Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009584.1 Hibiscus syriacus cultivar Beakdansim tig00116961_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: 2003061
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 8
Found at i:1818814 original size:19 final size:20
Alignment explanation
Indices: 1818775--1818830 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
1818765 GAAATCCCTT
*
1818775 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATCTTTAA
1818795 TGAAAATACATGA-CTTTAA
1 TGAAAATACATGATCTTTAA
* *
1818814 TGAACATACATGCTCTT
1 TGAAAATACATGATCTT
1818831 GGTCGAATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (20 bp):
TGAAAATACATGATCTTTAA
Found at i:1821210 original size:16 final size:17
Alignment explanation
Indices: 1821189--1821222 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1821179 TATTAAGAAA
*
1821189 AAAATATAG-AAAAAAT
1 AAAATAGAGTAAAAAAT
1821205 AAAATAGAGTAAAAAAT
1 AAAATAGAGTAAAAAAT
1821222 A
1 A
1821223 TATATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (17 bp):
AAAATAGAGTAAAAAAT
Found at i:1821264 original size:36 final size:37
Alignment explanation
Indices: 1821178--1821302 Score: 95
Period size: 36 Copynumber: 3.5 Consensus size: 37
1821168 GATATACATG
* * *
1821178 ATATTAAGAAAAAAATATAGAAAAA--ATAAAATAGA
1 ATATTAAGAAAAATATAAATAAAAACGATAAAATAGA
*
1821213 GTA--AA-AAATATATATAAATAATAAAAC-A-AAAATAGA
1 ATATTAAGAAA-A-ATATAAAT-A-AAAACGATAAAATAGA
* *
1821249 ATATTAAG-AAAATATATATAAAAACGTATAAAATATA
1 ATATTAAGAAAAATATAAATAAAAACG-ATAAAATAGA
1821286 ATATTAAGAAAAATATA
1 ATATTAAGAAAAATATA
1821303 TATACATAGT
Statistics
Matches: 71, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
32 3 0.04
33 3 0.04
34 10 0.14
35 4 0.06
36 22 0.31
37 17 0.24
38 12 0.17
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (37 bp):
ATATTAAGAAAAATATAAATAAAAACGATAAAATAGA
Found at i:1821264 original size:38 final size:38
Alignment explanation
Indices: 1821178--1821304 Score: 103
Period size: 38 Copynumber: 3.5 Consensus size: 38
1821168 GATATACATG
* *
1821178 ATATTAAGAAAAAAATAT-AGAAAAA--ATAAAATAGA
1 ATATTAAGAAAAATATATAATAAAAACGATAAAATAGA
* *
1821213 GTA--AA-AAATATATATAAATAATAAAAC-A-AAAATAGA
1 ATATTAAGAAAAATATAT-AAT-A-AAAACGATAAAATAGA
*
1821249 ATATTAAG-AAAATATAT-ATAAAAACGTATAAAATATA
1 ATATTAAGAAAAATATATAATAAAAACG-ATAAAATAGA
1821286 ATATTAAGAAAAATATATA
1 ATATTAAGAAAAATATATA
1821305 TACATAGTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
32 8 0.11
33 2 0.03
34 6 0.08
35 4 0.06
36 17 0.24
37 16 0.22
38 19 0.26
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (38 bp):
ATATTAAGAAAAATATATAATAAAAACGATAAAATAGA
Found at i:1821298 original size:17 final size:17
Alignment explanation
Indices: 1821240--1821302 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
1821230 ATAATAAAAC
*
1821240 AAAAATAGAATATTAAG
1 AAAAATATAATATTAAG
**
1821257 -AAAATATATATAAAAACG
1 AAAAATATA-ATATTAA-G
1821275 TATAAAATATAATATTAAG
1 -A-AAAATATAATATTAAG
1821294 AAAAATATA
1 AAAAATATA
1821303 TATACATAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
16 7 0.19
17 13 0.36
18 2 0.06
19 1 0.03
20 5 0.14
21 8 0.22
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (17 bp):
AAAAATATAATATTAAG
Found at i:1821348 original size:2 final size:2
Alignment explanation
Indices: 1821336--1821427 Score: 129
Period size: 2 Copynumber: 48.0 Consensus size: 2
1821326 TTAATACATC
*
1821336 TA TA CA 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 TA TA
*
1821378 T- TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA -A TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1821417 AA TA TA -A TA TA
1 TA TA TA TA TA TA
1821428 AATAAAAAAG
Statistics
Matches: 82, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
1 4 0.05
2 78 0.95
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1821473 original size:18 final size:18
Alignment explanation
Indices: 1821380--1821483 Score: 66
Period size: 19 Copynumber: 5.4 Consensus size: 18
1821370 TATATATATT
* * *
1821380 ATATATAATATATATATAT
1 ATATATAA-ATAAATAAAA
*
1821399 ATATATATATAATATAAAAA
1 ATATATAAATAA-AT-AAAA
1821419 TATAATATAAATAAA-AAAGGA
1 -AT-ATATAAATAAATAAA--A
1821440 ATATAGTAAATAAATAAAA
1 ATATA-TAAATAAATAAAA
* * *
1821459 ATATATAATTAAATATAT
1 ATATATAAATAAATAAAA
1821477 ATATATA
1 ATATATA
1821484 TATATATGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
18 20 0.29
19 21 0.30
20 12 0.17
21 7 0.10
22 9 0.13
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATATATAAATAAATAAAA
Found at i:1823102 original size:106 final size:105
Alignment explanation
Indices: 1822853--1823326 Score: 519
Period size: 106 Copynumber: 4.5 Consensus size: 105
1822843 CTGGAAATTA
* * *
1822853 TTTGTTGACAGTCAGCCGCCCCTTCAGTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCC
1 TTTGTTGACAATCAGCCGCCCCTTC-GTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCC
** * * *
1822918 TTCATTGTGAAGTTGAAATTGACTTTG-AA-T--GAA-AT-
65 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
* *
1822953 TTTGTTGACAATCAGCCTCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCC
1 TTTGTTGACAATCAGCCGCCCCTTCGT-GTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCC
* * * * *
1823018 TTCGTTGGGAAGTTAAAATTGGCCCTGAAATTAGGAAGTTG
65 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
* * * * *
1823059 TTTGTTGATAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATCC
1 TTTGTTGACAATCAGCCGCCCCTTCG-TGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCC
* *
1823124 TTTGCTGTGAAGTTGAAATTGGCTCTTAAATTGGGAAGTTG
65 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
* * * * * *
1823165 TTTGTTGACATTCAGTCGTCCATTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAATCCAATATCC
1 TTTGTTGACAATCAGCCGCCCCTTCG-TGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCC
* * ** * *
1823230 TTCGCTGTGAATTTGAAATTGGTTCTGAAGCTGGGAAATTA
65 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
* * * *
1823271 TTTGTTGACAACCAGCCGTCCCTTCGTTGTAAAGTTGAACTTGTGTTGTCTCGAGT
1 TTTGTTGACAATCAGCCGCCCCTTCG-TGTGAAGTTGAGCTTGTGTTGTCTCGAGT
1823327 GGCACGATAT
Statistics
Matches: 319, Mismatches: 47, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
99 2 0.01
100 78 0.24
101 2 0.01
102 1 0.00
104 3 0.01
105 1 0.00
106 231 0.72
107 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (105 bp):
TTTGTTGACAATCAGCCGCCCCTTCGTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCT
TCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
Found at i:1824100 original size:68 final size:65
Alignment explanation
Indices: 1824000--1824320 Score: 252
Period size: 65 Copynumber: 4.8 Consensus size: 65
1823990 AAGATATCTG
* * * **
1824000 TTGTTTCATGA-AAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGA-
1824064 TT
64 TT
* *
1824066 TGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGCTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
1824131 T
65 T
* * * * *
1824132 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACT--ATCTCAAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-TAAAT-TC---A-
*
1824195 AGACGAAACT
60 A-A-G--ATT
* * * * *** * * * *
1824205 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAATAAAACATATTCAAATAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
* ** *
1824270 TTGTTTCAAGGGAAACTGTCTCAAGATAGACAAAATTTGTTTCAAGGGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
1824321 CTGTCTCAAG
Statistics
Matches: 203, Mismatches: 38, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
64 2 0.01
65 87 0.43
66 5 0.02
67 33 0.16
68 23 0.11
69 2 0.01
70 2 0.01
71 1 0.00
73 46 0.23
74 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:1824155 original size:65 final size:67
Alignment explanation
Indices: 1823974--1824170 Score: 222
Period size: 65 Copynumber: 2.9 Consensus size: 67
1823964 AATTCGTTTC
* * * * *
1823974 AAGGGAAAT-GATCTCAAAGATATCTGTTGTTTCATGA-AAACGGTCTCAAGGGAAACAAAATTT
1 AAGGGAAATAAAT-TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TT
*
1824037 TGTTTT
62 TGCTTT
**
1824043 AAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGCT
1 AAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGCT
1824108 TT
66 TT
* * * *
1824110 AGGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTG
1 AAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTG
1824171 TTTCAAGAGA
Statistics
Matches: 112, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
65 35 0.31
66 3 0.03
67 33 0.29
68 24 0.21
69 15 0.13
70 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (67 bp):
AAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGCT
TT
Found at i:1824183 original size:36 final size:36
Alignment explanation
Indices: 1824131--1824356 Score: 234
Period size: 36 Copynumber: 6.4 Consensus size: 36
1824121 ATTCAAAGAT
1824131 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* *
1824167 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* * ** *
1824203 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* *** * *
1824240 TTTGTTTTAAATAAAACATAT-TC---A-A-A--TAA
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACGAAA
* *
1824269 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1824305 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
*
1824341 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGGGAAA
1824357 TGTTTTCAAT
Statistics
Matches: 156, Mismatches: 24, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.01
29 17 0.11
31 1 0.01
32 2 0.01
33 1 0.01
34 1 0.01
36 99 0.63
37 33 0.21
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
Found at i:1824228 original size:37 final size:36
Alignment explanation
Indices: 1824143--1824241 Score: 144
Period size: 37 Copynumber: 2.7 Consensus size: 36
1824133 TGTTTCAAGG
* * *
1824143 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACGAAATTAGTTCCAAAA
*
1824179 GAAACTATCTCAAGAGAGACGAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACGAAA-TTAGTTCCAAAA
*
1824216 GAAACTGTCTCAAGGGAGACGAAATT
1 GAAACTGTCTCAAGAGAGACGAAATT
1824242 TGTTTTAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 25 0.45
37 31 0.55
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.21
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACGAAATTAGTTCCAAAA
Found at i:1824232 original size:138 final size:138
Alignment explanation
Indices: 1824077--1824340 Score: 402
Period size: 138 Copynumber: 1.9 Consensus size: 138
1824067 GTGTTTCAAG
** * * *
1824077 AGAAACTGTCTCAAGGGAGACAAAATTTGCTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGCTTTAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
*
1824142 GGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACGAAACTTA
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACGAAACTTA
1824207 GTTCCAAA
131 GTTCCAAA
* * * * *
1824215 AGAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAATAAAACATATTCAAATAATTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGCTTTAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
* * *
1824280 GGAAACTGTCTCAAGATAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACGAAA
1824341 TTTATTTCAA
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 112 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGCTTTAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACGAAACTTA
GTTCCAAA
Found at i:1824365 original size:101 final size:100
Alignment explanation
Indices: 1824165--1824431 Score: 300
Period size: 101 Copynumber: 2.6 Consensus size: 100
1824155 AGAGAGACGA
* * * * **
1824165 AATTTGTTTCAAGAGAAACTATCTCAAGAGAGACGAAACTTAGTTCCAAAAGAAACTGTCTCAAG
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATTTGTTTCAAGGGAAACTGTCTCAAG
* * * *
1824230 GGAGACGAAATTTGTTTTAAATAAAACATATTCAAAT
65 AGAGACGAAATTTATTTCAAAGAAAACATATTC-AAT
* *
1824267 AATTTGTTTCAAGGGAAACTGTCTCAAGATAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGA
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGA
* * ** *
1824332 GAGACGAAATTTATTTCAAGGGAAATGTTTTCAAT
66 GAGACGAAATTTATTTCAAAGAAAACATATTCAAT
** * * *
1824367 GTTTCTGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTTTGTTTCAAGGGAAACTATCTCAA
1 AATT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA-AATTTGTTTCAAGGGAAACTGTCTCAA
1824432 ACGAGATAAA
Statistics
Matches: 139, Mismatches: 24, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
100 5 0.04
101 78 0.56
102 56 0.40
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (100 bp):
AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGA
GAGACGAAATTTATTTCAAAGAAAACATATTCAAT
Found at i:1826022 original size:69 final size:69
Alignment explanation
Indices: 1825911--1826042 Score: 201
Period size: 69 Copynumber: 1.9 Consensus size: 69
1825901 TCTCTTTATG
* * * *
1825911 CTCTATGATCTTCGAGGGGAGTGATTCAGTGATTCAGAAATGATTGTTCTTGATCAATCTCATTT
1 CTCTATGATCTTCGAGGGAAGTGATTCAGTGATTCAAAAATGATTGTGCTTGACCAATCTCATTT
1825976 GATT
66 GATT
** *
1825980 CTCTATGATCTTCGAGTTAAGTGGTTCAGTGATTCAAAAATGATTGTGCTTGACCAATCTCAT
1 CTCTATGATCTTCGAGGGAAGTGATTCAGTGATTCAAAAATGATTGTGCTTGACCAATCTCAT
1826043 ATTTTGAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 56 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (69 bp):
CTCTATGATCTTCGAGGGAAGTGATTCAGTGATTCAAAAATGATTGTGCTTGACCAATCTCATTT
GATT
Found at i:1826129 original size:11 final size:12
Alignment explanation
Indices: 1826115--1826161 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
1826105 TTTTCTTCAA
1826115 TTTTC-CTTTGTT
1 TTTTCTCTTTG-T
*
1826127 TTTTCTCTTTTT
1 TTTTCTCTTTGT
1826139 ATTTTCTCTTTGT
1 -TTTTCTCTTTGT
*
1826152 TTTTTTCTTT
1 TTTTCTCTTT
1826162 TTGTTCTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 15 0.50
13 15 0.50
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (12 bp):
TTTTCTCTTTGT
Found at i:1826143 original size:13 final size:13
Alignment explanation
Indices: 1826115--1826161 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
1826105 TTTTCTTCAA
1826115 TTTTC-CTTTGTT
1 TTTTCTCTTTGTT
1826127 TTTTCTCTTT-TT
1 TTTTCTCTTTGTT
1826139 ATTTTCTCTTTGTT
1 -TTTTCTCTTTGTT
1826153 TTTT-TCTTT
1 TTTTCTCTTT
1826162 TTGTTCTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 12 0.38
13 18 0.56
14 2 0.06
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Found at i:1826154 original size:25 final size:25
Alignment explanation
Indices: 1826114--1826163 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1826104 TTTTTCTTCA
1826114 ATTTTCCTTTGTTTTTTCTCTTTTT
1 ATTTTCCTTTGTTTTTTCTCTTTTT
1826139 ATTTTCTCTTTGTTTTTT-TCTTTTT
1 ATTTTC-CTTTGTTTTTTCTCTTTTT
1826164 GTTCTGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (25 bp):
ATTTTCCTTTGTTTTTTCTCTTTTT
Found at i:1827402 original size:7 final size:7
Alignment explanation
Indices: 1827390--1827430 Score: 73
Period size: 7 Copynumber: 5.7 Consensus size: 7
1827380 TGAAATGTAG
1827390 ATGCAAA
1 ATGCAAA
1827397 ATGCAAA
1 ATGCAAA
1827404 ATGCAAA
1 ATGCAAA
1827411 ATGCAAA
1 ATGCAAA
1827418 ATGCAAAA
1 ATGC-AAA
1827426 ATGCA
1 ATGCA
1827431 TGAAATGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGCAAA
Found at i:1829359 original size:13 final size:13
Alignment explanation
Indices: 1829341--1829377 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1829331 CAAAACACGT
1829341 AAAAAATAAAAAA
1 AAAAAATAAAAAA
*
1829354 AAAAAATAAACAA
1 AAAAAATAAAAAA
*
1829367 AATAAATAAAA
1 AAAAAATAAAA
1829378 TGTTAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (13 bp):
AAAAAATAAAAAA
Found at i:1829591 original size:15 final size:13
Alignment explanation
Indices: 1829563--1829587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1829553 CATGATATTA
1829563 AGAAAAAAATAAT
1 AGAAAAAAATAAT
1829576 AGAAAAAAATAA
1 AGAAAAAAATAA
1829588 AATAAAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AGAAAAAAATAAT
Found at i:1829591 original size:18 final size:18
Alignment explanation
Indices: 1829568--1829624 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
1829558 TATTAAGAAA
1829568 AAAATAATAGAAAAAAAT
1 AAAATAATAGAAAAAAAT
*
1829586 AAAATAA-AG-TAAAAAT
1 AAAATAATAGAAAAAAAT
* * *
1829602 ATAATATATATAAATAAAT
1 AAAATA-ATAGAAAAAAAT
1829621 AAAA
1 AAAA
1829625 AAGATAGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 11 0.37
17 3 0.10
18 8 0.27
19 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAATAATAGAAAAAAAT
Found at i:1829684 original size:17 final size:17
Alignment explanation
Indices: 1829557--1829693 Score: 60
Period size: 17 Copynumber: 8.2 Consensus size: 17
1829547 GATATACATG
*
1829557 ATATTAAGAAAAAAATA
1 ATATTAAGAAAAATATA
*
1829574 ATA-GAA-AAAAATA-A
1 ATATTAAGAAAAATATA
*
1829588 A-ATAAAGTAAAAATATA
1 ATATTAAG-AAAAATATA
* *
1829605 ATA-T-ATATAAATA-A
1 ATATTAAGAAAAATATA
* *
1829619 ATA--AA-AAAGATAGA
1 ATATTAAGAAAAATATA
1829633 ATATTAAGAAAATATATA
1 ATATTAAGAAAA-ATATA
**
1829651 TATAAAAACGTATAAAATATA
1 -ATATTAA-G-A-AAAATATA
1829672 ATATTAAGAAAAATATA
1 ATATTAAGAAAAATATA
1829689 TATAT
1 -ATAT
1829694 AAATAGTAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 31
0.67 0.10 0.23
Matches are distributed among these distances:
13 6 0.07
14 13 0.14
15 12 0.13
16 12 0.13
17 16 0.18
18 10 0.11
19 6 0.07
20 6 0.07
21 6 0.07
22 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (17 bp):
ATATTAAGAAAAATATA
Found at i:1829771 original size:25 final size:27
Alignment explanation
Indices: 1829724--1829773 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
1829714 TTAATACATC
*
1829724 TATATATATATATATAATGATATAAGA
1 TATATATATATATATAATAATATAAGA
1829751 TATATATA-ATATA-AATAATATAA
1 TATATATATATATATAATAATATAA
1829774 TATAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
26 5 0.23
27 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (27 bp):
TATATATATATATATAATAATATAAGA
Found at i:1829773 original size:14 final size:14
Alignment explanation
Indices: 1829743--1829782 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 14
1829733 ATATATAATG
1829743 ATATAAGATATATATA
1 ATATAA-ATA-ATATA
1829759 ATATAAATAATATA
1 ATATAAATAATATA
1829773 ATATAAATAA
1 ATATAAATAA
1829783 AGAAGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.62
15 3 0.12
16 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
ATATAAATAATATA
Found at i:1829814 original size:12 final size:12
Alignment explanation
Indices: 1829797--1829821 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1829787 GGAATATAGT
1829797 AAATAATTAAAA
1 AAATAATTAAAA
1829809 AAATAATTAAAA
1 AAATAATTAAAA
1829821 A
1 A
1829822 TATATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAATTAAAA
Found at i:1831734 original size:47 final size:50
Alignment explanation
Indices: 1831673--1831790 Score: 134
Period size: 47 Copynumber: 2.4 Consensus size: 50
1831663 TTAAATTAAC
* *
1831673 AGTGAAAACGAGTTGTATTCTAAGCGTCTACAC-T-GCT-TTTTTTAAAT
1 AGTGAAGACGAGTTGTATTCTAAGCATCTACACGTAGCTCTTTTTTAAAT
* * * * *
1831720 AGTGAAGACAAGTTGTATTCTCATCATCTACACTGTAGTTCTTTTTTGAAT
1 AGTGAAGACGAGTTGTATTCTAAGCATCTACAC-GTAGCTCTTTTTTAAAT
*
1831771 AGTGAAGACGGGTTGTATTC
1 AGTGAAGACGAGTTGTATTC
1831791 CCACTGCCTA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
47 28 0.48
49 1 0.02
50 2 0.03
51 27 0.47
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (50 bp):
AGTGAAGACGAGTTGTATTCTAAGCATCTACACGTAGCTCTTTTTTAAAT
Found at i:1831765 original size:51 final size:49
Alignment explanation
Indices: 1831709--1831837 Score: 152
Period size: 51 Copynumber: 2.5 Consensus size: 49
1831699 TCTACACTGC
* *
1831709 TTTTTTTAAATAGTGAAGACAAGTTGTATTCTCA-TCATCTACACTGTAGT
1 TTTTTTTAAATAGTGAAGACGAGTTGTATTCCCACTC--CTACACTGTAGT
* *
1831759 TCTTTTTTGAATAGTGAAGACGGGTTGTATTCCCACTGCCTACACTGTAGT
1 T-TTTTTTAAATAGTGAAGACGAGTTGTATTCCCACT-CCTACACTGTAGT
1831810 TTTTTATTATGAATAGTGAAGACGAGTT
1 TTTTT-TTA--AATAGTGAAGACGAGTT
1831838 ATATAACAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
50 5 0.07
51 44 0.66
52 1 0.01
53 17 0.25
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (49 bp):
TTTTTTTAAATAGTGAAGACGAGTTGTATTCCCACTCCTACACTGTAGT
Found at i:1832082 original size:28 final size:28
Alignment explanation
Indices: 1832042--1832096 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
1832032 CTCATAGTGA
*
1832042 CACCAGTAGTTCAGTATTAGCAGACAAT
1 CACCAGTACTTCAGTATTAGCAGACAAT
1832070 CACCAGTACTTCAGTATTAGCAGACAA
1 CACCAGTACTTCAGTATTAGCAGACAA
1832097 GTATTCACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (28 bp):
CACCAGTACTTCAGTATTAGCAGACAAT
Found at i:1839847 original size:23 final size:23
Alignment explanation
Indices: 1839803--1839848 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1839793 TTTGGGATAA
* * *
1839803 TTCTACGTGGTCCTTCATGACAT
1 TTCTACGCGGTCATTCAGGACAT
*
1839826 TTCTACGCGGTCATTCGGGACAT
1 TTCTACGCGGTCATTCAGGACAT
1839849 CTATGTGGTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (23 bp):
TTCTACGCGGTCATTCAGGACAT
Found at i:1839858 original size:21 final size:22
Alignment explanation
Indices: 1839834--1839886 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
1839824 ATTTCTACGC
1839834 GGTCATTCGGGACAT-CTATGT
1 GGTCATTCGGGACATACTATGT
* *
1839855 GGTCCTTTGGGACATACTATGT
1 GGTCATTCGGGACATACTATGT
1839877 GG-CACTTCGG
1 GGTCA-TTCGG
1839887 TGTATTTCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32
Consensus pattern (22 bp):
GGTCATTCGGGACATACTATGT
Found at i:1846920 original size:23 final size:24
Alignment explanation
Indices: 1846860--1846920 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
1846850 TAGTCGATGG
* *
1846860 TTCTACGCGGTCCTCTGGGACAAT
1 TTCTACGTGGTCCTTTGGGACAAT
1846884 TT-TACGTGGTCCTTTGGGAC-AT
1 TTCTACGTGGTCCTTTGGGACAAT
*
1846906 TTCTACGTGATCCTT
1 TTCTACGTGGTCCTT
1846921 CAAGACATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.12
23 27 0.82
24 2 0.06
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.38
Consensus pattern (24 bp):
TTCTACGTGGTCCTTTGGGACAAT
Found at i:1846971 original size:22 final size:21
Alignment explanation
Indices: 1846889--1846958 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
1846879 ACAATTTTAC
** *
1846889 GTGGTCCTTTGGGACATTTCTAC
1 GTGGTCCTTCAGGACA--TCTAT
* *
1846912 GTGATCCTTCAAGACATCTAT
1 GTGGTCCTTCAGGACATCTAT
1846933 GTGGTCCTTCAGGACATACTAT
1 GTGGTCCTTCAGGACAT-CTAT
1846955 GTGG
1 GTGG
1846959 CACTTCGGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
21 19 0.49
22 8 0.21
23 12 0.31
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.34
Consensus pattern (21 bp):
GTGGTCCTTCAGGACATCTAT
Found at i:1848181 original size:31 final size:31
Alignment explanation
Indices: 1848143--1848202 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
1848133 CCTTAGGTCC
* *
1848143 ATAAGGAATTATCAGTTG-GTGTTGAACCTAT
1 ATAAGGAATTACCAGTAGTG-GTTGAACCTAT
1848174 ATAAGGAATTACCAGTAGTGGTTGAACCT
1 ATAAGGAATTACCAGTAGTGGTTGAACCT
1848203 GCCAGAGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (31 bp):
ATAAGGAATTACCAGTAGTGGTTGAACCTAT
Found at i:1853445 original size:3 final size:3
Alignment explanation
Indices: 1853430--1853475 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
1853420 CCAGTTTATT
* *
1853430 TGA TGA AGA TGA TGA TAA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1853476 ATCATTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:1869217 original size:179 final size:176
Alignment explanation
Indices: 1868933--1869261 Score: 421
Period size: 179 Copynumber: 1.9 Consensus size: 176
1868923 AATAACTATA
* ** * *
1868933 ACTTATAATTACAAAATTTGTCATTATTTAACTTTTTGAAACAAAAAATGGAGGGGAATAGTTAT
1 ACTTATAATTACAAAACTTGTCACCATATAACTTTTTGAAACAAAAAATGGAGGGAAATAGTTAT
* *
1868998 GAAAATATATTTTATCACTATAATTAAAATATATAACTACAAATATAATTTGTCA-CAGAAACAT
66 GAAAATATATTTTATCACGATAATTAAAATATATAACTACAAATATAA-TTGTCATCAAAAACAT
*
1869062 GAATATCATTATTTGTTGTGACAATATTTTTTGTAATAATTATTAAC
130 GAATATCATTATTTATTGTGACAATATTTTTTGTAATAATTATTAAC
* * ** *
1869109 ACTTATATTTACAAAACTTGTCACCATATGACTTTTTTGAGCCAAAAATATGGATGGAAAT-GTT
1 ACTTATAATTACAAAACTTGTCACCATATAAC-TTTTTGAAACAAAAA-ATGGAGGGAAATAG-T
* * *
1869173 TATGACAATTATAATTTT-TCACGATAATTAAAATATATAACTACAAATATTATTGTCATTAAAA
63 TATGA-AAATAT-ATTTTATCACGATAATTAAAATATATAACTACAAATATAATTGTCATCAAAA
* *
1869237 ACTTGAATCTCATTATTTATTGTGA
126 ACATGAATATCATTATTTATTGTGA
1869262 TAACTGTTTC
Statistics
Matches: 129, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
176 26 0.20
177 14 0.11
178 22 0.17
179 62 0.48
180 5 0.04
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (176 bp):
ACTTATAATTACAAAACTTGTCACCATATAACTTTTTGAAACAAAAAATGGAGGGAAATAGTTAT
GAAAATATATTTTATCACGATAATTAAAATATATAACTACAAATATAATTGTCATCAAAAACATG
AATATCATTATTTATTGTGACAATATTTTTTGTAATAATTATTAAC
Found at i:1872897 original size:20 final size:20
Alignment explanation
Indices: 1872874--1872912 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1872864 CTAGTTATTG
* *
1872874 TAATAAGATTATTGTTACTA
1 TAATAAGAGTATTATTACTA
*
1872894 TAATATGAGTATTATTACT
1 TAATAAGAGTATTATTACT
1872913 TGTTGGAGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (20 bp):
TAATAAGAGTATTATTACTA
Found at i:1873941 original size:17 final size:17
Alignment explanation
Indices: 1873919--1873951 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1873909 AAAGACCATA
1873919 ATATTAT-TTTTCATATT
1 ATATTATATTTT-ATATT
1873936 ATATTATATTTTATAT
1 ATATTATATTTTATAT
1873952 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:1874162 original size:16 final size:17
Alignment explanation
Indices: 1874141--1874172 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1874131 TGAGACCATA
1874141 ATATTAT-TTTTATATT
1 ATATTATATTTTATATT
1874157 ATATTATATTTTATAT
1 ATATTATATTTTATAT
1874173 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:1874208 original size:224 final size:224
Alignment explanation
Indices: 1873749--1874208 Score: 643
Period size: 224 Copynumber: 2.1 Consensus size: 224
1873739 TTGAGTAGTT
* *
1873749 AAAATTATTT-TATATTTTTAACATTTAATATATTAATCCTTTATAATTTTATATGGAAAAATGA
1 AAAATTATTTATAAATTTTTAACATTTAATATATTAATACTTTATAATTTTATATGG-AAAATGA
*
1873813 TATTATTGTAAAATATGTAATTATTTAAAATAATATCTAACTTTCAGTTATTAAAAAATAAATCT
65 TATTATTGTAAAATATGTAATTATTTAAAATAATATCTAACTTTCAGTTATTAAAAAATAAATAT
*
1873878 TATACATTAATAAATAATATCTTTGTCCACTAAAGACCATAATATTATTTTTCATATTATATTAT
130 TATACATTAATAAATAATATATTTGTCCACTAAAGACCATAATATTATTTTTCATATTATATTAT
*
1873943 ATTTTATATAAATAAATATGAAAATTATTT
195 ATTTTATATAAATAAATATGAAAATTATTG
* * *
1873973 ATAA--A--TATAAATTTGATTAATATTTAATATATTAATATTTTATAATTTTATGAGGTGG-AA
1 AAAATTATTTATAAATTT--TTAACATTTAATATATTAATACTTTATAATTTTAT-A--TGGAAA
* * * *
1874033 ATGATATTGTTGTATAATATGTAATTATTTAAAATAATATCTAACTTTGAGTTATTAAAAAA-AT
61 ATGATATTATTGTAAAATATGTAATTATTTAAAATAATATCTAACTTTCAGTTATTAAAAAATAA
**
1874097 ATATTATACATTAA-AAATAATATATTTGTCCACTTGAGACCATAATATTATTTTT-ATATTATA
126 ATATTATACATTAATAAATAATATATTTGTCCACTAAAGACCATAATATTATTTTTCATATTATA
* * *
1874160 TTATATTTTATATAAATAAATATTATATTTA-TG
191 TTATATTTTATATAAATAAATATGAAAATTATTG
1874193 AAAATTATTTATAAAT
1 AAAATTATTTATAAAT
1874209 ACAAGTTTGA
Statistics
Matches: 208, Mismatches: 18, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
220 5 0.02
221 42 0.20
222 40 0.19
223 46 0.22
224 72 0.35
226 3 0.01
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (224 bp):
AAAATTATTTATAAATTTTTAACATTTAATATATTAATACTTTATAATTTTATATGGAAAATGAT
ATTATTGTAAAATATGTAATTATTTAAAATAATATCTAACTTTCAGTTATTAAAAAATAAATATT
ATACATTAATAAATAATATATTTGTCCACTAAAGACCATAATATTATTTTTCATATTATATTATA
TTTTATATAAATAAATATGAAAATTATTG
Found at i:1881054 original size:34 final size:36
Alignment explanation
Indices: 1881006--1881076 Score: 128
Period size: 35 Copynumber: 2.0 Consensus size: 36
1880996 CCAAACTAAA
1881006 AACCACTTTCCCCCC-TTCTCATTTTCATGATCTTT
1 AACCACTTTCCCCCCTTTCTCATTTTCATGATCTTT
1881041 AACCAC-TTCCCCCCTTTCTCATTTTCATGATCTTT
1 AACCACTTTCCCCCCTTTCTCATTTTCATGATCTTT
1881076 A
1 A
1881077 CGAACCAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 8 0.23
35 27 0.77
ACGTcount: A:0.18, C:0.37, G:0.03, T:0.42
Consensus pattern (36 bp):
AACCACTTTCCCCCCTTTCTCATTTTCATGATCTTT
Found at i:1888320 original size:31 final size:31
Alignment explanation
Indices: 1888285--1888345 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1888275 AAAATAGATG
* * *
1888285 TCTAATGTTTTTTCCGTTTCATTTTTAGGTA
1 TCTAATATTTTTTCCATTACATTTTTAGGTA
*
1888316 TCTAATATTTTTTTCATTACATTTTTAGGT
1 TCTAATATTTTTTCCATTACATTTTTAGGT
1888346 GCCTACGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.20, C:0.11, G:0.10, T:0.59
Consensus pattern (31 bp):
TCTAATATTTTTTCCATTACATTTTTAGGTA
Found at i:1896297 original size:24 final size:24
Alignment explanation
Indices: 1896269--1896337 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
1896259 ACATTACCTG
*
1896269 AATTCTGTTCTGATTTCTGATCTA
1 AATTCTGTTATGATTTCTGATCTA
* *
1896293 GATTCTGTTATGATATCTGATCTA
1 AATTCTGTTATGATTTCTGATCTA
* *
1896317 AATTCTATTTTGATTTCTGAT
1 AATTCTGTTATGATTTCTGAT
1896338 ATCTCCGTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (24 bp):
AATTCTGTTATGATTTCTGATCTA
Found at i:1896503 original size:2 final size:2
Alignment explanation
Indices: 1896496--1896522 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1896486 GACGGGGGTG
1896496 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1896523 GTTTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1897523 original size:30 final size:30
Alignment explanation
Indices: 1897482--1897588 Score: 110
Period size: 30 Copynumber: 3.6 Consensus size: 30
1897472 ATTTTTCATC
* *
1897482 TAAGTAACTAAAGTATTTTTTTTATCAAAG
1 TAAGTACCTAAAGTATTTTTTTTATCAAAA
*
1897512 TAAGTACCTAAAGT-TATATTTTTAGTCAAAA
1 TAAGTACCTAAAGTAT-TTTTTTTA-TCAAAA
* * *
1897543 TATGCACCTAAAGTA-TTTTTTAATCAAAA
1 TAAGTACCTAAAGTATTTTTTTTATCAAAA
* *
1897572 TAGGTACCTAAATTATT
1 TAAGTACCTAAAGTATT
1897589 CAATGTTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
29 19 0.30
30 27 0.43
31 17 0.27
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (30 bp):
TAAGTACCTAAAGTATTTTTTTTATCAAAA
Found at i:1897572 original size:29 final size:29
Alignment explanation
Indices: 1897482--1897588 Score: 115
Period size: 29 Copynumber: 3.6 Consensus size: 29
1897472 ATTTTTCATC
* * *
1897482 TAAGTAACTAAAGTATTTTTTTTATCAAAG
1 TAAGTACCTAAAGTA-TTTTTTAATCAAAA
*
1897512 TAAGTACCTAAAGTTATATTTTTAGTCAAAA
1 TAAGTACCTAAAG-TAT-TTTTTAATCAAAA
* *
1897543 TATGCACCTAAAGTATTTTTTAATCAAAA
1 TAAGTACCTAAAGTATTTTTTAATCAAAA
* *
1897572 TAGGTACCTAAATTATT
1 TAAGTACCTAAAGTATT
1897589 CAATGTTTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
29 26 0.40
30 16 0.25
31 23 0.35
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (29 bp):
TAAGTACCTAAAGTATTTTTTAATCAAAA
Found at i:1897728 original size:29 final size:27
Alignment explanation
Indices: 1897669--1897766 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 27
1897659 TGCAAAAAGT
*
1897669 AAAATACTTTAGGTATCTATTTTGATTAA
1 AAAATACTTTAGGTAT-TATTTTGA-CAA
*
1897698 AATATACTTTAGGTACTTATTTTGACAAA
1 AAAATACTTTAGGTA-TTATTTTGAC-AA
** *
1897727 AAAATAACTTTATATATTTACTTTGACCAA
1 AAAAT-ACTTTAGGTA-TTATTTTGA-CAA
1897757 AAAATACTTT
1 AAAATACTTT
1897767 TGATACTTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
29 33 0.57
30 24 0.41
31 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (27 bp):
AAAATACTTTAGGTATTATTTTGACAA
Found at i:1897893 original size:2 final size:2
Alignment explanation
Indices: 1897888--1897912 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1897878 ATTTCTAAAT
1897888 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1897913 TTAAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1900194 original size:2 final size:2
Alignment explanation
Indices: 1900187--1900215 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1900177 ACTGATTCTT
1900187 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1900216 TGCAATTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1907857 original size:47 final size:47
Alignment explanation
Indices: 1907798--1907891 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
1907788 AACTCTTCTT
1907798 GCATAGCCATAATTCAATGTTCATCGTTTAATGCTTCTTTAATATTC
1 GCATAGCCATAATTCAATGTTCATCGTTTAATGCTTCTTTAATATTC
1907845 GCATAGCCATAATTCAATGTTCATCGTTTAATGCTTCTTTAATATTC
1 GCATAGCCATAATTCAATGTTCATCGTTTAATGCTTCTTTAATATTC
1907892 TTAGGCACTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.43
Consensus pattern (47 bp):
GCATAGCCATAATTCAATGTTCATCGTTTAATGCTTCTTTAATATTC
Found at i:1913693 original size:2 final size:2
Alignment explanation
Indices: 1913686--1913785 Score: 175
Period size: 2 Copynumber: 50.5 Consensus size: 2
1913676 GGGAAAAATA
1913686 AT AT AT AT AT AT AT AT AT AT -T 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
*
1913727 AT AT AT AT AT AT AT AT AT AT AT CT 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
*
1913769 AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT A
1913786 GAATTTGTAC
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
1 1 0.01
2 92 0.99
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1913900 original size:7 final size:8
Alignment explanation
Indices: 1913871--1913904 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
1913861 TTTATATAAG
1913871 AAAAAATT
1 AAAAAATT
1913879 CAGAAAAATT
1 -A-AAAAATT
1913889 AAAAAATT
1 AAAAAATT
1913897 AAAAAATT
1 AAAAAATT
1913905 TAGTGAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 15 0.62
9 2 0.08
10 7 0.29
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (8 bp):
AAAAAATT
Found at i:1914362 original size:20 final size:21
Alignment explanation
Indices: 1914318--1914363 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
1914308 ATCAATGTTT
*
1914318 CAAGAACAATATCGACACTTG
1 CAAGAACAAAATCGACACTTG
*
1914339 -AAGAACAAAATCGATA-TTG
1 CAAGAACAAAATCGACACTTG
1914358 CAAGAA
1 CAAGAA
1914364 GAACAATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (21 bp):
CAAGAACAAAATCGACACTTG
Found at i:1916281 original size:299 final size:299
Alignment explanation
Indices: 1915743--1916343 Score: 1202
Period size: 299 Copynumber: 2.0 Consensus size: 299
1915733 CGAAAATATA
1915743 TCGGTAATAGTATTGACATCTTCATTTGGTCTCATCTTGAAGCTCTCATAATTATGATTGTGAAG
1 TCGGTAATAGTATTGACATCTTCATTTGGTCTCATCTTGAAGCTCTCATAATTATGATTGTGAAG
1915808 ACTAATCTAAGTTTCTCTTTCCACATTTGTTCCTTAATGTGTAACTTTAAGCTTATCCCAAATTT
66 ACTAATCTAAGTTTCTCTTTCCACATTTGTTCCTTAATGTGTAACTTTAAGCTTATCCCAAATTT
1915873 CTTTGGCATTGGAATAAAATCACATTCTCCCGTATTCATCGGGGCCAAGTGCACAAAATAGAATG
131 CTTTGGCATTGGAATAAAATCACATTCTCCCGTATTCATCGGGGCCAAGTGCACAAAATAGAATG
1915938 TGCATGGCCTTAGCATTGAGCTGTAACATTTTTCTTTCTTCTTCATTCCAAACCACCATATCTCT
196 TGCATGGCCTTAGCATTGAGCTGTAACATTTTTCTTTCTTCTTCATTCCAAACCACCATATCTCT
1916003 AATTGAAGTAGTATGGACTCTCATCATGAAATTCCATAC
261 AATTGAAGTAGTATGGACTCTCATCATGAAATTCCATAC
1916042 TCGGTAATAGTATTGACATCTTCATTTGGTCTCATCTTGAAGCTCTCATAATTATGATTGTGAAG
1 TCGGTAATAGTATTGACATCTTCATTTGGTCTCATCTTGAAGCTCTCATAATTATGATTGTGAAG
1916107 ACTAATCTAAGTTTCTCTTTCCACATTTGTTCCTTAATGTGTAACTTTAAGCTTATCCCAAATTT
66 ACTAATCTAAGTTTCTCTTTCCACATTTGTTCCTTAATGTGTAACTTTAAGCTTATCCCAAATTT
1916172 CTTTGGCATTGGAATAAAATCACATTCTCCCGTATTCATCGGGGCCAAGTGCACAAAATAGAATG
131 CTTTGGCATTGGAATAAAATCACATTCTCCCGTATTCATCGGGGCCAAGTGCACAAAATAGAATG
1916237 TGCATGGCCTTAGCATTGAGCTGTAACATTTTTCTTTCTTCTTCATTCCAAACCACCATATCTCT
196 TGCATGGCCTTAGCATTGAGCTGTAACATTTTTCTTTCTTCTTCATTCCAAACCACCATATCTCT
1916302 AATTGAAGTAGTATGGACTCTCATCATGAAATTCCATAC
261 AATTGAAGTAGTATGGACTCTCATCATGAAATTCCATAC
1916341 TCG
1 TCG
1916344 CAAATCACTT
Statistics
Matches: 302, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
299 302 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (299 bp):
TCGGTAATAGTATTGACATCTTCATTTGGTCTCATCTTGAAGCTCTCATAATTATGATTGTGAAG
ACTAATCTAAGTTTCTCTTTCCACATTTGTTCCTTAATGTGTAACTTTAAGCTTATCCCAAATTT
CTTTGGCATTGGAATAAAATCACATTCTCCCGTATTCATCGGGGCCAAGTGCACAAAATAGAATG
TGCATGGCCTTAGCATTGAGCTGTAACATTTTTCTTTCTTCTTCATTCCAAACCACCATATCTCT
AATTGAAGTAGTATGGACTCTCATCATGAAATTCCATAC
Found at i:1917937 original size:2 final size:2
Alignment explanation
Indices: 1917930--1917954 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1917920 ACCGATTCTT
1917930 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1917955 GTATGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1917959 original size:4 final size:4
Alignment explanation
Indices: 1917952--1920247 Score: 4290
Period size: 4 Copynumber: 582.8 Consensus size: 4
1917942 TATATATATA
1917952 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918000 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918048 TATG TATG TATG TATG T-TG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918095 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918143 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918191 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918239 TATG TATG TATG TATG TATG TATG -AT- TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918285 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918333 TATG TA-G TATG TATG TATG TATG TATG --TG TATG TATG TA-G TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918376 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918424 TATG TATG TATG TATGG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TAT-G TATG TATG TATG TATG TATG TATG TATG TATG
1918473 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918521 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918568 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918616 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918663 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918711 TATG TATG TATG TATG TATG --TG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918757 TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918804 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918852 TATG TATG TATG TATG TATG TATG --TG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918898 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1918946 TATG TATG -ATG TATG TATG TATG TATG TATG TATG TATG TATGG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT-G TATG
*
1918994 TATG TATG TATG TATG TCTG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919042 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919090 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919136 TATG TATG TATG TATG TATG TATG TAT- TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919183 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919230 TATG TATG TATG TTATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG -TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919279 TATG TATG TATG TATG TATG TATG TATG TAT- TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919326 TAT- TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919372 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919420 TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG --TG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919465 TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919512 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919560 TATG TATG TATG TATG TA-G TATG TATG TA-G TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919606 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919654 TATG TATG -ATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919701 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919749 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919796 TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919843 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919891 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919939 TATG TATG TATG TATG TATG TATG TATG TATG TAT- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1919986 TATG TATG TATG TATG TATG TATG TATG TATG TATG T-TG TATG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1920032 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1920079 TA-G TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1920125 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1920173 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1920221 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
1920248 AGATTTTGCA
Statistics
Matches: 2250, Mismatches: 2, Indels: 80
0.96 0.00 0.03
Matches are distributed among these distances:
2 10 0.00
3 82 0.04
4 2146 0.95
5 12 0.01
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:1920319 original size:45 final size:46
Alignment explanation
Indices: 1920251--1920337 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 46
1920241 TATGTATAGA
*
1920251 TTTTGCAATTCTAGTGAGCATATTAGGGTGTTTA-TCCCGTTAAAG
1 TTTTGCAATTCCAGTGAGCATATTAGGGTGTTTATTCCCGTTAAAG
* * *
1920296 TTTTGCTATTCCAGTGAGTATATTATGGTGTTTATTCCCGTT
1 TTTTGCAATTCCAGTGAGCATATTAGGGTGTTTATTCCCGTT
1920338 CACATATAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 30 0.81
46 7 0.19
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.45
Consensus pattern (46 bp):
TTTTGCAATTCCAGTGAGCATATTAGGGTGTTTATTCCCGTTAAAG
Found at i:1921633 original size:19 final size:20
Alignment explanation
Indices: 1921586--1921635 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
1921576 GAAACCCCTT
**
1921586 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
1921606 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
1921625 TGAAGATACAT
1 TGAAAATACAT
1921636 TCTCTTGGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:1923458 original size:24 final size:24
Alignment explanation
Indices: 1923430--1923490 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
1923420 TGGCAATGCA
*
1923430 CTTGGAATTTCAA-TGAACACAACT
1 CTTGGAACTTCAAGTG-ACACAACT
* **
1923454 CTTGGCACTTCAAGTGACACTTCT
1 CTTGGAACTTCAAGTGACACAACT
1923478 CTTGGAACTTCAA
1 CTTGGAACTTCAA
1923491 ACGACGTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 29 0.94
25 2 0.06
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (24 bp):
CTTGGAACTTCAAGTGACACAACT
Found at i:1924599 original size:15 final size:15
Alignment explanation
Indices: 1924578--1924625 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
1924568 AAAATATGGT
1924578 AATGAAATAATAAAA
1 AATGAAATAATAAAA
* *
1924593 GATGAAAGAATAAAGA
1 AATGAAATAATAAA-A
*
1924609 AATGAAATGATAAAA
1 AATGAAATAATAAAA
1924624 AA
1 AA
1924626 AAATGAAGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.17
Consensus pattern (15 bp):
AATGAAATAATAAAA
Found at i:1926021 original size:15 final size:15
Alignment explanation
Indices: 1925986--1926015 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1925976 CTTGGCTTCC
1925986 AACATGCATCTAGGT
1 AACATGCATCTAGGT
1926001 AACATGCATCTAGGT
1 AACATGCATCTAGGT
1926016 GTCATGGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (15 bp):
AACATGCATCTAGGT
Found at i:1939717 original size:21 final size:21
Alignment explanation
Indices: 1939693--1939735 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1939683 CCATGATCTG
1939693 CATTCTCTTCTGGTTCTTATT
1 CATTCTCTTCTGGTTCTTATT
1939714 CATTCTCTTCTGGTTCTTATT
1 CATTCTCTTCTGGTTCTTATT
1939735 C
1 C
1939736 TTGTATTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.26, G:0.09, T:0.56
Consensus pattern (21 bp):
CATTCTCTTCTGGTTCTTATT
Found at i:1941278 original size:24 final size:24
Alignment explanation
Indices: 1941251--1941306 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
1941241 TTTCTTCTCT
* *
1941251 TTTTTTTGTTTTTGAGTGCTTGAA
1 TTTTTTTGTTTTGGAGTGCTTCAA
* *
1941275 TTTTCTTCTTTTGGAGTGCTTCAA
1 TTTTTTTGTTTTGGAGTGCTTCAA
*
1941299 TTTCTTTG
1 TTTTTTTG
1941307 CTGATTTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.11, C:0.11, G:0.18, T:0.61
Consensus pattern (24 bp):
TTTTTTTGTTTTGGAGTGCTTCAA
Found at i:1943685 original size:2 final size:2
Alignment explanation
Indices: 1943678--1943710 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1943668 TGTCGTAAAT
1943678 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
1943711 GATTGACAAA
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:1944766 original size:2 final size:2
Alignment explanation
Indices: 1944759--1944795 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1944749 AATAACTGCC
1944759 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1944796 AAGATCATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1950092 original size:26 final size:26
Alignment explanation
Indices: 1950063--1950143 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
1950053 CTCATAAGAA
1950063 TAACTTCAAGTCTTCCAGACTTAAAC
1 TAACTTCAAGTCTTCCAGACTTAAAC
***
1950089 TAACTATTTTGTC-T-CA-ACATCT-AA-
1 TAACT-TCAAGTCTTCCAGAC-T-TAAAC
1950113 TAACTTCAAGTCTTCCAGACTTAAAC
1 TAACTTCAAGTCTTCCAGACTTAAAC
1950139 TAACT
1 TAACT
1950144 ATTTTGTCTC
Statistics
Matches: 41, Mismatches: 6, Indels: 16
0.65 0.10 0.25
Matches are distributed among these distances:
23 4 0.10
24 9 0.22
25 10 0.24
26 14 0.34
27 4 0.10
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.35
Consensus pattern (26 bp):
TAACTTCAAGTCTTCCAGACTTAAAC
Found at i:1950125 original size:50 final size:50
Alignment explanation
Indices: 1950061--1950162 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
1950051 ATCTCATAAG
1950061 AATAACTTCAAGTCTTCCAGACTTAAACTAACTATTTTGTCTCAACATCT
1 AATAACTTCAAGTCTTCCAGACTTAAACTAACTATTTTGTCTCAACATCT
1950111 AATAACTTCAAGTCTTCCAGACTTAAACTAACTATTTTGTCTCAACATCT
1 AATAACTTCAAGTCTTCCAGACTTAAACTAACTATTTTGTCTCAACATCT
1950161 AA
1 AA
1950163 AATGTTTCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (50 bp):
AATAACTTCAAGTCTTCCAGACTTAAACTAACTATTTTGTCTCAACATCT
Found at i:1950163 original size:26 final size:26
Alignment explanation
Indices: 1950084--1950163 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
1950074 CTTCCAGACT
1950084 TAAACTAACTATTTTGTCTCAACATC
1 TAAACTAACTATTTTGTCTCAACATC
***
1950110 T-AA-TAACT-TCAAGTCTTCCAGAC-T-
1 TAAACTAACTATTTTGTC-T-CA-ACATC
1950134 TAAACTAACTATTTTGTCTCAACATC
1 TAAACTAACTATTTTGTCTCAACATC
1950160 TAAA
1 TAAA
1950164 ATGTTTCAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 16
0.65 0.10 0.26
Matches are distributed among these distances:
23 4 0.10
24 9 0.22
25 10 0.25
26 13 0.32
27 4 0.10
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (26 bp):
TAAACTAACTATTTTGTCTCAACATC
Found at i:1954677 original size:22 final size:22
Alignment explanation
Indices: 1954652--1954698 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
1954642 TCTATGCTTT
1954652 TATACTATAGGCATTATGGTTA
1 TATACTATAGGCATTATGGTTA
1954674 TATACTATAGGCATTATGGTTA
1 TATACTATAGGCATTATGGTTA
1954696 TAT
1 TAT
1954699 TTGCTATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.43
Consensus pattern (22 bp):
TATACTATAGGCATTATGGTTA
Found at i:1954860 original size:12 final size:12
Alignment explanation
Indices: 1954840--1954870 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1954830 TAATCTCGGG
*
1954840 TTTGTTTTTTCA
1 TTTGATTTTTCA
1954852 TTTGATTTTTCA
1 TTTGATTTTTCA
1954864 TTTGATT
1 TTTGATT
1954871 ATCAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (12 bp):
TTTGATTTTTCA
Found at i:1955805 original size:2 final size:2
Alignment explanation
Indices: 1955798--1955844 Score: 78
Period size: 2 Copynumber: 23.5 Consensus size: 2
1955788 ATAGATTGCT
1955798 TA TA TA TA -A TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1955840 TA TA T
1 TA TA T
1955845 TAGTATTATG
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 40 0.93
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1961387 original size:3 final size:3
Alignment explanation
Indices: 1961370--1961469 Score: 184
Period size: 3 Copynumber: 33.7 Consensus size: 3
1961360 CAATCATGTA
*
1961370 ATT ATC ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1961417 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1961465 ATT AT
1 ATT AT
1961470 CACCATCATT
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 92 0.98
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1966729 original size:63 final size:63
Alignment explanation
Indices: 1966616--1966776 Score: 186
Period size: 63 Copynumber: 2.5 Consensus size: 63
1966606 TCTGGGCAAG
* *
1966616 ATGCATCGATGCATAAGTGAGTGCACCGATGCAT-ACTTAAATAAATAAACATCGAAGGTAGT-T
1 ATGCATCGATGCATAGGT-AGTGCA-CGATGCATCACTTAAATAAATAAACATCGAAGGTAATAT
* * *
1966679 AGTGCATCGATGCATAGGTAGTGCATCGATGCATCCCTTAAGAT-GA-AAACATCGAATGTAATA
1 A-TGCATCGATGCATAGGTAGTGCA-CGATGCATCACTTAA-ATAAATAAACATCGAAGGTAATA
1966742 T
63 T
*
1966743 ATGCATCGATGCATAGGTTGTGCACTGATGCATC
1 ATGCATCGATGCATAGGTAGTGCAC-GATGCATC
1966777 TGTGAGAGAA
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
62 1 0.01
63 59 0.69
64 24 0.28
65 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (63 bp):
ATGCATCGATGCATAGGTAGTGCACGATGCATCACTTAAATAAATAAACATCGAAGGTAATAT
Found at i:1967272 original size:59 final size:59
Alignment explanation
Indices: 1967105--1967279 Score: 169
Period size: 59 Copynumber: 3.0 Consensus size: 59
1967095 TGATTACCGA
* * * * *
1967105 ATGGAGCACTTTGTGTGCTAAAACGATAAGGAAA-CTATACTGAGTGTATAGATTTTCAT
1 ATGGAGCACTTAGAGTGCTAAAATGATAAGGAAATC-ATACTGAGTGTATGGATTTCCAT
* * * * ***
1967164 ATGGAGCACTTAGTGTGCT-AAATGATAAAGAAATCATATTAAAAATATGGATTTCCAT
1 ATGGAGCACTTAGAGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAT
* *
1967222 ATAGG-GCATGTTA-AGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATGGATTTCCA
1 AT-GGAGCA-CTTAGAGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCA
1967280 GATAAAGCAC
Statistics
Matches: 93, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
58 38 0.41
59 55 0.59
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.31
Consensus pattern (59 bp):
ATGGAGCACTTAGAGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAT
Found at i:1967396 original size:59 final size:59
Alignment explanation
Indices: 1967304--1967416 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 59
1967294 GGTGCTATAG
* * *
1967304 AAAATCATACTAATGGTATGGATTTTCACATAGGGCATTTTATGTGCTAAAATGGTAAC
1 AAAATCATACTAATGGTATGAATTTTCACATAGGGCACTTCATGTGCTAAAATGGTAAC
*
1967363 AAAATCATACTAATGGTATGAATTTTCGA-ATAGGGCACTTCGTGTGCTAAAATG
1 AAAATCATACTAATGGTATGAATTTTC-ACATAGGGCACTTCATGTGCTAAAATG
1967417 AAAGAGGAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 48 0.98
60 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (59 bp):
AAAATCATACTAATGGTATGAATTTTCACATAGGGCACTTCATGTGCTAAAATGGTAAC
Found at i:1967431 original size:59 final size:59
Alignment explanation
Indices: 1967304--1967442 Score: 149
Period size: 59 Copynumber: 2.4 Consensus size: 59
1967294 GGTGCTATAG
* * * * *
1967304 AAAATCATACTAATGGTATGGATTTTCACATAGGGCATTTTATGTGCTAAAATGGTAAC
1 AAAAGCATACTAATGGTATGAATTTTCACATAGGGCACTTCATGTGCTAAAATGGAAAC
* * *
1967363 AAAATCATACTAATGGTATGAATTTTCGA-ATAGGGCACTTCGTGTGCTAAAAT-GAAAG
1 AAAAGCATACTAATGGTATGAATTTTC-ACATAGGGCACTTCATGTGCTAAAATGGAAAC
*
1967421 AGGAAGCATACT-ATGTGTATGA
1 A-AAAGCATACTAATG-GTATGA
1967443 TCTTCCAGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
58 7 0.10
59 61 0.88
60 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (59 bp):
AAAAGCATACTAATGGTATGAATTTTCACATAGGGCACTTCATGTGCTAAAATGGAAAC
Found at i:1968029 original size:22 final size:23
Alignment explanation
Indices: 1968004--1968047 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1967994 TGCACTGTTC
1968004 ACTGTTCAC-AGTACTATTCATT
1 ACTGTTCACGAGTACTATTCATT
* *
1968026 ACTGTTTACGGGTACTATTCAT
1 ACTGTTCACGAGTACTATTCAT
1968048 AAAAGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (23 bp):
ACTGTTCACGAGTACTATTCATT
Found at i:1981607 original size:52 final size:52
Alignment explanation
Indices: 1981498--1981608 Score: 134
Period size: 52 Copynumber: 2.1 Consensus size: 52
1981488 ATGAGATTAC
* * * *
1981498 ATTATGTTGATATGTTGAATTCAGAATATATATTGTGCATTCGAAATATTTG
1 ATTATGTTGAAATGTTGAATTCAGAATATATATTATGCAGTCGAAATACTTG
* * *
1981550 ATTATGTTGAAATGTTGAATTCAGAGTATAT-TCTATGTAGTCGGAATACTTG
1 ATTATGTTGAAATGTTGAATTCAGAATATATAT-TATGCAGTCGAAATACTTG
*
1981602 TTTATGT
1 ATTATGT
1981609 AAATATTGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
51 1 0.02
52 49 0.98
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (52 bp):
ATTATGTTGAAATGTTGAATTCAGAATATATATTATGCAGTCGAAATACTTG
Found at i:1982588 original size:40 final size:40
Alignment explanation
Indices: 1982509--1982588 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
1982499 ATAGGAGTCA
* *
1982509 AATATTGCACCGTAGTGCTGAGGTCGAGCCTTGCTCACCT
1 AATATTGCACCGTAGTGCTGAGGTCGAGCCGTGCCCACCT
* * * *
1982549 AATATTGCTCTGTAGTGCTGAGGTCGGGTCGTGCCCACCT
1 AATATTGCACCGTAGTGCTGAGGTCGAGCCGTGCCCACCT
1982589 TATACACCGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (40 bp):
AATATTGCACCGTAGTGCTGAGGTCGAGCCGTGCCCACCT
Found at i:1994904 original size:16 final size:16
Alignment explanation
Indices: 1994883--1994913 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1994873 AGGAATGTTG
1994883 TGACATCACACATTAC
1 TGACATCACACATTAC
1994899 TGACATCACACATTA
1 TGACATCACACATTA
1994914 TTGAAGCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.26
Consensus pattern (16 bp):
TGACATCACACATTAC
Found at i:1998698 original size:2 final size:2
Alignment explanation
Indices: 1998691--1998721 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1998681 AATAACTGCC
1998691 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 A
1998722 AAGATCATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.