Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 315 of 344
Found at i:103530093 original size:19 final size:19
Alignment explanation
Indices: 103530049--103530100 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
103530039 AATTACAAAA
* *
103530049 AAAAATCAATATAATTTTT
1 AAAATTCAAAATAATTTTT
103530068 AAGAATTCAAAATAATTTTT
1 AA-AATTCAAAATAATTTTT
103530088 AAAATTCAAAATA
1 AAAATTCAAAATA
103530101 TTTCTAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:103530108 original size:18 final size:19
Alignment explanation
Indices: 103530049--103530108 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 19
103530039 AATTACAAAA
* * *
103530049 AAAAATCAATATAATTTTT
1 AAAATTCAAAATAATTTCT
*
103530068 AAGAATTCAAAATAATTTTT
1 AA-AATTCAAAATAATTTCT
103530088 AAAATTCAAAAT-ATTTCT
1 AAAATTCAAAATAATTTCT
103530106 AAA
1 AAA
103530109 GAATATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.22
19 12 0.32
20 17 0.46
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTCAAAATAATTTCT
Found at i:103530411 original size:15 final size:16
Alignment explanation
Indices: 103530391--103530420 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
103530381 ATATAGAAAG
103530391 AAATTAA-AAATAAAA
1 AAATTAAGAAATAAAA
103530406 AAATTAAGAAATAAA
1 AAATTAAGAAATAAA
103530421 TTTATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AAATTAAGAAATAAAA
Found at i:103530928 original size:17 final size:19
Alignment explanation
Indices: 103530906--103530940 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
103530896 GTTCTCTATG
103530906 TATA-TTTTCT-TAATTTT
1 TATATTTTTCTATAATTTT
103530923 TATATTTTTCTATAATTT
1 TATATTTTTCTATAATTT
103530941 AGAAAACTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (19 bp):
TATATTTTTCTATAATTTT
Found at i:103531464 original size:38 final size:38
Alignment explanation
Indices: 103531383--103531463 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
103531373 TATTTAGTAA
* **
103531383 AATAAAATATTTATTATATTTATTTTTATTTTTAATAT
1 AATAAAACATTTATTATATTTATTAGTATTTTTAATAT
103531421 AATAAAACATTTATTATATTTATGGTAGTATTTTTTAATAT
1 AATAAAACATTTATTATATTTAT--TAGTA-TTTTTAATAT
103531462 AA
1 AA
103531464 ATATTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 22 0.59
40 3 0.08
41 12 0.32
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (38 bp):
AATAAAACATTTATTATATTTATTAGTATTTTTAATAT
Found at i:103536111 original size:21 final size:21
Alignment explanation
Indices: 103536085--103536125 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
103536075 AGACGAGCAA
* *
103536085 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
103536106 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
103536126 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:103541731 original size:31 final size:31
Alignment explanation
Indices: 103541695--103541788 Score: 179
Period size: 31 Copynumber: 3.0 Consensus size: 31
103541685 TTCATCCAGG
*
103541695 TAAGCCTTCTTTTTCTTCCGTTCTTCAACTT
1 TAAGCCTTCTTTTTCTTCCATTCTTCAACTT
103541726 TAAGCCTTCTTTTTCTTCCATTCTTCAACTT
1 TAAGCCTTCTTTTTCTTCCATTCTTCAACTT
103541757 TAAGCCTTCTTTTTCTTCCATTCTTCAACTT
1 TAAGCCTTCTTTTTCTTCCATTCTTCAACTT
103541788 T
1 T
103541789 TTCCATCTCA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.15, C:0.29, G:0.04, T:0.52
Consensus pattern (31 bp):
TAAGCCTTCTTTTTCTTCCATTCTTCAACTT
Found at i:103546444 original size:14 final size:15
Alignment explanation
Indices: 103546425--103546457 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
103546415 GTTTAATTTC
103546425 AAAATTCAAAAAAA-
1 AAAATTCAAAAAAAT
*
103546439 AAAATTTAAAAAAAT
1 AAAATTCAAAAAAAT
103546454 AAAA
1 AAAA
103546458 ATTGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATTCAAAAAAAT
Found at i:103546823 original size:19 final size:18
Alignment explanation
Indices: 103546778--103546824 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
103546768 ATGAATCTCC
*
103546778 AAAAAAAAAGTTTCAAAG
1 AAAAAAAAAGCTTCAAAG
* *
103546796 AGAAAAAAAGCTTCAAAAT
1 AAAAAAAAAGCTTC-AAAG
103546815 AAAAAAAAAG
1 AAAAAAAAAG
103546825 GGGAGAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.70, C:0.06, G:0.11, T:0.13
Consensus pattern (18 bp):
AAAAAAAAAGCTTCAAAG
Found at i:103546930 original size:3 final size:3
Alignment explanation
Indices: 103546922--103546980 Score: 73
Period size: 3 Copynumber: 18.0 Consensus size: 3
103546912 GCTCGGTTTT
103546922 GAA GAA GAA GAA GAA GGAA GAA GAAA GAA GAA GAAA GAAA GAGA GAA
1 GAA GAA GAA GAA GAA -GAA GAA G-AA GAA GAA G-AA G-AA GA-A GAA
103546969 GAA GAA GAA GAA
1 GAA GAA GAA GAA
103546981 AAAAAAAGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 36 0.69
4 16 0.31
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:103546943 original size:10 final size:10
Alignment explanation
Indices: 103546922--103546978 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
103546912 GCTCGGTTTT
103546922 GAAGAA-GAA
1 GAAGAAGGAA
103546931 GAAGAAGGAA
1 GAAGAAGGAA
*
103546941 GAAGAAAGAA
1 GAAGAAGGAA
*
103546951 GAAGAAAGAAA
1 GAAG-AAGGAA
103546962 GAGAGAA-GAA
1 GA-AGAAGGAA
103546972 GAAGAAG
1 GAAGAAG
103546979 AAAAAAAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 10 0.25
10 20 0.50
11 8 0.20
12 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (10 bp):
GAAGAAGGAA
Found at i:103547118 original size:12 final size:11
Alignment explanation
Indices: 103547101--103547141 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
103547091 GTAGCCCAAC
103547101 AAAAAAAAGAA
1 AAAAAAAAGAA
103547112 AAAAAAAAGCAA
1 AAAAAAAAG-AA
* *
103547124 AAAACAAAGCA
1 AAAAAAAAGAA
103547135 AAAAAAA
1 AAAAAAA
103547142 GAGGGCAGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:103547276 original size:7 final size:7
Alignment explanation
Indices: 103547254--103547307 Score: 81
Period size: 7 Copynumber: 7.4 Consensus size: 7
103547244 AAAAAAAAGC
103547254 AAGAAAA
1 AAGAAAA
103547261 GAAGAAAA
1 -AAGAAAA
*
103547269 AGGAAAA
1 AAGAAAA
103547276 AAGAAAA
1 AAGAAAA
103547283 AAGAAAA
1 AAGAAAA
103547290 AAGAAAAA
1 AAG-AAAA
103547298 AAGAAAA
1 AAGAAAA
103547305 AAG
1 AAG
103547308 GAAGAAAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
7 29 0.67
8 14 0.33
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:103547860 original size:19 final size:19
Alignment explanation
Indices: 103547838--103547892 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
103547828 TATCGCTCGG
*
103547838 ATTTCGTGTTTCAAAAGAA
1 ATTTCGTGTTTCAAAAAAA
* *
103547857 ATTTCCGCGTTTTAAAAAAA
1 ATTT-CGTGTTTCAAAAAAA
* *
103547877 ATATCGTATTTCAAAA
1 ATTTCGTGTTTCAAAA
103547893 TTTCGTGTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (19 bp):
ATTTCGTGTTTCAAAAAAA
Found at i:103547898 original size:15 final size:15
Alignment explanation
Indices: 103547874--103547966 Score: 71
Period size: 15 Copynumber: 5.9 Consensus size: 15
103547864 CGTTTTAAAA
* *
103547874 AAAATATCGTATTTC
1 AAAATTTCGTGTTTC
*
103547889 AAAATTTCGTGTTCC
1 AAAATTTCGTGTTTC
103547904 AAAATTTGCGTGTTT-
1 AAAATTT-CGTGTTTC
*
103547919 AAAATCCTCGTGTTTTC
1 AAAAT-TTCGTG-TTTC
* *
103547936 AAAAATTCAGTGTTTTG
1 AAAATTTC-GTG-TTTC
*
103547953 AAAATTTTGTGTTT
1 AAAATTTCGTGTTT
103547967 TTTAAAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
15 31 0.49
16 15 0.24
17 17 0.27
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (15 bp):
AAAATTTCGTGTTTC
Found at i:103548079 original size:19 final size:19
Alignment explanation
Indices: 103548055--103548109 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
103548045 TCGGTGTTTC
* **
103548055 AAAATTTTTCATGTTTTAA
1 AAAATTTTTCGTGTTCAAA
103548074 AAAATTTTCTCGTGTTCAAA
1 AAAATTTT-TCGTGTTCAAA
103548094 AAAATTTTTCGTGTTC
1 AAAATTTTTCGTGTTC
103548110 TTTTTAAAAA
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:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (19 bp):
AAAATTTTTCGTGTTCAAA
Found at i:103548146 original size:17 final size:17
Alignment explanation
Indices: 103548121--103548373 Score: 89
Period size: 17 Copynumber: 14.8 Consensus size: 17
103548111 TTTTAAAAAG
*
103548121 AAAACTTTCGTGTTTCA
1 AAAATTTTCGTGTTTCA
103548138 AAAATTTTCACGT-TTTCA
1 AAAATTTT--CGTGTTTCA
** * *
103548156 AAAATTCCCATG-ATCAAAA
1 AAAATTTTCGTGTTTC---A
103548175 AAAATTTT-GTGTTTTCAA
1 AAAATTTTCGTG-TTTC-A
*
103548193 AAAATTTTCATGTTTCA
1 AAAATTTTCGTGTTTCA
103548210 AAAA-TTTCGTGTTTTCA
1 AAAATTTTCGTG-TTTCA
* * *
103548227 ACAATTCTCATGTTTC-
1 AAAATTTTCGTGTTTCA
* * *
103548243 ACAATTTTCGCGCTTCA
1 AAAATTTTCGTGTTTCA
**
103548260 AAAA-AATCAG-GTTTTCA
1 AAAATTTTC-GTG-TTTCA
**
103548277 AAAAAATTCGTGTATTTC-
1 AAAATTTTCGTG--TTTCA
*
103548295 AAAATTGTCGTGTTCTCA
1 AAAATTTTCGTGTT-TCA
*
103548313 AAAA-TTTCATGTTT-A
1 AAAATTTTCGTGTTTCA
* * *
103548328 AGAA-TTTCGTGTCTCT
1 AAAATTTTCGTGTTTCA
* *
103548344 AAAA-TCTCGTGTTTTA
1 AAAATTTTCGTGTTTCA
*
103548360 AAAATTTTCTTGTT
1 AAAATTTTCGTGTT
103548374 AAAATAAAAA
Statistics
Matches: 175, Mismatches: 40, Indels: 42
0.68 0.16 0.16
Matches are distributed among these distances:
15 12 0.07
16 43 0.25
17 53 0.30
18 49 0.28
19 16 0.09
20 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (17 bp):
AAAATTTTCGTGTTTCA
Found at i:103548194 original size:18 final size:18
Alignment explanation
Indices: 103548173--103548227 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
103548163 CCATGATCAA
103548173 AAAAAATTTTGTGTTTTC
1 AAAAAATTTTGTGTTTTC
*
103548191 AAAAAATTTTCATG-TTTC
1 AAAAAATTTT-GTGTTTTC
*
103548209 -AAAAATTTCGTGTTTTC
1 AAAAAATTTTGTGTTTTC
103548226 AA
1 AA
103548228 CAATTCTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 2 0.06
17 12 0.39
18 15 0.48
19 2 0.06
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (18 bp):
AAAAAATTTTGTGTTTTC
Found at i:103548243 original size:34 final size:33
Alignment explanation
Indices: 103548174--103548365 Score: 113
Period size: 34 Copynumber: 5.7 Consensus size: 33
103548164 CATGATCAAA
* *
103548174 AAAAATTTTGTGTTTTCAAAAAATTTTCATGTTTC
1 AAAAATTTCGTGTTTTC--AAAATTATCATGTTTC
*
103548209 AAAAATTTCGTGTTTTCAACAATTCTCATGTTTC
1 AAAAATTTCGTGTTTTCAA-AATTATCATGTTTC
* * * * ** *
103548243 ACAATTTTCGCG-CTTCAAAAAAATCAGGTTTTC
1 AAAAATTTCGTGTTTTCAAAATTATCATG-TTTC
* * *
103548276 AAAAAAATTCGTGTATTTCAAAATTGTCGTGTTCTC
1 -AAAAATTTCGTGT-TTTCAAAATTATCATGTT-TC
* * *
103548312 AAAAATTTCATG-TTT-AAGAATT-TCGTGTCTC
1 AAAAATTTCGTGTTTTCAA-AATTATCATGTTTC
* * *
103548343 TAAAATCTCGTGTTTTAAAAATT
1 AAAAATTTCGTGTTTTCAAAATT
103548366 TTCTTGTTAA
Statistics
Matches: 122, Mismatches: 26, Indels: 21
0.72 0.15 0.12
Matches are distributed among these distances:
31 11 0.09
32 21 0.17
33 20 0.16
34 30 0.25
35 28 0.23
36 12 0.10
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (33 bp):
AAAAATTTCGTGTTTTCAAAATTATCATGTTTC
Found at i:103548360 original size:32 final size:31
Alignment explanation
Indices: 103548278--103548362 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 31
103548268 AGGTTTTCAA
103548278 AAAAATTCGTGTATTTCAAAATTGTCGTGTTCTC
1 AAAAATTCGTGT-TTT-AAAATT-TCGTGTTCTC
*
103548312 AAAAATTTCATG-TTTAAGAATTTCGTG-TCTC
1 AAAAA-TTCGTGTTTTAA-AATTTCGTGTTCTC
*
103548343 TAAAATCTCGTGTTTTAAAA
1 AAAAAT-TCGTGTTTTAAAA
103548363 ATTTTCTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
30 1 0.02
31 14 0.32
32 12 0.27
33 7 0.16
34 5 0.11
35 5 0.11
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (31 bp):
AAAAATTCGTGTTTTAAAATTTCGTGTTCTC
Found at i:103548363 original size:16 final size:16
Alignment explanation
Indices: 103548174--103548366 Score: 77
Period size: 16 Copynumber: 11.5 Consensus size: 16
103548164 CATGATCAAA
*
103548174 AAAAATTTTGTGTTTT
1 AAAAATTTCGTGTTTT
* *
103548190 CAAAAAATTTTCATGTTTC
1 --AAAAA-TTTCGTGTTTT
103548209 AAAAATTTCGTGTTTT
1 AAAAATTTCGTGTTTT
* * *
103548225 CAACAATTCTCATGTTTC
1 -AAAAATT-TCGTGTTTT
* * * * *
103548243 ACAATTTTCGCGCTTC
1 AAAAATTTCGTGTTTT
**
103548259 AAAAAAATCAG-GTTTT
1 AAAAATTTC-GTGTTTT
*
103548275 CAAAAAAATTCGTGTATTT
1 --AAAAATTTCGTGT-TTT
* *
103548294 CAAAATTGTCGTGTTCTC
1 AAAAATT-TCGTGTT-TT
*
103548312 AAAAATTTCATG-TTT
1 AAAAATTTCGTGTTTT
* *
103548327 AAGAATTTCGTGTCTCT
1 AAAAATTTCGTGT-TTT
*
103548344 -AAAATCTCGTGTTTT
1 AAAAATTTCGTGTTTT
103548359 AAAAATTT
1 AAAAATTT
103548367 TCTTGTTAAA
Statistics
Matches: 128, Mismatches: 34, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
15 13 0.10
16 40 0.31
17 29 0.23
18 35 0.27
19 11 0.09
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (16 bp):
AAAAATTTCGTGTTTT
Found at i:103548366 original size:32 final size:32
Alignment explanation
Indices: 103548278--103548366 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 32
103548268 AGGTTTTCAA
*
103548278 AAAAATTCGTGTATTTCAAAATTGTCGTGTTCTC
1 AAAAATTCGTGT-TTTAAAAATT-TCGTGTTCTC
* *
103548312 AAAAATTTCATG-TTTAAGAATTTCGTG-TCTC
1 AAAAA-TTCGTGTTTTAAAAATTTCGTGTTCTC
*
103548343 TAAAATCTCGTGTTTTAAAAATTT
1 AAAAAT-TCGTGTTTTAAAAATTT
103548367 TCTTGTTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
30 1 0.02
31 12 0.26
32 15 0.33
33 8 0.17
34 5 0.11
35 5 0.11
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (32 bp):
AAAAATTCGTGTTTTAAAAATTTCGTGTTCTC
Found at i:103563025 original size:94 final size:90
Alignment explanation
Indices: 103562865--103563032 Score: 257
Period size: 94 Copynumber: 1.8 Consensus size: 90
103562855 GGATGGTTGA
* *
103562865 GCATCCGAACTCGTTGGAGTTGAGTCGAGTTCATAGATGCGAATGTCCGAACTCGTTGAGTTGAG
1 GCATCCGAACTCGTTGGAGTTGAGTCGAGTTCATAGATGCGAACGCCCGAACTCGTTGAGTTGAG
103562930 TCCGAGTTCGTGAAAATGTAACTAG
66 TCCGAGTTCGTGAAAATGTAACTAG
*
103562955 GCATCCGAACTCGTT-GAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGGAGTTGAGT-CGAGTTCA--TA--GATGCGAACGCCCGAACTCGTTGAG
103563019 TTGAGTCCGAGTTC
61 TTGAGTCCGAGTTC
103563033 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
89 9 0.13
90 23 0.33
92 2 0.03
94 36 0.51
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (90 bp):
GCATCCGAACTCGTTGGAGTTGAGTCGAGTTCATAGATGCGAACGCCCGAACTCGTTGAGTTGAG
TCCGAGTTCGTGAAAATGTAACTAG
Found at i:103566433 original size:17 final size:18
Alignment explanation
Indices: 103566413--103566451 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
103566403 GTTATTGGGT
*
103566413 TTTTGTTATT-ATTTTTG
1 TTTTGTTATTAATTTTGG
*
103566430 TTTTGTTTTTAATTTTGG
1 TTTTGTTATTAATTTTGG
103566448 TTTT
1 TTTT
103566452 TTGGTTGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.10, C:0.00, G:0.13, T:0.77
Consensus pattern (18 bp):
TTTTGTTATTAATTTTGG
Found at i:103566727 original size:44 final size:44
Alignment explanation
Indices: 103566669--103567027 Score: 585
Period size: 44 Copynumber: 8.2 Consensus size: 44
103566659 AGGAACACCC
* * * *
103566669 ATCTGTTATTTTCGATCTGCTCTCTGCCAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
*
103566713 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAAAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
* *
103566757 ATCTGCTATATTTGATCTGCTCTCCGCCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
*
103566801 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
*
103566845 ATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
*
103566889 ATCTGCTATCTTCGATCTGCTCTCCGCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
* *
103566933 ATCTGCTACCTTCGATATGCTCTCCGCCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
* *
103566977 ATCTACTATCTTCGATCTGCTCTCCGCCAATACGGAGACGCC-A
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
103567020 ATCTGCTA
1 ATCTGCTA
103567028 GATTCGCCAA
Statistics
Matches: 292, Mismatches: 23, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
43 8 0.03
44 284 0.97
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
Found at i:103594644 original size:194 final size:192
Alignment explanation
Indices: 103594097--103594711 Score: 1097
Period size: 192 Copynumber: 3.2 Consensus size: 192
103594087 CTTTCCAAGG
*
103594097 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
103594161 TAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
*
103594226 TTTATGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGACTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
103594288 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
* *
103594353 TAAGAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTAG
66 TAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
*
103594418 TTTATGTTTTAAATTGACTCATGTTACGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
103594480 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCATCAAGACATGTTGAGGTATTTTTAAATTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCC-TCAAGACACGTTGAGGTATTTTTAAATTT
*
103594545 TTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
65 TT-AAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
*
103594610 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
129 AGTTTATGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* **
103594674 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
103594712 GGCTCACATG
Statistics
Matches: 406, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
191 60 0.15
192 161 0.40
193 30 0.07
194 123 0.30
195 32 0.08
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:103594751 original size:16 final size:17
Alignment explanation
Indices: 103594730--103594763 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
103594720 TGCTGAGGTA
*
103594730 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
103594746 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
103594763 T
1 T
103594764 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:103594873 original size:84 final size:87
Alignment explanation
Indices: 103594669--103594911 Score: 289
Period size: 91 Copynumber: 2.7 Consensus size: 87
103594659 TAATTTTTGT
103594669 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CAC--GCTGAGGTATTT
* **
103594733 TCAATTTATGTTTTTTTCAATCTATGC
62 TCAATTTATGCTTTACTCAATCTA-GC
* * *
103594760 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAG-CACGCTGAGGTATTTTCA
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACGCTGAGGTATTTTCA
*
103594824 ATTTCTGCTTTACT-AATTCTA-C
65 ATTTATGCTTTACTCAA-TCTAGC
* *
103594846 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-C-CACGCTGAGGTATTTTC
103594910 AA
64 AA
103594912 ATTTTGTTTT
Statistics
Matches: 135, Mismatches: 12, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
84 35 0.26
86 6 0.04
87 20 0.15
88 29 0.21
90 3 0.02
91 41 0.30
92 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (87 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACGCTGAGGTATTTTCAA
TTTATGCTTTACTCAATCTAGC
Found at i:103595112 original size:54 final size:54
Alignment explanation
Indices: 103595023--103595188 Score: 246
Period size: 54 Copynumber: 3.1 Consensus size: 54
103595013 TCAATTTCTA
103595023 CTTTTCAATTTCTGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
103595077 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAAAGGTGAGTTGAGC
1 CTTTTCAATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
103595131 CTTTTGCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
103595186 CTT
1 CTT
103595189 GGCTCACGTG
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
53 13 0.13
54 42 0.42
55 40 0.40
56 6 0.06
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:103595494 original size:30 final size:30
Alignment explanation
Indices: 103595460--103595561 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
103595450 TAAAAAATAA
* *
103595460 AAATTGCATTTTGACCCCTAAACTTTTCCT
1 AAATTTCATTTTGACCCCTAAACTTTTCTT
*
103595490 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTC-TT
* * *
103595520 AAATTTCACTTAGACCCCTAAACTTTTATT
1 AAATTTCATTTTGACCCCTAAACTTTTCTT
103595550 AAATTTCATTTT
1 AAATTTCATTTT
103595562 AATCCTAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
29 4 0.07
30 54 0.89
31 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTT
Found at i:103595957 original size:19 final size:19
Alignment explanation
Indices: 103595933--103595989 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
103595923 GCTCGGTTTT
*
103595933 GAAGAAGAAGAAGAAGGAA
1 GAAGAAGAAGAAGAAAGAA
* *
103595952 GAAGAAAAAAAAGAAAGAAA
1 GAAGAAGAAGAAGAAAG-AA
103595972 GAGAGAAGAAAGAAGAAA
1 GA-AGAAG-AAGAAGAAA
103595990 AAAAGAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 4 0.13
22 8 0.27
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
GAAGAAGAAGAAGAAAGAA
Found at i:103595985 original size:31 final size:29
Alignment explanation
Indices: 103595940--103595997 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
103595930 TTTGAAGAAG
*
103595940 AAGAAGAAGGAAGAAGAAAAAAAAGAAAGA
1 AAGAAGAAGAAAGAAG-AAAAAAAGAAAGA
103595970 AAGAGAGAAGAAAGAAGAAAAAAAGAAA
1 AAGA-AGAAGAAAGAAGAAAAAAAGAAA
103595998 AAAAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (29 bp):
AAGAAGAAGAAAGAAGAAAAAAAGAAAGA
Found at i:103596068 original size:18 final size:18
Alignment explanation
Indices: 103596041--103596078 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
103596031 AACCGGGTAT
* *
103596041 AACCCGACCCGATCCAGC
1 AACCCAACCCGACCCAGC
103596059 AACCCAACCCGACCCAGC
1 AACCCAACCCGACCCAGC
103596077 AA
1 AA
103596079 GCCATTAGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.50, G:0.13, T:0.03
Consensus pattern (18 bp):
AACCCAACCCGACCCAGC
Found at i:103596285 original size:22 final size:21
Alignment explanation
Indices: 103596260--103596334 Score: 80
Period size: 22 Copynumber: 3.3 Consensus size: 21
103596250 GCAGCCCAGC
103596260 AGAAAAAAAAGGAAG-AAAAAGA
1 AGAAAAAAAA--AAGAAAAAAGA
103596282 AGAAAAAGGAAAAAGAAAAAAGA
1 AGAAAAA--AAAAAGAAAAAAGA
*
103596305 AAAAAGAAAAAAAGAAAAAAGGA
1 AGAAA-AAAAAAAGAAAAAA-GA
103596328 AGAAAAA
1 AGAAAAA
103596335 GGGGTTCAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
22 24 0.52
23 17 0.37
24 5 0.11
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAAAGAAAAAAGA
Found at i:103596287 original size:19 final size:19
Alignment explanation
Indices: 103596260--103596335 Score: 86
Period size: 19 Copynumber: 4.1 Consensus size: 19
103596250 GCAGCCCAGC
*
103596260 AGAAAAAAAAGGAAGAAAA
1 AGAAGAAAAAGGAAGAAAA
*
103596279 AGAAGAAAAAGGAAAAAGAA
1 AGAAGAAAAAGGAAGAA-AA
* *
103596299 AAAAGAAAAAAGAA-AAAA
1 AGAAGAAAAAGGAAGAAAA
103596317 AG-A-AAAAAGGAAGAAAA
1 AGAAGAAAAAGGAAGAAAA
103596334 AG
1 AG
103596336 GGGTTCAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
16 8 0.16
17 7 0.14
18 3 0.06
19 17 0.35
20 14 0.29
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AGAAGAAAAAGGAAGAAAA
Found at i:103596295 original size:7 final size:7
Alignment explanation
Indices: 103596284--103596325 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
103596274 GAAAAAGAAG
*
103596284 AAAAAGG
1 AAAAAGA
103596291 AAAAAGA
1 AAAAAGA
103596298 AAAAAGA
1 AAAAAGA
103596305 AAAAAGAA
1 AAAAAG-A
103596313 AAAAAGA
1 AAAAAGA
103596320 AAAAAG
1 AAAAAG
103596326 GAAGAAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:103596303 original size:14 final size:14
Alignment explanation
Indices: 103596274--103596323 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
103596264 AAAAAAGGAA
103596274 GAAAAAGAAGAAAAAG
1 GAAAAAG-A-AAAAAG
103596290 GAAAAAGAAAAAAG
1 GAAAAAGAAAAAAG
* *
103596304 AAAAAAGAAAAAAA
1 GAAAAAGAAAAAAG
103596318 GAAAAA
1 GAAAAA
103596324 AGGAAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 23 0.74
15 1 0.03
16 7 0.23
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
GAAAAAGAAAAAAG
Found at i:103596998 original size:35 final size:35
Alignment explanation
Indices: 103596946--103597036 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 35
103596936 AAAAAAAAAT
* *
103596946 AATTTC-GTATTTCAAAAATTTTCGTGTTTCCAAA
1 AATTTCAGTGTTTTAAAAATTTTCGTGTTTCCAAA
* ** *
103596980 ATTTTGC-GTGTTTTAAAAATCCTCGTGTTTTCAAA
1 AATTT-CAGTGTTTTAAAAATTTTCGTGTTTCCAAA
*
103597015 AATTTCAGTGTTTTGAAAATTT
1 AATTTCAGTGTTTTAAAAATTT
103597037 GTGTTTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
34 5 0.11
35 40 0.89
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (35 bp):
AATTTCAGTGTTTTAAAAATTTTCGTGTTTCCAAA
Found at i:103597025 original size:18 final size:17
Alignment explanation
Indices: 103596946--103597043 Score: 87
Period size: 17 Copynumber: 5.8 Consensus size: 17
103596936 AAAAAAAAAT
*
103596946 AATTTCGT-ATTTCAAA
1 AATTTCGTGTTTTCAAA
*
103596962 AATTTTCGTGTTTCCAAA
1 AA-TTTCGTGTTTTCAAA
*
103596980 ATTTTGCGTGTTTT-AAA
1 AATTT-CGTGTTTTCAAA
*
103596997 AATCCTCGTGTTTTCAAA
1 AAT-TTCGTGTTTTCAAA
*
103597015 AATTTCAGTGTTTT-GAA
1 AATTTC-GTGTTTTCAAA
103597032 AATTT-GTGTTTT
1 AATTTCGTGTTTT
103597044 TTTTTTAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
15 7 0.10
16 2 0.03
17 31 0.46
18 28 0.41
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (17 bp):
AATTTCGTGTTTTCAAA
Found at i:103597165 original size:21 final size:21
Alignment explanation
Indices: 103597139--103597194 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
103597129 TCGGTGTTTC
103597139 AAAATTTTTCATGTTTTC-AAA
1 AAAATTTTTC-TGTTTTCAAAA
* *
103597160 AAAATTTCTC-GTGTTCAAAA
1 AAAATTTTTCTGTTTTCAAAA
103597180 AAAATTTTTCGTGTT
1 AAAATTTTTC-TGTT
103597195 CTTTTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 5 0.18
20 12 0.43
21 9 0.32
22 2 0.07
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.45
Consensus pattern (21 bp):
AAAATTTTTCTGTTTTCAAAA
Found at i:103597180 original size:20 final size:20
Alignment explanation
Indices: 103597157--103597195 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
103597147 TCATGTTTTC
103597157 AAAAAAATTTCTCGTGTTCA
1 AAAAAAATTTCTCGTGTTCA
*
103597177 AAAAAAATTTTTCGTGTTC
1 AAAAAAATTTCTCGTGTTC
103597196 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAAAATTTCTCGTGTTCA
Found at i:103597231 original size:17 final size:17
Alignment explanation
Indices: 103597205--103597491 Score: 118
Period size: 18 Copynumber: 16.4 Consensus size: 17
103597195 CTTTTTTAAA
*
103597205 AAAAACTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
103597222 AAAAATTTTCACGT-TTTC
1 AAAAATTTT--CGTGTTTC
** * *
103597240 AAAAATTCCCATG-ATC
1 AAAAATTTTCGTGTTTC
**
103597256 AAAAAAAAATT-GTGTTTTC
1 --AAAAATTTTCGTG-TTTC
*
103597275 AAAAAATTTTCATGTTTC
1 -AAAAATTTTCGTGTTTC
*
103597293 AAAAATTTTCGTATTTTC
1 AAAAATTTTCGT-GTTTC
103597311 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* * *
103597329 AACAATTCTCATGTTTC
1 AAAAATTTTCGTGTTTC
** * *
103597346 ACGAATTTTCGCGCTTC
1 AAAAATTTTCGTGTTTC
***
103597363 AAAAAAAAATCAG-GTTTTC
1 -AAAAATTTTC-GTG-TTTC
** *
103597382 AAAAAAATTCGCGTATTTC
1 --AAAAATTTTCGTGTTTC
*
103597401 -AAAATTGTCGTGTTCTC
1 AAAAATTTTCGTGTT-TC
*
103597418 AAAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTC
* * *
103597435 AAGAATTTTCGCGTCTC
1 AAAAATTTTCGTGTTTC
* * *
103597452 TAAAATTCTCGTGTTTT
1 AAAAATTTTCGTGTTTC
*
103597469 AAAAATTTTTCTTGTTT-
1 AAAAA-TTTTCGTGTTTC
103597486 AAAAAT
1 AAAAAT
103597492 AAAAATAAAA
Statistics
Matches: 197, Mismatches: 55, Indels: 37
0.68 0.19 0.13
Matches are distributed among these distances:
16 16 0.08
17 72 0.37
18 86 0.44
19 16 0.08
20 7 0.04
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:103597346 original size:35 final size:34
Alignment explanation
Indices: 103597270--103597367 Score: 90
Period size: 35 Copynumber: 2.8 Consensus size: 34
103597260 AAAAATTGTG
* *
103597270 TTTTCAAAAAATTTTCATGTTTCAAAAATTTTCGTA
1 TTTTC-AAAAATTTTCGTGTTTCAAAAATTCTCG-A
*
103597306 TTTTCAAAAATTTTCGTGTTTTCAACAATTCTC-A
1 TTTTCAAAAATTTTCGTG-TTTCAAAAATTCTCGA
** * *
103597340 TGTTTCACGAATTTTCGCGCTTCAAAAA
1 T-TTTCAAAAATTTTCGTGTTTCAAAAA
103597368 AAAATCAGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
34 9 0.17
35 26 0.50
36 17 0.33
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (34 bp):
TTTTCAAAAATTTTCGTGTTTCAAAAATTCTCGA
Found at i:103597422 original size:18 final size:17
Alignment explanation
Indices: 103597397--103597491 Score: 77
Period size: 17 Copynumber: 5.6 Consensus size: 17
103597387 AATTCGCGTA
*
103597397 TTTC-AAAATTGTCGTG
1 TTTCAAAAATTTTCGTG
103597413 TTCTCAAAAATTTTCGTG
1 TT-TCAAAAATTTTCGTG
* * *
103597431 TTTTAAGAATTTTCGCG
1 TTTCAAAAATTTTCGTG
* * *
103597448 TCTCTAAAATTCTCGTG
1 TTTCAAAAATTTTCGTG
* *
103597465 TTTTAAAAATTTTTCTTG
1 TTTCAAAAA-TTTTCGTG
103597483 TTT-AAAAAT
1 TTTCAAAAAT
103597492 AAAAATAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 6
0.74 0.18 0.07
Matches are distributed among these distances:
16 3 0.05
17 36 0.59
18 22 0.36
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (17 bp):
TTTCAAAAATTTTCGTG
Found at i:103597584 original size:17 final size:16
Alignment explanation
Indices: 103597519--103597616 Score: 54
Period size: 17 Copynumber: 5.8 Consensus size: 16
103597509 CAAAAAATGT
* *
103597519 TCGTGTTTTAAATTTT
1 TCGTGTTTTAAAATTC
*
103597535 TTGTGTTTTGAATAAATTTC
1 TCGTGTTTT--A-AAA-TTC
* * *
103597555 TCGTGCTTCAAAAGTTG
1 TCGTGTTTTAAAA-TTC
*
103597572 TCGTGTTTTAAAAATTT
1 TCGTGTTTT-AAAATTC
*
103597589 TCATGTTTCTAAAATTC
1 TCGTGTTT-TAAAATTC
103597606 TCGT-TTTTAAA
1 TCGTGTTTTAAA
103597617 GAAATTGTGT
Statistics
Matches: 62, Mismatches: 14, Indels: 13
0.70 0.16 0.15
Matches are distributed among these distances:
15 4 0.06
16 11 0.18
17 30 0.48
18 7 0.11
19 2 0.03
20 8 0.13
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (16 bp):
TCGTGTTTTAAAATTC
Found at i:103598956 original size:67 final size:66
Alignment explanation
Indices: 103598829--103598961 Score: 225
Period size: 64 Copynumber: 2.0 Consensus size: 66
103598819 ATGAAGATAG
103598829 TTCATAACAATTCCAAACTATATCATCATCAATATTATATATACATACAATTCCACTATTATTAT
1 TTCATAACAATTCCAAAC-ATATCATCATCAATATTATATATACATACAATTCCACTATTATTAT
103598894 AA
65 AA
**
103598896 TTCATAACAATTCCAAAC-TAT-ATCATCAATATTATATATACATACAATTCCTTTATTATTATA
1 TTCATAACAATTCCAAACATATCATCATCAATATTATATATACATACAATTCCACTATTATTATA
103598959 A
66 A
103598960 TT
1 TT
103598962 TGCTGCCACT
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
64 43 0.67
65 3 0.05
67 18 0.28
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (66 bp):
TTCATAACAATTCCAAACATATCATCATCAATATTATATATACATACAATTCCACTATTATTATA
A
Found at i:103601233 original size:52 final size:52
Alignment explanation
Indices: 103601162--103601266 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 52
103601152 CTTATAGGCC
* * * *
103601162 TACACATAGGAACAGAAACAGG-CTAAGCTTTTGTTGTATTTCATGCGTTATG
1 TACACATAGGAACAAAAACAGGCCCAA-CTTTTGTTGCATTTCATGCATTATG
**
103601214 TACACATAGGGGCAAAAACAGGCCCAACTTTTGTTGCATTTCATGCATTATG
1 TACACATAGGAACAAAAACAGGCCCAACTTTTGTTGCATTTCATGCATTATG
103601266 T
1 T
103601267 TTTTACACCT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 43 0.93
53 3 0.07
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (52 bp):
TACACATAGGAACAAAAACAGGCCCAACTTTTGTTGCATTTCATGCATTATG
Found at i:103601402 original size:14 final size:15
Alignment explanation
Indices: 103601368--103601405 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
103601358 GTTTGCCAAT
103601368 AAAAT-ATTTTTCGA
1 AAAATAATTTTTCGA
103601382 AAAATAATTTTT-GA
1 AAAATAATTTTTCGA
103601396 AAAATAATTT
1 AAAATAATTT
103601406 ACTTTTCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (15 bp):
AAAATAATTTTTCGA
Found at i:103602872 original size:32 final size:32
Alignment explanation
Indices: 103602826--103602886 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
103602816 TGTCAATCAT
103602826 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
103602858 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
103602887 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:103602893 original size:27 final size:30
Alignment explanation
Indices: 103602826--103602899 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
103602816 TGTCAATCAT
*
103602826 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
103602858 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
103602886 -TCAATATCTAACAA
1 TTCAATATCTAACAA
103602900 ATTCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:103602910 original size:27 final size:27
Alignment explanation
Indices: 103602859--103602913 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
103602849 CATAATAAAT
* *
103602859 TCAATATCTAACAAGCTTGAAACATAA
1 TCAATATCTAACAAGATTCAAACATAA
103602886 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATTCAA-ACATAA
103602913 T
1 T
103602914 AATTTCAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTCAAACATAA
Found at i:103604442 original size:15 final size:15
Alignment explanation
Indices: 103604422--103604463 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
103604412 GTTTCTCAAG
103604422 CAATGACTAAAGTTA
1 CAATGACTAAAGTTA
103604437 CAATGACTAAAGTTA
1 CAATGACTAAAGTTA
* *
103604452 CCATGATTAAAG
1 CAATGACTAAAG
103604464 GGAATGGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.26
Consensus pattern (15 bp):
CAATGACTAAAGTTA
Found at i:103604874 original size:15 final size:15
Alignment explanation
Indices: 103604844--103604899 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
103604834 TATTATTTGT
103604844 ATAACCTTTTTAATCA
1 ATAACC-TTTTAATCA
*
103604860 ATAACCTTTTCATCA
1 ATAACCTTTTAATCA
*
103604875 ATAACCTTTTAATCG
1 ATAACCTTTTAATCA
*
103604890 ATAACATTTT
1 ATAACCTTTT
103604900 CATCCTTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 30 0.83
16 6 0.17
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.43
Consensus pattern (15 bp):
ATAACCTTTTAATCA
Found at i:103604887 original size:30 final size:31
Alignment explanation
Indices: 103604844--103604903 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
103604834 TATTATTTGT
*
103604844 ATAACCTTTTTAATCAATAACCTTTTCATCA
1 ATAACCTTTTTAATCAATAACATTTTCATCA
*
103604875 ATAACC-TTTTAATCGATAACATTTTCATC
1 ATAACCTTTTTAATCAATAACATTTTCATC
103604904 CTTTCCATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.42
Consensus pattern (31 bp):
ATAACCTTTTTAATCAATAACATTTTCATCA
Found at i:103611123 original size:23 final size:23
Alignment explanation
Indices: 103611089--103611142 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
103611079 AACTTCAAGG
103611089 ATTGACACCTATCATTCTCTTAT
1 ATTGACACCTATCATTCTCTTAT
* *
103611112 ATTGACATCTATCATTCTCTTAA
1 ATTGACACCTATCATTCTCTTAT
*
103611135 ATCGACAC
1 ATTGACAC
103611143 TTGTTGAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.39
Consensus pattern (23 bp):
ATTGACACCTATCATTCTCTTAT
Found at i:103614267 original size:25 final size:26
Alignment explanation
Indices: 103614217--103614274 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
103614207 CTTAAACTAG
*
103614217 ATAATATATAAGATGGTTTAACATAA
1 ATAATATATAAGATGATTTAACATAA
*
103614243 ATAATGTATAAGAT-ATTTAGA-ATAA
1 ATAATATATAAGATGATTTA-ACATAA
*
103614268 ATGATAT
1 ATAATAT
103614275 GAAAAGAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (26 bp):
ATAATATATAAGATGATTTAACATAA
Found at i:103614597 original size:3 final size:3
Alignment explanation
Indices: 103614591--103614711 Score: 65
Period size: 3 Copynumber: 41.0 Consensus size: 3
103614581 ATAGTACTAG
* * * *
103614591 TAA TAA T-A CAA TAA TAA TAA -AG TAGA AAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * *
103614635 TAA TAA TAA -AA T-A TAA GTAA TAG TAA GAA -AA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
103614678 TAAA TGG TAA TAA TAGA -AT TAA TAA TAA AAA TAA
1 T-AA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
103614712 AGTCGATTGA
Statistics
Matches: 88, Mismatches: 20, Indels: 20
0.69 0.16 0.16
Matches are distributed among these distances:
2 8 0.09
3 72 0.82
4 8 0.09
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:103619351 original size:23 final size:23
Alignment explanation
Indices: 103619322--103619370 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
103619312 TTACTCTAAA
103619322 ATATATTATTTAAAATAAATTTT
1 ATATATTATTTAAAATAAATTTT
* * *
103619345 ATATATTTTTTAAATTAAGTTTT
1 ATATATTATTTAAAATAAATTTT
103619368 ATA
1 ATA
103619371 ATCTTAACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
ATATATTATTTAAAATAAATTTT
Found at i:103624693 original size:20 final size:19
Alignment explanation
Indices: 103624668--103624712 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
103624658 AATAATTTTT
*
103624668 TTTTTCATAATTTTTGGAAA
1 TTTTTCATAATGTTT-GAAA
*
103624688 TTTTTCATAATGTTTGTAA
1 TTTTTCATAATGTTTGAAA
103624707 TTTTTC
1 TTTTTC
103624713 TTTTTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.60
Consensus pattern (19 bp):
TTTTTCATAATGTTTGAAA
Found at i:103624963 original size:21 final size:22
Alignment explanation
Indices: 103624916--103624963 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
103624906 TTTTATCTGA
103624916 TATTTTCCTGTTTTCTTTTTGC
1 TATTTTCCTGTTTTCTTTTTGC
*
103624938 TATTTT-CTGATTTTTTTTTTGC
1 TATTTTCCTG-TTTTCTTTTTGC
103624960 -ATTT
1 TATTT
103624964 ATTTTGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.71
Consensus pattern (22 bp):
TATTTTCCTGTTTTCTTTTTGC
Found at i:103627515 original size:21 final size:21
Alignment explanation
Indices: 103627469--103627518 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
103627459 CGCTGTTTCT
*
103627469 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
103627490 AATCTCATCGCTACAGTAACTC
1 AATCTCACCGCTACAGTAAC-C
103627512 -ATCTCAC
1 AATCTCAC
103627519 TGCCACCGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.30, C:0.36, G:0.08, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:103636317 original size:12 final size:13
Alignment explanation
Indices: 103636295--103636335 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
103636285 AACAATAATT
103636295 ATAATAGTAAATA
1 ATAATAGTAAATA
*
103636308 TTAATA-TAAATA
1 ATAATAGTAAATA
*
103636320 ATAATACT-AATA
1 ATAATAGTAAATA
103636332 ATAA
1 ATAA
103636336 GAAGAAGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 19 0.76
13 6 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (13 bp):
ATAATAGTAAATA
Found at i:103636451 original size:44 final size:48
Alignment explanation
Indices: 103636403--103636491 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 48
103636393 ATATAAAAGG
*
103636403 TAATAAATAGGT-A-AATAAATAAATG-AT-AATAAAAT-AATAATACA
1 TAATAAATAGGTAACAAT-AATAAAGGTATAAATAAAATAAATAATACA
*
103636447 TAATAAATTGGTAACAATAATAAAGGTATAAATAAAATAAATAAT
1 TAATAAATAGGTAACAATAATAAAGGTATAAATAAAATAAATAAT
103636492 CAATGAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 11 0.29
45 8 0.21
46 5 0.13
47 8 0.21
48 6 0.16
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (48 bp):
TAATAAATAGGTAACAATAATAAAGGTATAAATAAAATAAATAATACA
Found at i:103638111 original size:13 final size:13
Alignment explanation
Indices: 103638095--103638119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103638085 AATATTAAAC
103638095 AATTAATTTTTTA
1 AATTAATTTTTTA
103638108 AATTAATTTTTT
1 AATTAATTTTTT
103638120 CTCATAACAT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTAATTTTTTA
Found at i:103639696 original size:21 final size:22
Alignment explanation
Indices: 103639646--103639697 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
103639636 ACATACATTT
* *
103639646 ATAA-TATATGTATTTAATTAT
1 ATAATTATATTTATTTAATTAA
*
103639667 A-AATGATATTTA-TTAATTAA
1 ATAATTATATTTATTTAATTAA
103639687 ATAATTATATT
1 ATAATTATATT
103639698 ATAAGATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
ATAATTATATTTATTTAATTAA
Found at i:103639956 original size:19 final size:20
Alignment explanation
Indices: 103639928--103639970 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
103639918 ACGAAACAAG
*
103639928 GGAAGAAAAG-AAGGAAAAA
1 GGAAGAAAAGAAAGAAAAAA
*
103639947 GGAAGGAAAGAAAGAAAAAA
1 GGAAGAAAAGAAAGAAAAAA
103639967 GGAA
1 GGAA
103639971 AAATTGGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
GGAAGAAAAGAAAGAAAAAA
Found at i:103640698 original size:18 final size:18
Alignment explanation
Indices: 103640675--103640741 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
103640665 TATTAAAGAC
* *
103640675 TGACTGCTACTGAATAAT
1 TGACTGTTACTGAATAAA
*
103640693 TGACTGTTATTGAATAAA
1 TGACTGTTACTGAATAAA
* *
103640711 CGACTGATACTGAATAAA
1 TGACTGTTACTGAATAAA
*
103640729 TGATTGTTACTGA
1 TGACTGTTACTGA
103640742 TTAACCGACT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (18 bp):
TGACTGTTACTGAATAAA
Found at i:103640758 original size:36 final size:36
Alignment explanation
Indices: 103640676--103640751 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
103640666 ATTAAAGACT
* * *
103640676 GACTGCTACTGAATAATTGACTGTTATTGAATAAAC
1 GACTGATACTGAATAAATGACTGTTACTGAATAAAC
* * *
103640712 GACTGATACTGAATAAATGATTGTTACTGATTAACC
1 GACTGATACTGAATAAATGACTGTTACTGAATAAAC
103640748 GACT
1 GACT
103640752 ATTACTGTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (36 bp):
GACTGATACTGAATAAATGACTGTTACTGAATAAAC
Found at i:103649021 original size:80 final size:80
Alignment explanation
Indices: 103648889--103649047 Score: 205
Period size: 79 Copynumber: 2.0 Consensus size: 80
103648879 TTAATGATTA
* * *
103648889 ATAATTAATTGTGTTATTAATTCAAATTAAATTTCTATGTACAAATTTAAATTAAATA-ATTTAA
1 ATAATTAATTGTGTTATTAATTCAAATTAAACTGCTATGTACAAATTTAAATTAAACATATTTAA
*
103648953 AAATATTTTTATTTT
66 AAACATTTTTATTTT
* * * * *
103648968 ATAATTAATTGTGTT-TTCAGTTCAGATTAGACCTGCTATGTCCAAATTTAAATTAAACATTTTT
1 ATAATTAATTGTGTTATT-AATTCAAATTA-AACTGCTATGTACAAATTTAAATTAAACATATTT
103649032 AAAAACATTTTTATTT
64 AAAAACATTTTTATTT
103649048 AACTTTCAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 2 0.03
79 24 0.35
80 24 0.35
81 18 0.26
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (80 bp):
ATAATTAATTGTGTTATTAATTCAAATTAAACTGCTATGTACAAATTTAAATTAAACATATTTAA
AAACATTTTTATTTT
Found at i:103652235 original size:3 final size:3
Alignment explanation
Indices: 103652227--103652256 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
103652217 TTGAAACTAT
103652227 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
103652257 GGCAATAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:103655657 original size:20 final size:19
Alignment explanation
Indices: 103655632--103655671 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
103655622 ATTTTTTTGA
*
103655632 CATAATTTTTGGAAATTTTT
1 CATAATGTTT-GAAATTTTT
*
103655652 CATAATGTTTGTAATTTTT
1 CATAATGTTTGAAATTTTT
103655671 C
1 C
103655672 TTTTTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (19 bp):
CATAATGTTTGAAATTTTT
Found at i:103655917 original size:22 final size:21
Alignment explanation
Indices: 103655881--103655938 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
103655871 TTAACTTTTA
* *
103655881 ATTTTCTTTGATATTTACCTG
1 ATTTTTTTTGCTATTTACCTG
*
103655902 ATTTCTTTTTGCTATTT-TCTG
1 ATTT-TTTTTGCTATTTACCTG
103655923 ATTTTTTTTGC-ATTTA
1 ATTTTTTTTGCTATTTA
103655939 TTTTGAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 4 0.12
20 7 0.22
21 11 0.34
22 10 0.31
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.64
Consensus pattern (21 bp):
ATTTTTTTTGCTATTTACCTG
Found at i:103655932 original size:20 final size:20
Alignment explanation
Indices: 103655899--103655937 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
103655889 TGATATTTAC
103655899 CTGATTTCTTTTTGCTATTTT
1 CTGATTTCTTTTTGC-ATTTT
103655920 CTGATTT-TTTTTGCATTT
1 CTGATTTCTTTTTGCATTT
103655938 ATTTTGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.10, C:0.13, G:0.10, T:0.67
Consensus pattern (20 bp):
CTGATTTCTTTTTGCATTTT
Found at i:103657942 original size:2 final size:2
Alignment explanation
Indices: 103657929--103657964 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
103657919 AAGTAAAAGC
*
103657929 AT AT AT AA 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
103657965 GACAAACTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:103662271 original size:20 final size:20
Alignment explanation
Indices: 103662200--103662271 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
103662190 AAAAATATAA
* *
103662200 ATTTTAGAATTTTTATAAA-T
1 ATTTTATAA-TTTTACAAATT
*
103662220 ATTTT-TAAATTTACAAATT
1 ATTTTATAATTTTACAAATT
*
103662239 ATTTTGA-ATTTTTGA-AAATT
1 ATTTT-ATAATTTT-ACAAATT
103662259 ATTTTATAATTTT
1 ATTTTATAATTTT
103662272 TATGGAAAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
18 7 0.17
19 9 0.22
20 24 0.59
21 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTTTATAATTTTACAAATT
Found at i:103662614 original size:18 final size:17
Alignment explanation
Indices: 103662571--103662615 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
103662561 CAAGTACATT
103662571 TAAAAACATAAAAACAAA
1 TAAAAA-ATAAAAACAAA
*
103662589 TATTAAAATAAGAAACAAA
1 TA-AAAAATAA-AAACAAA
103662608 TAAAAAAT
1 TAAAAAAT
103662616 GAGTCTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (17 bp):
TAAAAAATAAAAACAAA
Found at i:103692863 original size:24 final size:24
Alignment explanation
Indices: 103692801--103692863 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
103692791 AATATGGTTG
103692801 CAGATACA-AATACAGATACAATTT
1 CAGATACAGAA-ACAGATACAATTT
* * * *
103692825 TAGA-ATTAGATACAGATGCAATTT
1 CAGATA-CAGAAACAGATACAATTT
103692849 CAGATACAGAAACAG
1 CAGATACAGAAACAG
103692864 GTCTTACCCC
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
23 1 0.03
24 26 0.90
25 2 0.07
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (24 bp):
CAGATACAGAAACAGATACAATTT
Found at i:103696920 original size:50 final size:50
Alignment explanation
Indices: 103696845--103697165 Score: 536
Period size: 50 Copynumber: 6.4 Consensus size: 50
103696835 CCATGGAAAC
103696845 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
103696895 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
103696945 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
103696995 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * **
103697045 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATCAAGGACAAGGGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
103697095 AAGTGATAAGTGATAGCTTCGGCTACATTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * *
103697145 CAACTGAAAAGTGGTAGCTTC
1 -AAGTGATAAGTGATAGCTTC
103697166 AGTTACCTGA
Statistics
Matches: 255, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
50 236 0.93
51 19 0.07
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:103697357 original size:31 final size:31
Alignment explanation
Indices: 103697149--103697350 Score: 289
Period size: 31 Copynumber: 6.5 Consensus size: 31
103697139 AAATGACAAC
*
103697149 TGAAAAGTGGTAGCTTCAGTTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
103697180 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * *
103697211 TGAAAAGTGGTAGTTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
103697242 TGAAAAGTGCTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
103697273 TGAAAAGTGGTAG-TTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTT-CAGCTACCTGATCAG
* **
103697304 TGAAAATTGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
103697335 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
103697351 TGGCTACAAA
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
30 2 0.01
31 150 0.99
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:103697491 original size:47 final size:47
Alignment explanation
Indices: 103697388--103697513 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
103697378 CAAGTGATTT
* * *
103697388 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGTTATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGCTA
* * *
103697435 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-CTA
* *
103697483 C-GTGTAAGACCATAGT-TGGGCTATGGCATCA
1 CTGTATAAGACCATA-TCTGGGATATGGCATCA
103697514 TTATGTAAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 64 0.94
48 4 0.06
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGCTA
Found at i:103702810 original size:162 final size:163
Alignment explanation
Indices: 103702532--103702855 Score: 605
Period size: 162 Copynumber: 2.0 Consensus size: 163
103702522 ACACTTATGT
103702532 TTTTTGAGATGGACCAACCTCTTAAAAGTAACTTCCATGTCTGGAAATAGTAGGATCGGAGCCCT
1 TTTTTGAGATGGACCAACCTCTTAAAAGTAACTTCCATGTCTGGAAATAGTAGGATCGGAGCCCT
103702597 GTGCTTTTCTGCACTAATATTCTACTTCGCATAAAGTAAGCATGCTGTGACTGAGATGTCGTTCT
66 GTGCTTTTCTGCACTAATATTCTACTTCGCATAAAGTAAGCATGCTGTGACTGAGATGTCGTTCT
103702662 GATCCAGGAAGTATAACTGCTTCCCCTAATTGG
131 GATCCAGGAAGTATAACTGCTTCCCCTAATTGG
* *
103702695 TTTTTGAGATGGACCAACCTCTTAAAAGTAACTTCCATGTCTGGAAATAGTAGTATTGGAG-CCT
1 TTTTTGAGATGGACCAACCTCTTAAAAGTAACTTCCATGTCTGGAAATAGTAGGATCGGAGCCCT
*
103702759 GTGCTTTTCTGCACTAATATTCTACTTCGCATAAAGTAAGCATGTTGTGACTGAGATGTCGTTCT
66 GTGCTTTTCTGCACTAATATTCTACTTCGCATAAAGTAAGCATGCTGTGACTGAGATGTCGTTCT
*
103702824 GATGCAGGAAGTATAACTGCTTCCCCTAATTG
131 GATCCAGGAAGTATAACTGCTTCCCCTAATTG
103702856 ATTATAGCTA
Statistics
Matches: 157, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
162 98 0.62
163 59 0.38
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (163 bp):
TTTTTGAGATGGACCAACCTCTTAAAAGTAACTTCCATGTCTGGAAATAGTAGGATCGGAGCCCT
GTGCTTTTCTGCACTAATATTCTACTTCGCATAAAGTAAGCATGCTGTGACTGAGATGTCGTTCT
GATCCAGGAAGTATAACTGCTTCCCCTAATTGG
Found at i:103705263 original size:12 final size:12
Alignment explanation
Indices: 103705246--103705270 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103705236 AAATTGTAGA
103705246 TTTTTTAAATTT
1 TTTTTTAAATTT
103705258 TTTTTTAAATTT
1 TTTTTTAAATTT
103705270 T
1 T
103705271 AAGAAAGAAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTAAATTT
Found at i:103711187 original size:24 final size:23
Alignment explanation
Indices: 103711160--103711204 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
103711150 TTTAGTCCCT
*
103711160 AACTTTTCCTCATTTTCATTTTAA
1 AACTTTTCCT-AATTTCATTTTAA
*
103711184 AACTTTTTCTAATTTCATTTT
1 AACTTTTCCTAATTTCATTTT
103711205 GATACTGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (23 bp):
AACTTTTCCTAATTTCATTTTAA
Found at i:103716602 original size:65 final size:66
Alignment explanation
Indices: 103716485--103716610 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
103716475 ACATAATAAT
*
103716485 AAAAACAGACCCCAAAATTTTCATATATTCTTAAATTTTTTTAACAGATAATCCATCTATTAAAA
1 AAAAACAGACCCCAAAATTTTCATATATTCCTAAATTTTTTTAACAGATAATCCATCTATTAAAA
103716550 A
66 A
103716551 AAAAACAGACCCCAAAATTTTCATATATTCCTAAA-TTTTTTAACAGATAATCCATCTATT
1 AAAAACAGACCCCAAAATTTTCATATATTCCTAAATTTTTTTAACAGATAATCCATCTATT
103716611 TTTTTTTAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
65 25 0.42
66 34 0.58
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (66 bp):
AAAAACAGACCCCAAAATTTTCATATATTCCTAAATTTTTTTAACAGATAATCCATCTATTAAAA
A
Found at i:103717569 original size:55 final size:57
Alignment explanation
Indices: 103717463--103717580 Score: 204
Period size: 56 Copynumber: 2.1 Consensus size: 57
103717453 ATCTCGAAAT
* *
103717463 TATATACGAATTTTGATTCATGTAATTTGATACATGAGATTTTGATTGTGGTTCAAA
1 TATATACGAATTTTGATTCATATAATTTGATACACGAGATTTTGATTGTGGTTCAAA
103717520 TATATACGAA-TTTGATTCATATAATTTGATACACGAGA-TTTGATTGTGGTTCAAA
1 TATATACGAATTTTGATTCATATAATTTGATACACGAGATTTTGATTGTGGTTCAAA
103717575 TATATA
1 TATATA
103717581 TAAATTTTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
55 23 0.39
56 26 0.44
57 10 0.17
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (57 bp):
TATATACGAATTTTGATTCATATAATTTGATACACGAGATTTTGATTGTGGTTCAAA
Found at i:103717587 original size:55 final size:56
Alignment explanation
Indices: 103717463--103717587 Score: 189
Period size: 55 Copynumber: 2.2 Consensus size: 56
103717453 ATCTCGAAAT
* * *
103717463 TATATACGAATTTTGATTCATGTAATTTGATACATGAGATTTTGATTGTGGTTCAAA
1 TATATAC-AAATTTGATTCATATAATTTGATACACGAGATTTTGATTGTGGTTCAAA
*
103717520 TATATACGAATTTGATTCATATAATTTGATACACGAGA-TTTGATTGTGGTTCAAA
1 TATATACAAATTTGATTCATATAATTTGATACACGAGATTTTGATTGTGGTTCAAA
*
103717575 TATATATAAATTT
1 TATATACAAATTT
103717588 TAATTTTGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
55 28 0.45
56 27 0.44
57 7 0.11
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.43
Consensus pattern (56 bp):
TATATACAAATTTGATTCATATAATTTGATACACGAGATTTTGATTGTGGTTCAAA
Found at i:103722114 original size:26 final size:24
Alignment explanation
Indices: 103722085--103722134 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
103722075 AATAAAAAAA
*
103722085 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
103722111 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
103722135 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:103722146 original size:22 final size:21
Alignment explanation
Indices: 103722074--103722149 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 21
103722064 TTATTTCATT
103722074 AAATAAAAA-AAAT-TTAAAA
1 AAATAAAAACAAATATTAAAA
*
103722093 ATATAATAAATCAAATATATTTAAAA
1 AAATAA-AAA-C-AA-ATA-TTAAAA
*
103722119 ACATAAAAACAAATATTAAAA
1 AAATAAAAACAAATATTAAAA
103722140 CAAATAAAAA
1 -AAATAAAAA
103722150 TAACACTAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
19 5 0.11
20 3 0.07
21 6 0.13
22 11 0.24
23 4 0.09
24 3 0.07
25 3 0.07
26 11 0.24
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAAAAACAAATATTAAAA
Found at i:103722240 original size:15 final size:16
Alignment explanation
Indices: 103722210--103722242 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
103722200 AAATATTTAT
103722210 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
103722227 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
103722242 A
1 A
103722243 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:103722798 original size:31 final size:31
Alignment explanation
Indices: 103722748--103722809 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
103722738 AAAATTTTCA
*
103722748 AATAAATTAGTAACCAATAAAA-AAGTTTACC
1 AATAAATTAATAACCAATAAAATAA-TTTACC
* *
103722779 AATAATTTAATAACTAATAAAATAATTTACC
1 AATAAATTAATAACCAATAAAATAATTTACC
103722810 CTATTTTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (31 bp):
AATAAATTAATAACCAATAAAATAATTTACC
Found at i:103727648 original size:15 final size:15
Alignment explanation
Indices: 103727612--103727648 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
103727602 TTACATGAGT
103727612 ATAATA-ATTAAAAA
1 ATAATATATTAAAAA
*
103727626 ATAA-ATATTTAAAA
1 ATAATATATTAAAAA
103727640 ATAATATAT
1 ATAATATAT
103727649 ATTTTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 15 0.75
15 4 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAATATATTAAAAA
Found at i:103734170 original size:61 final size:60
Alignment explanation
Indices: 103734097--103734213 Score: 139
Period size: 61 Copynumber: 1.9 Consensus size: 60
103734087 ATATTTGCGT
* * * *
103734097 AAATTTTCATTAAACTT-TTAAATTTCTTGAATATTTTAATTAAATCTATCAAAATTTTTAA
1 AAATTTTCATTAAAATTCTCAAAATT-TTAAATATTTTAATT-AATCTATCAAAATTTTTAA
* *
103734158 AAATTATT-ATTAAAATTCTCAAAATTTTAAATATTTTAATTAATCTCTTAAAATTT
1 AAATT-TTCATTAAAATTCTCAAAATTTTAAATATTTTAATTAATCTATCAAAATTT
103734214 AATGTCAAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
60 13 0.27
61 27 0.56
62 8 0.17
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.49
Consensus pattern (60 bp):
AAATTTTCATTAAAATTCTCAAAATTTTAAATATTTTAATTAATCTATCAAAATTTTTAA
Found at i:103734361 original size:13 final size:13
Alignment explanation
Indices: 103734343--103734370 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
103734333 TTTCAAGAAC
103734343 AAAAATTATAAAT
1 AAAAATTATAAAT
103734356 AAAAATTATAAAT
1 AAAAATTATAAAT
103734369 AA
1 AA
103734371 TTATCATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAATTATAAAT
Found at i:103734862 original size:35 final size:36
Alignment explanation
Indices: 103734822--103734895 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 36
103734812 TAATTTTACG
103734822 ATAATTACAATCAAAATTAAAATTAAAAAA-ATAAA
1 ATAATTACAATCAAAATTAAAATTAAAAAATATAAA
103734857 ATAATTACAATCAAAATTAAAATTAAAAAATATAAA
1 ATAATTACAATCAAAATTAAAATTAAAAAATATAAA
103734893 ATA
1 ATA
103734896 CTAAGAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 30 0.79
36 8 0.21
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (36 bp):
ATAATTACAATCAAAATTAAAATTAAAAAATATAAA
Found at i:103738073 original size:28 final size:28
Alignment explanation
Indices: 103738041--103738105 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
103738031 ATTTTTTTTC
103738041 TAATTTTAAATAAAAAACAAAAAATATA
1 TAATTTTAAATAAAAAACAAAAAATATA
* * *
103738069 TAATTTT--TTAAAAAATAAAAATTATA
1 TAATTTTAAATAAAAAACAAAAAATATA
*
103738095 TATATATTAAA
1 TA-ATTTTAAA
103738106 ATACAATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
26 18 0.62
27 4 0.14
28 7 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (28 bp):
TAATTTTAAATAAAAAACAAAAAATATA
Found at i:103743937 original size:5 final size:5
Alignment explanation
Indices: 103743927--103743967 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
103743917 ATGTATCATT
103743927 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
103743968 CATGTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:103744009 original size:12 final size:13
Alignment explanation
Indices: 103743984--103744012 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
103743974 TTATAGTTAA
103743984 AAAATAATATTTT
1 AAAATAATATTTT
103743997 AAAATAA-ATTTT
1 AAAATAATATTTT
103744009 AAAA
1 AAAA
103744013 AAGCTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAATAATATTTT
Found at i:103744959 original size:25 final size:23
Alignment explanation
Indices: 103744907--103744961 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
103744897 TATAAATAGT
103744907 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
103744930 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
103744955 AATAGTG
1 AATAGTG
103744962 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:103745042 original size:22 final size:22
Alignment explanation
Indices: 103745017--103745091 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
103745007 TATGAAATAG
*
103745017 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
103745039 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
103745064 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
103745086 AGATAA
1 ATATAA
103745092 CATGTAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:103745061 original size:25 final size:25
Alignment explanation
Indices: 103745023--103745169 Score: 88
Period size: 25 Copynumber: 5.9 Consensus size: 25
103745013 ATAGATATAA
*
103745023 AAAAAATATGTACATAATATAGTGT
1 AAAAAATATATACATAATATAGTGT
* *
103745048 AAAAAATACATACATAATATAAT-T
1 AAAAAATATATACATAATATAGTGT
* *
103745072 --AAAATATATACATAAGATAACATGTAGA
1 AAAAAATATATACAT-A-AT-ATA-GT-GT
* * *
103745100 AAAAAAAATATAAATAATATAGTAT
1 AAAAAATATATACATAATATAGTGT
* * *
103745125 TAAAGATATATACATAAAATA--GT
1 AAAAAATATATACATAATATAGTGT
* * *
103745148 ATAATATATATACGTAATATAG
1 AAAAAATATATACATAATATAG
103745170 AATTTAGAAT
Statistics
Matches: 90, Mismatches: 23, Indels: 19
0.68 0.17 0.14
Matches are distributed among these distances:
22 12 0.13
23 18 0.20
24 3 0.03
25 38 0.42
26 3 0.03
27 2 0.02
28 2 0.02
29 1 0.01
30 11 0.12
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (25 bp):
AAAAAATATATACATAATATAGTGT
Found at i:103745133 original size:23 final size:23
Alignment explanation
Indices: 103745107--103745234 Score: 59
Period size: 23 Copynumber: 5.5 Consensus size: 23
103745097 AGAAAAAAAA
103745107 ATATAAATAATATAGTATTAAAG
1 ATATAAATAATATAGTATTAAAG
* *
103745130 ATATATACATAAAATAGTA-TAATAT
1 ATATA-A-ATAATATAGTATTAA-AG
** * *
103745155 ATATACGTAATATAGAATT-TAG
1 ATATAAATAATATAGTATTAAAG
** *
103745177 AATATACCTAATATA-T-TAAAAG
1 -ATATAAATAATATAGTATTAAAG
* *
103745199 AATATATATAATATAATATTAAA-
1 -ATATAAATAATATAGTATTAAAG
*
103745222 AAATATAATAATA
1 ATATA-AATAATA
103745235 ACAAAAAAAA
Statistics
Matches: 79, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
21 1 0.01
22 20 0.25
23 33 0.42
24 9 0.11
25 16 0.20
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.35
Consensus pattern (23 bp):
ATATAAATAATATAGTATTAAAG
Found at i:103745723 original size:18 final size:18
Alignment explanation
Indices: 103745700--103745753 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
103745690 ACAAGTGGTG
103745700 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
103745718 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
103745730 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
103745748 GTGGAG
1 GTGGAG
103745754 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:103745732 original size:30 final size:30
Alignment explanation
Indices: 103745696--103745763 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
103745686 AGGTACAAGT
103745696 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
103745726 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
103745756 GGTGGTGG
1 GGTGGTGG
103745764 CAAAGGCTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.16, C:0.06, G:0.53, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:103747772 original size:18 final size:18
Alignment explanation
Indices: 103747749--103747785 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
103747739 TTTAGGACGA
103747749 ACTTGGATAAGAAAAATT
1 ACTTGGATAAGAAAAATT
103747767 ACTTGGATAAGAAAAATT
1 ACTTGGATAAGAAAAATT
103747785 A
1 A
103747786 TTTTGAGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (18 bp):
ACTTGGATAAGAAAAATT
Found at i:103750690 original size:17 final size:17
Alignment explanation
Indices: 103750668--103750701 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
103750658 GACGGATTAT
103750668 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
103750685 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
103750702 GGCCCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (17 bp):
TGGGTTGTTTGGTTTAG
Found at i:103751427 original size:16 final size:16
Alignment explanation
Indices: 103751380--103751441 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
103751370 TAAGTTTAGG
*
103751380 TTTAGTGTTCAAATCAT
1 TTTAG-GTTCAGATCAT
* *
103751397 TTTGGGTT-TGAATCAT
1 TTTAGGTTCAG-ATCAT
103751413 TTTAGGTTCAGATCAT
1 TTTAGGTTCAGATCAT
**
103751429 TTTTTGTTCAGAT
1 TTTAGGTTCAGAT
103751442 AAAATTTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
16 31 0.86
17 5 0.14
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.50
Consensus pattern (16 bp):
TTTAGGTTCAGATCAT
Found at i:103751499 original size:16 final size:16
Alignment explanation
Indices: 103751478--103751508 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
103751468 ATTACCTGGT
103751478 AATTATATCATTTTTG
1 AATTATATCATTTTTG
103751494 AATTATATCATTTTT
1 AATTATATCATTTTT
103751509 TTTAAATATG
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:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
AATTATATCATTTTTG
Found at i:103753488 original size:6 final size:6
Alignment explanation
Indices: 103753477--103753504 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
103753467 AGAACTAAGC
103753477 TTGGTG TTGGTG TTGGTG TTGGTG TTGG
1 TTGGTG TTGGTG TTGGTG TTGGTG TTGG
103753505 GTGATTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
TTGGTG
Found at i:103754248 original size:12 final size:12
Alignment explanation
Indices: 103754231--103754288 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
103754221 AGCTGATTGT
103754231 TGTTGCTGCTGC
1 TGTTGCTGCTGC
* *
103754243 TGTTGCTGTTGT
1 TGTTGCTGCTGC
103754255 TGTTGCTGCTGC
1 TGTTGCTGCTGC
* *
103754267 TGCTCCTGCTGC
1 TGTTGCTGCTGC
*
103754279 TGTTGTTGCT
1 TGTTGCTGCT
103754289 TGGAAGCAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.00, C:0.22, G:0.31, T:0.47
Consensus pattern (12 bp):
TGTTGCTGCTGC
Found at i:103754249 original size:6 final size:6
Alignment explanation
Indices: 103754231--103754283 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
103754221 AGCTGATTGT
* * * * * *
103754231 TGTTGC TGCTGC TGTTGC TGTTGT TGTTGC TGCTGC TGCTCC TGCTGC
1 TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC
103754279 TGTTG
1 TGTTG
103754284 TTGCTTGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.00, C:0.23, G:0.32, T:0.45
Consensus pattern (6 bp):
TGTTGC
Found at i:103754252 original size:21 final size:21
Alignment explanation
Indices: 103754228--103754270 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
103754218 AAGAGCTGAT
*
103754228 TGTTGTTGCTGCTGCTGTTGC
1 TGTTGTTGCTGCTGCTGCTGC
*
103754249 TGTTGTTGTTGCTGCTGCTGC
1 TGTTGTTGCTGCTGCTGCTGC
103754270 T
1 T
103754271 CCTGCTGCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.33, T:0.49
Consensus pattern (21 bp):
TGTTGTTGCTGCTGCTGCTGC
Found at i:103754255 original size:9 final size:9
Alignment explanation
Indices: 103754237--103754288 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
103754227 TTGTTGTTGC
103754237 TGCTGCTGT
1 TGCTGCTGT
*
103754246 TGCTGTTGT
1 TGCTGCTGT
* *
103754255 TGTTGCTGC
1 TGCTGCTGT
**
103754264 TGCTGCTCC
1 TGCTGCTGT
103754273 TGCTGCTGT
1 TGCTGCTGT
*
103754282 TGTTGCT
1 TGCTGCT
103754289 TGGAAGCAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.00, C:0.23, G:0.31, T:0.46
Consensus pattern (9 bp):
TGCTGCTGT
Found at i:103754265 original size:27 final size:27
Alignment explanation
Indices: 103754228--103754288 Score: 92
Period size: 24 Copynumber: 2.4 Consensus size: 27
103754218 AAGAGCTGAT
*
103754228 TGTTGTTGCTGCTGCTG-T--TGCTGT
1 TGTTGTTGCTGCTGCTGCTCCTGCTGC
103754252 TGTTGTTGCTGCTGCTGCTCCTGCTGC
1 TGTTGTTGCTGCTGCTGCTCCTGCTGC
103754279 TGTTGTTGCT
1 TGTTGTTGCT
103754289 TGGAAGCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 17 0.52
25 1 0.03
27 15 0.45
ACGTcount: A:0.00, C:0.21, G:0.31, T:0.48
Consensus pattern (27 bp):
TGTTGTTGCTGCTGCTGCTCCTGCTGC
Found at i:103759836 original size:9 final size:9
Alignment explanation
Indices: 103759822--103759876 Score: 76
Period size: 9 Copynumber: 6.2 Consensus size: 9
103759812 TTTGGTTAAA
*
103759822 AATTACCCG
1 AATTAACCG
* *
103759831 AATTACCCA
1 AATTAACCG
103759840 AATTAACCG
1 AATTAACCG
103759849 AATTAACCG
1 AATTAACCG
103759858 AATTAACCG
1 AATTAACCG
103759867 AATT-ACCG
1 AATTAACCG
103759875 AA
1 AA
103759877 AAATACCCGA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
8 6 0.14
9 37 0.86
ACGTcount: A:0.44, C:0.25, G:0.09, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:103761648 original size:80 final size:80
Alignment explanation
Indices: 103761543--103761700 Score: 230
Period size: 80 Copynumber: 2.0 Consensus size: 80
103761533 CTATTCCTGA
* * * *
103761543 AATCCCCACATCTGATTTGAAAATGAAACCCT-AGCCTCAATTCCTTTGTCTTCCCTTCCCAATT
1 AATCCCCACATCCGATTTGAAAATGAAACCCTAAACC-AAATTCCTTCGTCTTCCCTTCCCAATT
103761607 CCTTCCTCTTCACTTT
65 CCTTCCTCTTCACTTT
*
103761623 AATCCCCA-ATTCCGATTTGAAAATGAAACCCTAAACCAAATTCCTTCGTCTTCCCTTCCCGATT
1 AATCCCCACA-TCCGATTTGAAAATGAAACCCTAAACCAAATTCCTTCGTCTTCCCTTCCCAATT
*
103761687 TCTTCCTCTTCACT
65 CCTTCCTCTTCACT
103761701 GCTGCATTTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
79 1 0.01
80 66 0.94
81 3 0.04
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (80 bp):
AATCCCCACATCCGATTTGAAAATGAAACCCTAAACCAAATTCCTTCGTCTTCCCTTCCCAATTC
CTTCCTCTTCACTTT
Found at i:103762835 original size:29 final size:29
Alignment explanation
Indices: 103762793--103762850 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
103762783 TGAGATAATT
103762793 CCAAGGAAAGACATGCTATAATTGGTGAC
1 CCAAGGAAAGACATGCTATAATTGGTGAC
103762822 CCAAGGAAAGACATGCTATAATTGGTGAC
1 CCAAGGAAAGACATGCTATAATTGGTGAC
103762851 ACCTCTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (29 bp):
CCAAGGAAAGACATGCTATAATTGGTGAC
Found at i:103763498 original size:38 final size:40
Alignment explanation
Indices: 103763447--103763528 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 40
103763437 GAACCTATCA
103763447 GGTACTT-A-ACATACATATTATTGGAGGGATTTGTTGGG
1 GGTACTTAATACATACATATTATTGGAGGGATTTGTTGGG
103763485 GGTACTTAACATACATACATATTATTGGAGGGATTTGTTGGG
1 GGTACTT-A-ATACATACATATTATTGGAGGGATTTGTTGGG
103763527 GG
1 GG
103763529 ACGTAATGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
38 7 0.17
41 1 0.03
42 32 0.80
ACGTcount: A:0.27, C:0.09, G:0.29, T:0.35
Consensus pattern (40 bp):
GGTACTTAATACATACATATTATTGGAGGGATTTGTTGGG
Found at i:103768757 original size:23 final size:23
Alignment explanation
Indices: 103768730--103768785 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
103768720 ATATCCAAAT
* *
103768730 AACATTAAAAGCGATAGCAAAAC
1 AACATTAAAAACAATAGCAAAAC
103768753 AACATTAAAAACAATAGCAAAAC
1 AACATTAAAAACAATAGCAAAAC
*
103768776 AATA-TAAAAA
1 AACATTAAAAA
103768786 TGCACAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 6 0.20
23 24 0.80
ACGTcount: A:0.64, C:0.14, G:0.07, T:0.14
Consensus pattern (23 bp):
AACATTAAAAACAATAGCAAAAC
Found at i:103774274 original size:21 final size:24
Alignment explanation
Indices: 103774239--103774288 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 24
103774229 TATATCTACG
* *
103774239 TATATTATGCCTATA-T-TTTA-A
1 TATATTATACATATAGTATTTATA
103774260 TATATTATACATATAGTATTTATA
1 TATATTATACATATAGTATTTATA
103774284 TATAT
1 TATAT
103774289 AGTACGTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 13 0.54
22 1 0.04
23 4 0.17
24 6 0.25
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TATATTATACATATAGTATTTATA
Found at i:103775730 original size:17 final size:17
Alignment explanation
Indices: 103775708--103775745 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
103775698 TCTTTTTTTA
103775708 ATTTTTAATTTATATAT
1 ATTTTTAATTTATATAT
* *
103775725 ATTTTTATTTTTTATAT
1 ATTTTTAATTTATATAT
103775742 ATTT
1 ATTT
103775746 ATTTCTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTAATTTATATAT
Done.