTA
323 GTAATCCATCTAACAAGTTGATTACGTCAGGCTTTAGTTGAGGCCTGACACTGTTCCAGTTGTTA
*
972438 TCTTTCTTCATCTTGCGGGTGATCGGGAAAGGGGGATATTCATCGTCTCCGGCAGCATCTTGGAG
388 TCTTTCTTCATCTTGCGGGTGATCGGGAAAGGGCGATATTCATCGTCTCCGGCAGCATCTTGGAG
972503 CTTTTT
453 CTTTTT
972509 GTGGACCCGA
Statistics
Matches: 447, Mismatches: 11, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
459 180 0.40
462 267 0.60
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (459 bp):
TAAGGAATATTAAGATCAAAATCCAATGCTTTCTTGGGGAGGTTGTCTTTGTTATCAACTCCAGC
TTCATTTTTTGGGTCTTGCACTGTTAACGTACTGGTGGTGATCAATGCAGTCGCCACATTGTTGA
TCCTTCCAAGGCCGACCCCACTTATGAAATTGTCAGCGTTGCAAGCACTCCCAACTTCTTCTTCT
TTAAAATTTCCTCTTTGTGGGGAATCCGTTTCCAAGATTTGTGATTCATGTTGATTCTTTTCTGC
AACTCCACTGATATGAAGCTTCTTGGCTTCTAGACCTCTCTTTCCGGTGACTAACCAGTTGGGTA
ATCCATCTAACAAGTTGATTACGTCAGGCTTTAGTTGAGGCCTGACACTGTTCCAGTTGTTATCT
TTCTTCATCTTGCGGGTGATCGGGAAAGGGCGATATTCATCGTCTCCGGCAGCATCTTGGAGCTT
TTTA
Found at i:977873 original size:20 final size:20
Alignment explanation
Indices: 977844--977884 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
977834 ATGGGTTCGA
**
977844 GTATCAATACTGGATGAACT
1 GTATCAATACCAGATGAACT
*
977864 GTATCGATACCAGATGAACT
1 GTATCAATACCAGATGAACT
977884 G
1 G
977885 GGACAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (20 bp):
GTATCAATACCAGATGAACT
Found at i:979809 original size:114 final size:113
Alignment explanation
Indices: 979670--980073 Score: 526
Period size: 114 Copynumber: 3.5 Consensus size: 113
979660 TACCCCAAAC
* *
979670 TTAACTATTTAAGTCATTTTATTTTCAGTGAAATATCACATAAAATCATAACTTCTTTCATAATG
1 TTAACTATTCAAGTCATTTTCTTTTCAGTGAAATATCACATAAAATCA-AACTTCTTTCATAATG
*
979735 AATGAAAAATCTTATCAGATACAATAATAATTTCAAATGATAAAGAACT
65 AATGAAAAATCTTATCAGATACAATAATAATTTCAAATGACAAAGAACT
* * * *
979784 TTAACTATTCAAGTCATTTTCTTTTCAATGAAATATCACATAAAATTAGAAATTCTTTCATACTG
1 TTAACTATTCAAGTCATTTTCTTTTCAGTGAAATATCACATAAAATCA-AACTTCTTTCATAATG
* * * *
979849 AATGAAAAATCTTTTCCGGTACAATAATAATTTCAAATGACAAAGAATT
65 AATGAAAAATCTTATCAGATACAATAATAATTTCAAATGACAAAGAACT
* * *
979898 TTAACTATTCAAGTTC-TTTTCTTTTCAGTGAAATATCACATCAAATCAAAACTTCTTTTATAGT
1 TTAACTATTCAAG-TCATTTTCTTTTCAGTGAAATATCACATAAAATC-AAACTTCTTTCATAAT
* * * *
979962 AAATGAAAAATCTTATCTA-ATATAATTATAATTTCAAATGACAGAGAATCT
64 GAATGAAAAATCTTATC-AGATACAATAATAATTTCAAATGACAAAGAA-CT
* * * *
980013 TT-ATTATACAAGTCCTTTTCTTTTCAGTGAAATATCACATCAAATCAATACTTCTTTCATA
1 TTAACTATTCAAGTCATTTTCTTTTCAGTGAAATATCACATAAAATCAA-ACTTCTTTCATA
980074 GTAATATAAT
Statistics
Matches: 255, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
113 4 0.02
114 245 0.96
115 6 0.02
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (113 bp):
TTAACTATTCAAGTCATTTTCTTTTCAGTGAAATATCACATAAAATCAAACTTCTTTCATAATGA
ATGAAAAATCTTATCAGATACAATAATAATTTCAAATGACAAAGAACT
Found at i:980757 original size:25 final size:25
Alignment explanation
Indices: 980729--980780 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
980719 ATTTACCATA
* *
980729 TTTATATTATGTTTTATTTATGAAG
1 TTTATATGATGTTTTATTTATCAAG
*
980754 TTTATGTGATGTTTTATTTATCAAG
1 TTTATATGATGTTTTATTTATCAAG
980779 TT
1 TT
980781 CATAATGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.60
Consensus pattern (25 bp):
TTTATATGATGTTTTATTTATCAAG
Found at i:981261 original size:17 final size:17
Alignment explanation
Indices: 981216--981261 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
981206 ATTATTTTTC
*
981216 TTAATAATTTTATAAAAA
1 TTAA-AATTTTCTAAAAA
*
981234 TTAAAATTTTCTAAAAT
1 TTAAAATTTTCTAAAAA
981251 TTAAAATTTTC
1 TTAAAATTTTC
981262 ATTTTCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAATTTTCTAAAAA
Found at i:985082 original size:31 final size:31
Alignment explanation
Indices: 985043--985113 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
985033 AATGACTTTA
985043 AAAC-TCAAAAAAAGTTCAATTTAATCCTCC
1 AAACTTCAAAAAAAGTTCAATTTAATCCTCC
* * *
985073 AAACTTCAAACAGAGTTCAATTTTATCCTCC
1 AAACTTCAAAAAAAGTTCAATTTAATCCTCC
985104 AAACTTCAAA
1 AAACTTCAAA
985114 TTTCTTTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.28
Consensus pattern (31 bp):
AAACTTCAAAAAAAGTTCAATTTAATCCTCC
Found at i:985125 original size:31 final size:31
Alignment explanation
Indices: 985055--985113 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
985045 ACTCAAAAAA
985055 AGTTCAATTTAATCCTCCAAACTTCAAACAG
1 AGTTCAATTTAATCCTCCAAACTTCAAACAG
*
985086 AGTTCAATTTTATCCTCCAAACTTCAAA
1 AGTTCAATTTAATCCTCCAAACTTCAAA
985114 TTTCTTTCAA
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:0.37, C:0.25, G:0.05, T:0.32
Consensus pattern (31 bp):
AGTTCAATTTAATCCTCCAAACTTCAAACAG
Found at i:985470 original size:2 final size:2
Alignment explanation
Indices: 985463--985514 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
985453 TTTTAATTTC
985463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
985505 AT AT AT AT AT
1 AT AT AT AT AT
985515 CATCATTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:986467 original size:29 final size:29
Alignment explanation
Indices: 986421--986482 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 29
986411 ATCTTATGTT
986421 GGGGGCGAACTTGAATTTATAAAATTCTA
1 GGGGGCGAACTTGAATTTATAAAATTCTA
*
986450 GGGGGTGAACTT-AGATTTATAAAATTCTA
1 GGGGGCGAACTTGA-ATTTATAAAATTCTA
986479 GGGG
1 GGGG
986483 CAAATTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (29 bp):
GGGGGCGAACTTGAATTTATAAAATTCTA
Found at i:987169 original size:21 final size:20
Alignment explanation
Indices: 987145--987201 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
987135 TTTATTTTTG
987145 TAGTATTTTAATATTTATTAT
1 TAGTATTTTAATATTTATT-T
*
987166 TAGTATTTTACAT-TTAATTT
1 TAGTATTTTA-ATATTTATTT
* *
987186 TAATATTTTTATATTT
1 TAGTATTTTAATATTT
987202 TTAAATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.07
20 11 0.37
21 15 0.50
22 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
TAGTATTTTAATATTTATTT
Found at i:991198 original size:64 final size:65
Alignment explanation
Indices: 991093--991224 Score: 203
Period size: 64 Copynumber: 2.0 Consensus size: 65
991083 CTACTATCTC
* * *
991093 TTTTATTATGTTGTTAAGACTTGATACTCTTGTGTGGTA-TTTTATTTTGAACGTCTTGTGTTGA
1 TTTTATTATGTTGTTAAGACTTGATACTCTTGTGTGCTATTTTTAATTTGAACATCTTGTGTTGA
* * *
991157 TTTTATTGTGTTGTTGAGATTTGATACTCTTGTGTGCTATTTTTAATTTGAACATCTTGTGTTGA
1 TTTTATTATGTTGTTAAGACTTGATACTCTTGTGTGCTATTTTTAATTTGAACATCTTGTGTTGA
991222 TTT
1 TTT
991225 GAGACTTGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
64 35 0.57
65 26 0.43
ACGTcount: A:0.18, C:0.08, G:0.20, T:0.55
Consensus pattern (65 bp):
TTTTATTATGTTGTTAAGACTTGATACTCTTGTGTGCTATTTTTAATTTGAACATCTTGTGTTGA
Found at i:998108 original size:46 final size:46
Alignment explanation
Indices: 997964--998110 Score: 222
Period size: 46 Copynumber: 3.2 Consensus size: 46
997954 TTTTCGTGTG
* * *
997964 CGACATTCATCAGTGGTGTGTTTTGGAATAAATGTGTTTCAATATT
1 CGACGTTCATTAGTGGTGTGTTTTGGAATAAATGTGTTTCAATATA
* **
998010 CGACGTTCATTAGTGGTGTGTTTTGGAATAAATGTCTTTTGATATA
1 CGACGTTCATTAGTGGTGTGTTTTGGAATAAATGTGTTTCAATATA
* *
998056 CTACGTTCATTAGTGGTGTGTTTTGGAATAAATGTGTTTCAATACA
1 CGACGTTCATTAGTGGTGTGTTTTGGAATAAATGTGTTTCAATATA
998102 CGACGTTCA
1 CGACGTTCA
998111 CTGTAGACGC
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (46 bp):
CGACGTTCATTAGTGGTGTGTTTTGGAATAAATGTGTTTCAATATA
Found at i:999186 original size:31 final size:31
Alignment explanation
Indices: 999149--999222 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
999139 TGTACAAAAT
* * *
999149 ACATCATATATTTAATCAACCAGAACATATA
1 ACATCATACATTTAACCAACAAGAACATATA
* *
999180 TCATCATGCATTTAACCAACAAGAACATATA
1 ACATCATACATTTAACCAACAAGAACATATA
*
999211 ACATCATGCATT
1 ACATCATACATT
999223 GATCATTCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.45, C:0.22, G:0.05, T:0.28
Consensus pattern (31 bp):
ACATCATACATTTAACCAACAAGAACATATA
Found at i:999360 original size:24 final size:24
Alignment explanation
Indices: 999324--999369 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
999314 CACTACAACT
* *
999324 CGTATAAAATGCATCGAAGTGCAG
1 CGTAGAAAATGCACCGAAGTGCAG
*
999348 CGTAGAAATTGCACCGAAGTGC
1 CGTAGAAAATGCACCGAAGTGC
999370 CACATAGAAA
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:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (24 bp):
CGTAGAAAATGCACCGAAGTGCAG
Found at i:999377 original size:24 final size:24
Alignment explanation
Indices: 999333--999380 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
999323 TCGTATAAAA
* *
999333 TGCATCGAAGTGCAGCGTAGAAAT
1 TGCACCGAAGTGCAGCATAGAAAT
999357 TGCACCGAAGTGCCA-CATAGAAAT
1 TGCACCGAAGTG-CAGCATAGAAAT
999381 ATCCCAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (24 bp):
TGCACCGAAGTGCAGCATAGAAAT
Found at i:999398 original size:23 final size:23
Alignment explanation
Indices: 999369--999461 Score: 69
Period size: 23 Copynumber: 4.0 Consensus size: 23
999359 CACCGAAGTG
999369 CCACATAGAAATATCCCAAAGGA
1 CCACATAGAAATATCCCAAAGGA
* * * * **
999392 CCACATAGTATTGTCCAAAAATA
1 CCACATAGAAATATCCCAAAGGA
* * *
999415 CCACGTAAAAATATCCCGAAGGA
1 CCACATAGAAATATCCCAAAGGA
* * * *
999438 CCACGTAGAATTGTCCCGAAGGA
1 CCACATAGAAATATCCCAAAGGA
999461 C
1 C
999462 TGCGTAGAAC
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.41, C:0.26, G:0.16, T:0.17
Consensus pattern (23 bp):
CCACATAGAAATATCCCAAAGGA
Found at i:1000266 original size:20 final size:20
Alignment explanation
Indices: 1000233--1000281 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1000223 TTACCATATG
* *
1000233 ATATCAATATTGTTCTTCCA
1 ATATCGATAATGTTCTTCCA
*
1000253 ATATCGATAATGTTCTTCTA
1 ATATCGATAATGTTCTTCCA
*
1000273 GTATCGATA
1 ATATCGATA
1000282 CCAAAACCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (20 bp):
ATATCGATAATGTTCTTCCA
Found at i:1004307 original size:265 final size:256
Alignment explanation
Indices: 1003757--1004366 Score: 859
Period size: 265 Copynumber: 2.4 Consensus size: 256
1003747 CTTATTCATA
*
1003757 TATTGAAT-AAAA-ATATTTTT-TTATTTCA--T--ATCGGGTTTCTAATTCATATA-T---TT-
1 TATTGAATAAAAATATATTTTTATTATTTCAGGTCGGTCGGGTTTCTAATTCATATATTCGGTTC
* * * *
1003810 GGGTCGAGTGAAACTTTATTTTGGTCGGGTCGGGTTGGTTTTTTTAAGTGTGATATTCGGGTCGG
66 GGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTGTTTAAGTGTGATATTCGGGTCAG
* *
1003875 GTCGAGTTCGGGTTTAGAGTGAAAAATACCCGACCGGAAAATATATATAATTTTACCTTATATAT
131 GTCGAGTTCGGGTTTAGAGTGAAAAATACCCGACCGCAAAAAATATATAATTTTACCTTATATAT
* *
1003940 TTAGGAATAATTACAATAATACTCCTCTATATATAATTTTTTTCAATTAAGTCGCTATTTT
196 TTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCACTATTTT
*
1004001 TATTGAATAAAAATATTTTTTTATTATTTCAGGTCGGTCGGGTTTCTAATTCATATATTCGGTTC
1 TATTGAATAAAAATATATTTTTATTATTTCAGGTCGGTCGGGTTTCTAATTCATATATTCGGTTC
* *
1004066 GGGTCGGGTGAAACTTTATTTTGGTCGGGTCTGGTCGGTTTGTTTAAGTGTGATATTCGGGTTAG
66 GGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTGTTTAAGTGTGATATTCGGGTCAG
* *
1004131 GTCGGGTTCGGGTTTAGGGTGAAAAATACCCGGCCCGACCCGACCCAAAAAATATATAATTTTAC
131 GTCGAGTTCGGGTTTAGAGTGAAAAATA-----CCCGA-CCG---CAAAAAATATATAATTTTAC
*
1004196 CTTATATATTTAGGAATAATTATAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCACT
187 CTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCACT
*
1004261 GTTTT
252 ATTTT
* * *
1004266 TATTGAATAAAAATA-ATTTTTATTATTTCGGGTCTGGTCGGGTTTCTAATTCATTTATTCGGGT
1 TATTGAATAAAAATATATTTTTATTATTTCAGGTC-GGTCGGGTTTCTAATTCATATATTCGGTT
*
1004330 CGGGTCAGGTGAAACTTTATTTTGGTCGGGTCGGGTC
65 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTC
1004367 TCGGATGGAG
Statistics
Matches: 322, Mismatches: 22, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
244 8 0.02
245 4 0.01
246 7 0.02
247 8 0.02
249 1 0.00
251 20 0.06
252 1 0.00
255 2 0.01
256 85 0.26
261 5 0.02
262 3 0.01
264 17 0.05
265 161 0.50
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.41
Consensus pattern (256 bp):
TATTGAATAAAAATATATTTTTATTATTTCAGGTCGGTCGGGTTTCTAATTCATATATTCGGTTC
GGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTGTTTAAGTGTGATATTCGGGTCAG
GTCGAGTTCGGGTTTAGAGTGAAAAATACCCGACCGCAAAAAATATATAATTTTACCTTATATAT
TTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCACTATTTT
Found at i:1006440 original size:16 final size:16
Alignment explanation
Indices: 1006419--1006451 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1006409 CCAAAGTGTC
1006419 ACATTTACTTTTCAAA
1 ACATTTACTTTTCAAA
*
1006435 ACATTTACTTTTTAAA
1 ACATTTACTTTTCAAA
1006451 A
1 A
1006452 GATAGTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.45
Consensus pattern (16 bp):
ACATTTACTTTTCAAA
Found at i:1006856 original size:31 final size:31
Alignment explanation
Indices: 1006820--1006880 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
1006810 GTACAAAATA
* * *
1006820 CATCATATATTTAATCAACCAGAACATATAT
1 CATCATACATTTAACCAACAAGAACATATAT
* *
1006851 CATCATGCATTTAACCAACAAGAATATATA
1 CATCATACATTTAACCAACAAGAACATATA
1006881 ATATCATGCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.30
Consensus pattern (31 bp):
CATCATACATTTAACCAACAAGAACATATAT
Found at i:1006887 original size:31 final size:31
Alignment explanation
Indices: 1006828--1006892 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
1006818 TACATCATAT
* *
1006828 ATTTAATCAACCAGAACATATATCATCATGC
1 ATTTAACCAACAAGAACATATATCATCATGC
*
1006859 ATTTAACCAACAAGAATATATAAT-ATCATGC
1 ATTTAACCAACAAGAACATAT-ATCATCATGC
1006890 ATT
1 ATT
1006893 GATCATTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (31 bp):
ATTTAACCAACAAGAACATATATCATCATGC
Found at i:1007047 original size:24 final size:24
Alignment explanation
Indices: 1006999--1007050 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1006989 CAACTCGTAA
* *
1006999 AAATTGCATCGAAGTGCAGAGTAG
1 AAATTGCACCGAAGTGCACAGTAG
1007023 AAATTGCACCGAAGTGCCACA-TAG
1 AAATTGCACCGAAGTG-CACAGTAG
1007047 AAAT
1 AAAT
1007051 ATCCCGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (24 bp):
AAATTGCACCGAAGTGCACAGTAG
Found at i:1007122 original size:23 final size:23
Alignment explanation
Indices: 1007052--1007122 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 23
1007042 CATAGAAATA
* * *
1007052 TCCCGAAGGACCACATAGTATTG
1 TCCCAAAGGACCACGTAGAATTG
* ** * *
1007075 TCCAAAAATACCACGTAAAAATG
1 TCCCAAAGGACCACGTAGAATTG
1007098 TCCCAAAGGACCACGTAGAATTG
1 TCCCAAAGGACCACGTAGAATTG
1007121 TC
1 TC
1007123 TCGAAGGATT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (23 bp):
TCCCAAAGGACCACGTAGAATTG
Found at i:1007331 original size:35 final size:36
Alignment explanation
Indices: 1007291--1007367 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 36
1007281 CTCATATATT
1007291 CACATAGATCA-TATAACA-CATATGATAACATATAA
1 CACATAGATCAGTATAACAGCATAT-ATAACATATAA
* **
1007326 CACATAGCTCATGTATAACAGTGTATATAACATATAA
1 CACATAGATCA-GTATAACAGCATATATAACATATAA
1007363 -ACATA
1 CACATA
1007368 TGCATGTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 10 0.28
36 5 0.14
37 18 0.50
38 3 0.08
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (36 bp):
CACATAGATCAGTATAACAGCATATATAACATATAA
Found at i:1008108 original size:20 final size:19
Alignment explanation
Indices: 1008075--1008112 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
1008065 TTCAGTATTT
1008075 CAAACTCAACTATACTCACC
1 CAAACTCAACTATA-TCACC
1008095 CAAA-TCAACTTATATCAC
1 CAAACTCAAC-TATATCAC
1008113 TTTAACACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (19 bp):
CAAACTCAACTATATCACC
Found at i:1010992 original size:44 final size:44
Alignment explanation
Indices: 1010944--1011035 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
1010934 GAAAATTCCA
1010944 AATTATGTATTTAGTTTAGGATGATAATTATAAAATCTTATTGT
1 AATTATGTATTTAGTTTAGGATGATAATTATAAAATCTTATTGT
*
1010988 AATTATGTATTTAGTTTATGATGATAATTATAAAATCTTATTGT
1 AATTATGTATTTAGTTTAGGATGATAATTATAAAATCTTATTGT
1011032 AATT
1 AATT
1011036 TCGGATATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (44 bp):
AATTATGTATTTAGTTTAGGATGATAATTATAAAATCTTATTGT
Found at i:1011015 original size:25 final size:25
Alignment explanation
Indices: 1010944--1011018 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
1010934 GAAAATTCCA
*
1010944 AATTATGTATTTAGTTTAGGATGAT
1 AATTATGTATTTAGTTTATGATGAT
* *
1010969 AATTA--TA--AAATCTTAT--TG-T
1 AATTATGTATTTAGT-TTATGATGAT
1010988 AATTATGTATTTAGTTTATGATGAT
1 AATTATGTATTTAGTTTATGATGAT
1011013 AATTAT
1 AATTAT
1011019 AAAATCTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 16
0.64 0.09 0.28
Matches are distributed among these distances:
19 6 0.16
20 2 0.05
21 4 0.11
22 7 0.19
23 4 0.11
24 2 0.05
25 12 0.32
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.49
Consensus pattern (25 bp):
AATTATGTATTTAGTTTATGATGAT
Found at i:1011177 original size:23 final size:22
Alignment explanation
Indices: 1011131--1011179 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1011121 AACACTAATC
1011131 AGAGATAAAACAAATGACATTG
1 AGAGATAAAACAAATGACATTG
*
1011153 AGAGATAAACCAAA-GAAACATTG
1 AGAGATAAAACAAATG--ACATTG
1011176 AGAG
1 AGAG
1011180 TAATTACTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 1 0.04
22 13 0.54
23 10 0.42
ACGTcount: A:0.55, C:0.10, G:0.20, T:0.14
Consensus pattern (22 bp):
AGAGATAAAACAAATGACATTG
Found at i:1011833 original size:21 final size:21
Alignment explanation
Indices: 1011807--1011856 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1011797 GTTCTCCATT
*
1011807 TTCTGCCCGGCTTCCTTCGTC
1 TTCTGCCCAGCTTCCTTCGTC
*
1011828 TTCTGCCCAGCTTCCTTTGTC
1 TTCTGCCCAGCTTCCTTCGTC
1011849 TTCTGCCC
1 TTCTGCCC
1011857 TGCATACCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.42, G:0.16, T:0.40
Consensus pattern (21 bp):
TTCTGCCCAGCTTCCTTCGTC
Found at i:1019348 original size:30 final size:29
Alignment explanation
Indices: 1019312--1019391 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 29
1019302 ATTTTAAAAT
*
1019312 TATATTTTGTTTTTGTTTTAACTTATTAAA
1 TATATTTTATTTTT-TTTTAACTTATTAAA
1019342 TATATTTTATTTTTTTCTTAACTTATTAAA
1 TATATTTTATTTTTTT-TTAACTTATTAAA
1019372 TATA-TTTATTTTTATTTTAA
1 TATATTTTATTTTT-TTTTAA
1019392 TGTAAAAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
29 15 0.32
30 32 0.68
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.65
Consensus pattern (29 bp):
TATATTTTATTTTTTTTTAACTTATTAAA
Found at i:1019405 original size:30 final size:31
Alignment explanation
Indices: 1019305--1019512 Score: 102
Period size: 30 Copynumber: 6.8 Consensus size: 31
1019295 ATCTTAAATT
* * *
1019305 TTAAAATTATAT-TTTGTTTTTGTT-TTAAC
1 TTAAAAATATATATTTATTTTTATTCTTAAC
*
1019334 TTATTAAATATAT-TTTATTTTT-TTCTTAAC
1 TTA-AAAATATATATTTATTTTTATTCTTAAC
**
1019364 TTATTAA-ATATATTTATTTTTATT-TTAA-
1 TTAAAAATATATATTTATTTTTATTCTTAAC
* *
1019392 TGTAAAAATATATATTT-TTCTTTA-TCATCAC
1 T-TAAAAATATATATTTATT-TTTATTCTTAAC
* ***
1019423 TTAAAAATATAT-TTTGTAAAATATT-TTAAC
1 TTAAAAATATATATTTAT-TTTTATTCTTAAC
*
1019453 TT-AAAATATAT-TTAAATATTTTATTCTTATCTACAC
1 TTAAAAATATATATT-TAT-TTTTATTC---T-TA-AC
1019489 TTAAAAATATAT-TTTATTTTTATT
1 TTAAAAATATATATTTATTTTTATT
1019513 TTTATTTTAA
Statistics
Matches: 140, Mismatches: 19, Indels: 34
0.73 0.10 0.18
Matches are distributed among these distances:
28 5 0.04
29 42 0.30
30 64 0.46
31 2 0.01
34 1 0.01
35 9 0.06
36 6 0.04
37 11 0.08
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (31 bp):
TTAAAAATATATATTTATTTTTATTCTTAAC
Found at i:1019555 original size:35 final size:36
Alignment explanation
Indices: 1019490--1019560 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
1019480 TATCTACACT
** * **
1019490 TAAAAATATATTTTATTTTTATTTTTA-TTTTAAAA
1 TAAAAATATATTTTATCATTATCTAAATTTTTAAAA
1019525 TAAAAATATATTTTATCATTATCTAAATTTTTAAAA
1 TAAAAATATATTTTATCATTATCTAAATTTTTAAAA
1019561 ATATATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 22 0.73
36 8 0.27
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (36 bp):
TAAAAATATATTTTATCATTATCTAAATTTTTAAAA
Found at i:1019758 original size:59 final size:60
Alignment explanation
Indices: 1019695--1019819 Score: 171
Period size: 59 Copynumber: 2.1 Consensus size: 60
1019685 AAATATTTAA
** *** *
1019695 ATATATTTTAAGTTAAGGTATTTTTTCATATAAAT-TTTAATTGATGATAAAGATAAAAT
1 ATATATTTTAAGTTAAAATATTTTAAAATATAAATATTTAAGTGATGATAAAGATAAAAT
* *
1019754 ATATAATTTAAGTTAAAATATTTTAAAATATATATATTTAAGTGATGATAAAGATAAAAT
1 ATATATTTTAAGTTAAAATATTTTAAAATATAAATATTTAAGTGATGATAAAGATAAAAT
1019814 ATATAT
1 ATATAT
1019820 ATTTTTATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
59 28 0.50
60 28 0.50
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (60 bp):
ATATATTTTAAGTTAAAATATTTTAAAATATAAATATTTAAGTGATGATAAAGATAAAAT
Found at i:1019764 original size:30 final size:31
Alignment explanation
Indices: 1019722--1019854 Score: 104
Period size: 30 Copynumber: 4.5 Consensus size: 31
1019712 GTATTTTTTC
*
1019722 ATATAAAT-TTTAATTGATGATAAAGATAAA
1 ATATATATATTTAATTGATGATAAAGATAAA
** ***
1019752 ATATATA-ATTTAAGTT-AAAAT-ATTTTAAA
1 ATATATATATTTAA-TTGATGATAAAGATAAA
*
1019781 ATATATATATTTAAGTGATGATAAAGATAAA
1 ATATATATATTTAATTGATGATAAAGATAAA
1019812 ATATATATATTT--TT-AT-ATTAAA-ATAAA
1 ATATATATATTTAATTGATGA-TAAAGATAAA
*
1019839 ACTAAATATATTTAAT
1 A-TATATATATTTAAT
1019855 AAGTTAAGAA
Statistics
Matches: 80, Mismatches: 14, Indels: 18
0.71 0.12 0.16
Matches are distributed among these distances:
27 7 0.09
28 16 0.20
29 14 0.17
30 24 0.30
31 19 0.24
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (31 bp):
ATATATATATTTAATTGATGATAAAGATAAA
Found at i:1019812 original size:31 final size:31
Alignment explanation
Indices: 1019722--1019823 Score: 111
Period size: 30 Copynumber: 3.4 Consensus size: 31
1019712 GTATTTTTTC
* *
1019722 ATATAAAT-TTTAATTGATGATAAAGATAAA
1 ATATATATATTTAAGTGATGATAAAGATAAA
* ** ***
1019752 ATATATA-ATTTAAGTTAAAAT-ATTTTAAA
1 ATATATATATTTAAGTGATGATAAAGATAAA
1019781 ATATATATATTTAAGTGATGATAAAGATAAA
1 ATATATATATTTAAGTGATGATAAAGATAAA
1019812 ATATATATATTT
1 ATATATATATTT
1019824 TTATATTAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
29 12 0.22
30 26 0.47
31 17 0.31
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (31 bp):
ATATATATATTTAAGTGATGATAAAGATAAA
Found at i:1019897 original size:23 final size:23
Alignment explanation
Indices: 1019842--1019890 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
1019832 AAATAAAACT
1019842 AAATATATTTAATAAGTTAAGAA
1 AAATATATTTAATAAGTTAAGAA
1019865 AAATATATTTAATAAGTTAA-AA
1 AAATATATTTAATAAGTTAAGAA
1019887 AAAT
1 AAAT
1019891 TTAATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (23 bp):
AAATATATTTAATAAGTTAAGAA
Found at i:1019966 original size:2 final size:2
Alignment explanation
Indices: 1019961--1019998 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1019951 TTAAGGTACA
1019961 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1019999 TATTTGCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1030103 original size:21 final size:21
Alignment explanation
Indices: 1030056--1030120 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
1030046 AAGACAATCA
*
1030056 AGAGTCGAAGAGAAACTTG-G
1 AGAGTCGAAGAGAAACTCGAG
*
1030076 TCA-AGTCGTAGAGAAACTCGAG
1 --AGAGTCGAAGAGAAACTCGAG
* *
1030098 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
1030119 AG
1 AG
1030121 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 33 0.92
22 2 0.06
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:1030215 original size:32 final size:33
Alignment explanation
Indices: 1030154--1030218 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1030144 AAATAGATGG
* *
1030154 AGTGGTGAATGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
1030187 AGTGGTGAAAGAAGTTG-GGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1030219 TATTAAGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.25
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1032031 original size:19 final size:19
Alignment explanation
Indices: 1032007--1032055 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1031997 AATGTAGGGT
1032007 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1032026 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1032045 TATTTTTGTAT
1 TAATTTTGTAT
1032056 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1032511 original size:197 final size:198
Alignment explanation
Indices: 1032174--1033533 Score: 2450
Period size: 199 Copynumber: 6.9 Consensus size: 198
1032164 CAATATGGCC
*
1032174 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTTGATCCC-AAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCA-ATATAA-AAAGTGTCGATCCCAAAATCATCGAAC
*
1032238 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
64 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGA
1032303 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAA
129 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAA
1032368 TGGAA
194 TGGAA
1032373 AACAGGGTGCACCCATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
1 AACAGGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
1032437 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAGA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAGA
1032502 ATATGTCT-AATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAATG
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAATG
1032566 GAA
196 GAA
1032569 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1032634 C-AAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCG-GTTTATGAGAG
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAG
1032696 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
130 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
1032761 GGAA
195 GGAA
* *
1032765 AATAGGGTGCACCCATAAAGTGTCGATCC-ATATATAAAAGTGTCGATCCCAAAATCATCGAACT
1 AACAGGGTGCACCCATAAAGTGTCGATCCAATATA-AAAAGTGTCGATCCCAAAATCATCGAACC
* **
1032829 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAATCGGTACAATTATACTTATTTTATGAGAG
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAG
1032893 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
130 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
1032958 GGAA
195 GGAA
1032962 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
**
1033027 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTTATTTTATGAGAG
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAG
1033092 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
130 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
1033157 GGAA
195 GGAA
1033161 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
1033226 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTTTACCGGTTTTATGAGAG
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAG
*
1033291 AATATGTCTAAAAAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
130 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
1033356 GGAA
195 GGAA
1033360 AACAGGGTGCACCCATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
1 AACAGGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
* * *
1033424 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTGCAATTTTACCGGTTTTATGAGAGA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAGA
*
1033489 ATATGTCTAAAAAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
1033534 CTAATTTAAA
Statistics
Matches: 1133, Mismatches: 18, Indels: 22
0.97 0.02 0.02
Matches are distributed among these distances:
194 5 0.00
195 48 0.04
196 264 0.23
197 364 0.32
198 86 0.08
199 366 0.32
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAGA
ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAATG
GAA
Found at i:1033160 original size:199 final size:199
Alignment explanation
Indices: 1032174--1033533 Score: 2490
Period size: 197 Copynumber: 6.9 Consensus size: 199
1032164 CAATATGGCC
*
1032174 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTTGATCCC-AAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAA-AAAGTGTCGATCCCAAAATCATCGAAC
1032238 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
1032303 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAA
1032368 TGGAA
195 TGGAA
1032373 AACAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1032436 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1032501 AATATGTCT-AATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
1032565 GGAA
196 GGAA
1032569 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1032634 C-AAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1032696 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
1032761 GGAA
196 GGAA
* *
1032765 AATAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACT
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* ***
1032829 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAATCGGTACAATTATACTTATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1032893 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
1032958 GGAA
196 GGAA
1032962 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
***
1033027 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTTATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1033092 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
1033157 GGAA
196 GGAA
1033161 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1033226 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
1033291 AATATGTCTAAAAAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
1033356 GGAA
196 GGAA
1033360 AACAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
1033423 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTGCAATTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
1033488 AATATGTCTAAAAAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
1033534 CTAATTTAAA
Statistics
Matches: 1135, Mismatches: 18, Indels: 18
0.97 0.02 0.02
Matches are distributed among these distances:
195 48 0.04
196 270 0.24
197 370 0.33
198 86 0.08
199 361 0.32
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
GGAA
Found at i:1035012 original size:12 final size:12
Alignment explanation
Indices: 1034995--1035059 Score: 85
Period size: 12 Copynumber: 5.4 Consensus size: 12
1034985 GGTCGCAGAA
*
1034995 GATGAAGCTGAC
1 GATGAAGATGAC
*
1035007 GATGAAGCTGAC
1 GATGAAGATGAC
1035019 GATGAAGATGAC
1 GATGAAGATGAC
*
1035031 GATGATGATGAC
1 GATGAAGATGAC
* *
1035043 GATGATGATGAT
1 GATGAAGATGAC
1035055 GATGA
1 GATGA
1035060 TGAAGATGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 50 1.00
ACGTcount: A:0.35, C:0.09, G:0.34, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:1035023 original size:24 final size:24
Alignment explanation
Indices: 1034995--1035068 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
1034985 GGTCGCAGAA
* *
1034995 GATGAAGCTGACGATGAAGCTGAC
1 GATGAAGATGACGATGAAGATGAC
*
1035019 GATGAAGATGACGATGATGATGAC
1 GATGAAGATGACGATGAAGATGAC
*
1035043 GATGATGATGATGATGATGAAGATGA
1 GATGA--A-GATGACGATGAAGATGA
1035069 TGATCCAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 26 0.62
26 1 0.02
27 15 0.36
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.22
Consensus pattern (24 bp):
GATGAAGATGACGATGAAGATGAC
Done.