Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002008.1 Hibiscus syriacus cultivar Beakdansim tig00004106_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: 53109
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Found at i:2779 original size:23 final size:23
Alignment explanation
Indices: 2730--2792 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 23
2720 AATATTGTAT
* * * *
2730 TTTAATTAAATTACAATTAGATT
1 TTTAACTAATTTATAATTAGATG
*
2753 TTTAACTAATTTATAATTATATG
1 TTTAACTAATTTATAATTAGATG
* *
2776 TTT-AGTATTTTATAATT
1 TTTAACTAATTTATAATT
2793 TAATATTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 12 0.36
23 21 0.64
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (23 bp):
TTTAACTAATTTATAATTAGATG
Found at i:2799 original size:15 final size:15
Alignment explanation
Indices: 2776--2811 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2766 TAATTATATG
*
2776 TTTAGTATTTTATAA
1 TTTAATATTTTATAA
2791 TTTAATATTTTATAA
1 TTTAATATTTTATAA
*
2806 ATTAAT
1 TTTAAT
2812 TTAATGGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTAATATTTTATAA
Found at i:3003 original size:21 final size:21
Alignment explanation
Indices: 2953--3018 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
2943 CACAGATTCC
* * * *
2953 AAATACGCAACGCGAATATGT
1 AAATTCGCAACGCGATTTTCT
*
2974 AAA-TCGCAACGGGATTTTCT
1 AAATTCGCAACGCGATTTTCT
* *
2994 AAATTCGCAATGCGATTTTCA
1 AAATTCGCAACGCGATTTTCT
3015 AAAT
1 AAAT
3019 CACAATTTCC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
20 15 0.42
21 21 0.58
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (21 bp):
AAATTCGCAACGCGATTTTCT
Found at i:3170 original size:57 final size:57
Alignment explanation
Indices: 3072--3214 Score: 241
Period size: 57 Copynumber: 2.5 Consensus size: 57
3062 CTCAGTTTCA
* * **
3072 GAAATTCGCGTTGCGATAGTTGTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT
1 GAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT
*
3129 GAAAATCGCATTGCGATAGTACTGTTTACTTATATCGGTAATTAGCGTTGCGAATTT
1 GAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT
3186 GAAAATCGCATTGCGATAGTACTGTTTAC
1 GAAAATCGCATTGCGATAGTACTGTTTAC
3215 ATTGCGATAG
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 81 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (57 bp):
GAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT
Found at i:3217 original size:20 final size:20
Alignment explanation
Indices: 3194--3234 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
3184 TTGAAAATCG
3194 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
*
3214 CATTGCGATAGTGCTGTTTA
1 CATTGCGATAGTACTGTTTA
3234 C
1 C
3235 CTATATCGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Found at i:3278 original size:20 final size:20
Alignment explanation
Indices: 3253--3298 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
3243 GTAATTAACG
* *
3253 TTGCGAATTTGAAAATCTCT
1 TTGCGAATTTGAAAAACTCA
3273 TTGCGAATTTGAAAAACTCA
1 TTGCGAATTTGAAAAACTCA
3293 TTGCGA
1 TTGCGA
3299 TAGTAATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
TTGCGAATTTGAAAAACTCA
Found at i:3295 original size:77 final size:76
Alignment explanation
Indices: 3119--3311 Score: 228
Period size: 77 Copynumber: 2.5 Consensus size: 76
3109 GTAATTAGCG
* * *
3119 TTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACTTATATCGGTAATTAGCGTTGCGAAT
1 TTGCGAATTTGAAAAAC-CATTGCGATAGTACTGTTTACCTATATCGGTAATTAACGTTGCGAAT
3184 TTGAAAATCGCA
65 TTGAAAATCGCA
* *** *
3196 TTGCGATAGTACTG-TTTA-CATTGCGATAGTGCTGTTTACCTATATCGGTAATTAACGTTGCGA
1 TTGCGA-A-T-TTGAAAAACCATTGCGATAGTACTGTTTACCTATATCGGTAATTAACGTTGCGA
* *
3259 ATTTGAAAATCTCT
63 ATTTGAAAATCGCA
*
3273 TTGCGAATTTGAAAAACTCATTGCGATAGTAATGTTTAC
1 TTGCGAATTTGAAAAAC-CATTGCGATAGTACTGTTTAC
3312 ATTGCGATAT
Statistics
Matches: 94, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
74 2 0.02
75 2 0.02
76 1 0.01
77 85 0.90
78 1 0.01
79 1 0.01
80 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (76 bp):
TTGCGAATTTGAAAAACCATTGCGATAGTACTGTTTACCTATATCGGTAATTAACGTTGCGAATT
TGAAAATCGCA
Found at i:3314 original size:20 final size:20
Alignment explanation
Indices: 3291--3390 Score: 119
Period size: 20 Copynumber: 5.0 Consensus size: 20
3281 TTGAAAAACT
*
3291 CATTGCGATAGTAATGTTTA
1 CATTGCGATAGTACTGTTTA
* * *
3311 CATTGCGATATTAATATTTA
1 CATTGCGATAGTACTGTTTA
* * *
3331 CATTGTGATATTACTATTTA
1 CATTGCGATAGTACTGTTTA
3351 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
**
3371 CATTGTAATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
3391 GTTCACAACG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Found at i:3484 original size:57 final size:57
Alignment explanation
Indices: 3396--3543 Score: 260
Period size: 57 Copynumber: 2.6 Consensus size: 57
3386 GTTTAGTTCA
*
3396 CAACGCTAATTACCGATGTAGGTAAACAGTACTATCGCAACGCGATTTTCAAATTCG
1 CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTTCAAATTCG
* *
3453 CAACGCTAATTATCGATATAGGTAAACAGTACTATCGCAATGCGATTTTCAAATTCG
1 CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTTCAAATTCG
*
3510 CAACGCTAATTACCGATATAGGTAAACAATACTA
1 CAACGCTAATTACCGATATAGGTAAACAGTACTA
3544 AAATTCGCGT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 86 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (57 bp):
CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTTCAAATTCG
Found at i:3571 original size:20 final size:20
Alignment explanation
Indices: 3546--3601 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
3536 CAATACTAAA
3546 ATTCGCGTTGCGATTTACCC
1 ATTCGCGTTGCGATTTACCC
*
3566 ATTCGCGTTGCGATTTACCT
1 ATTCGCGTTGCGATTTACCC
*
3586 ATTTGCGTTGCGATTT
1 ATTCGCGTTGCGATTT
3602 TGGAACCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.41
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACCC
Found at i:5123 original size:2 final size:2
Alignment explanation
Indices: 5116--5144 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5106 ATAATAACAC
5116 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
5145 GAATGAATTA
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:7984 original size:2 final size:2
Alignment explanation
Indices: 7977--8011 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7967 GTTATTATTG
7977 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8012 GAATATAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14173 original size:17 final size:19
Alignment explanation
Indices: 14140--14178 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
14130 TTTTACAACT
14140 TATAGAACATTAAATA-TAA
1 TATAGAACA-TAAATATTAA
14159 TATAGAACA-AAATATTAA
1 TATAGAACATAAATATTAA
14177 TA
1 TA
14179 ATACAGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAGAACATAAATATTAA
Found at i:14676 original size:24 final size:24
Alignment explanation
Indices: 14630--14682 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
14620 CATAATTCAA
* * *
14630 GTCAAGTAGCAGATCAGATTCCAT
1 GTCAAGTAGCAGATCAAAATCCAC
* *
14654 GTCAAGTATCATATCAAAATCCAC
1 GTCAAGTAGCAGATCAAAATCCAC
14678 GTCAA
1 GTCAA
14683 AAATCAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (24 bp):
GTCAAGTAGCAGATCAAAATCCAC
Found at i:15389 original size:28 final size:29
Alignment explanation
Indices: 15364--15548 Score: 121
Period size: 29 Copynumber: 6.4 Consensus size: 29
15354 AATTTTACAG
* *
15364 AAATAACACCTTTTTTTAA-TAATTACCA
1 AAATAACACCCTTTTTGAATTAATTACCA
* *
15392 AAATAGCACCCTTTTTGAATTAATTCCCA
1 AAATAACACCCTTTTTGAATTAATTACCA
* * *
15421 AAATAGCA-CCGTTTTGAATTAAATTCCCA
1 AAATAACACCCTTTTTGAATT-AATTACCA
* * *
15450 AAATATCA-CTTTTTTGAATTAAATTCCCA
1 AAATAACACCCTTTTTGAATT-AATTACCA
* * *
15479 AAATAGCA-CCTTTTTCAAATTAAATT-CTTA
1 AAATAACACCCTTTTT-GAATT-AATTAC-CA
* * *
15509 AAATAGCACCCATTTCGAATTAA-TACCTA
1 AAATAACACCCTTTTTGAATTAATTACC-A
*
15538 AAATATCACCC
1 AAATAACACCC
15549 GTTCAACGGG
Statistics
Matches: 133, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
28 28 0.21
29 78 0.59
30 22 0.17
31 5 0.04
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (29 bp):
AAATAACACCCTTTTTGAATTAATTACCA
Found at i:15454 original size:58 final size:59
Alignment explanation
Indices: 15384--15547 Score: 197
Period size: 58 Copynumber: 2.8 Consensus size: 59
15374 TTTTTTTAAT
* *
15384 AATTACCAAAATAGCACCCTTTTTGAATTAATTCCCAAAATAGCACCGTTTT-GAATTA
1 AATTCCCAAAATAGCACCCTTTTTGAATTAATTCCCAAAATAGCACCGTTTTCAAATTA
* * *
15442 AATTCCCAAAATATCA-CTTTTTTGAATTAAATTCCCAAAATAGCACCTTTTTCAAATTA
1 AATTCCCAAAATAGCACCCTTTTTGAATT-AATTCCCAAAATAGCACCGTTTTCAAATTA
** * * * * *
15501 AATTCTTAAAATAGCACCCATTTCGAATTAATACCTAAAATATCACC
1 AATTCCCAAAATAGCACCCTTTTTGAATTAATTCCCAAAATAGCACC
15548 CGTTCAACGG
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
57 11 0.12
58 36 0.40
59 33 0.37
60 9 0.10
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (59 bp):
AATTCCCAAAATAGCACCCTTTTTGAATTAATTCCCAAAATAGCACCGTTTTCAAATTA
Found at i:15500 original size:30 final size:29
Alignment explanation
Indices: 15384--15518 Score: 182
Period size: 29 Copynumber: 4.6 Consensus size: 29
15374 TTTTTTTAAT
*
15384 AATTACCAAAATAGCACCCTTTTTGAATT-
1 AATTCCCAAAATAGCA-CCTTTTTGAATTA
*
15413 AATTCCCAAAATAGCACCGTTTTGAATTA
1 AATTCCCAAAATAGCACCTTTTTGAATTA
* *
15442 AATTCCCAAAATATCACTTTTTTGAATTA
1 AATTCCCAAAATAGCACCTTTTTGAATTA
*
15471 AATTCCCAAAATAGCACCTTTTTCAAATTA
1 AATTCCCAAAATAGCACCTTTTT-GAATTA
**
15501 AATTCTTAAAATAGCACC
1 AATTCCCAAAATAGCACC
15519 CATTTCGAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 11 0.12
29 62 0.66
30 21 0.22
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (29 bp):
AATTCCCAAAATAGCACCTTTTTGAATTA
Found at i:15530 original size:30 final size:30
Alignment explanation
Indices: 15384--15548 Score: 178
Period size: 29 Copynumber: 5.6 Consensus size: 30
15374 TTTTTTTAAT
*
15384 AATTACCAAAATAGCACCCTTTTTGAATT-
1 AATTCCCAAAATAGCACCCTTTTTGAATTA
*
15413 AATTCCCAAAATAGCA-CCGTTTTGAATTA
1 AATTCCCAAAATAGCACCCTTTTTGAATTA
* *
15442 AATTCCCAAAATATCA-CTTTTTTGAATTA
1 AATTCCCAAAATAGCACCCTTTTTGAATTA
*
15471 AATTCCCAAAATAGCA-CCTTTTTCAAATTA
1 AATTCCCAAAATAGCACCCTTTTT-GAATTA
** * *
15501 AATTCTTAAAATAGCACCCATTTCGAATT-
1 AATTCCCAAAATAGCACCCTTTTTGAATTA
* * *
15530 AATACCTAAAATATCACCC
1 AATTCCCAAAATAGCACCC
15549 GTTCAACGGG
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
28 11 0.09
29 78 0.67
30 23 0.20
31 5 0.04
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.33
Consensus pattern (30 bp):
AATTCCCAAAATAGCACCCTTTTTGAATTA
Found at i:21207 original size:13 final size:13
Alignment explanation
Indices: 21189--21214 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21179 CGGGGATAAT
21189 TAGAGTCATCTGA
1 TAGAGTCATCTGA
21202 TAGAGTCATCTGA
1 TAGAGTCATCTGA
21215 GTCTTATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
TAGAGTCATCTGA
Found at i:24830 original size:28 final size:28
Alignment explanation
Indices: 24791--24847 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
24781 TCAGCTTTTA
24791 AGTAGTTAAATTGACTAAGTCTGAAATT
1 AGTAGTTAAATTGACTAAGTCTGAAATT
24819 AGTAGTTAAATTGACTAAGTCTGAAATT
1 AGTAGTTAAATTGACTAAGTCTGAAATT
24847 A
1 A
24848 TAAAGAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (28 bp):
AGTAGTTAAATTGACTAAGTCTGAAATT
Found at i:32890 original size:17 final size:17
Alignment explanation
Indices: 32864--32899 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
32854 AATAAAATGT
32864 ATATAAAAAAATTTAAA
1 ATATAAAAAAATTTAAA
*
32881 ATATATAAAAATTTAAA
1 ATATAAAAAAATTTAAA
32898 AT
1 AT
32900 TTGTAAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAAAATTTAAA
Found at i:34160 original size:23 final size:23
Alignment explanation
Indices: 34134--34206 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
34124 ATATTTTACA
* *
34134 ATATAAGCACTACCTATTATATT
1 ATATAAGCGCTACCTATTACATT
*
34157 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
34180 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
34203 ATAT
1 ATAT
34207 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:34353 original size:490 final size:489
Alignment explanation
Indices: 33728--35372 Score: 2934
Period size: 490 Copynumber: 3.4 Consensus size: 489
33718 TACATTATAA
*
33728 TATATTGAAAGTGTCTATACTTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTT
1 TATATTGAAAGTGTCCATAC-TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTT
33793 ATGTTTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
65 ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
*
33857 TGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACA
130 TACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACA
*
33922 ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAAT
195 ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAAT
* ** * * *
33987 ATATATCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATATTAAAACT
260 ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
* * *
34052 CACTCAAAATATAACCTTAAATTAATGTTTTCTACAGTGAAATAAGTATGGACACTTTTATAAAA
325 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
* * *
34117 ATGATAGATATTTTACAATATAAGCACTACCTATTATATTATATAAACGCTACCTATTACATTAT
390 AGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTAT
*
34182 ATAAGCGCTACCTATTACATTATATTTTTACCTAT
455 ATAAGCGCTACCTATTACATCATATTTTTACCTAT
*
34217 TATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTA
1 TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTA
* *
34282 TGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACATATAATATTAATTTAATAATTTCATT
66 TGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
*
34347 TGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACA
130 TACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACA
34412 ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAAT
195 ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAAT
34477 ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
260 ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
*
34542 CACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
325 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTAT-AAA
* * *
34607 AAGGATAAATACTTTACAATATAAGCACTACTTATTACATTATATAAACGCTACATATTACATTA
389 AAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTA
34672 TATAAGCGCTACCTATTACATCATATTTTTACCTAT
454 TATAAGCGCTACCTATTACATCATATTTTTACCTAT
* *
34708 TATATTGAAAGTGTTCATACTTTTTATAAAAAGGATCGATACTTTTTTTGAAGTTATGTAATTTA
1 TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTA
34773 TGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
66 TGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
* * *
34838 ACACAAAAAAGTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAA
131 ACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAA
34903 TATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATA
196 TATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATA
34968 TATA-CTGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
261 TATATC-GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
35032 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
325 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
* *
35097 AGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAATGCTACCAATTACATTAT
390 AGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTAT
*
35162 ATAAGCGCTACCTATTACATCATATTTTTACATAT
455 ATAAGCGCTACCTATTACATCATATTTTTACCTAT
*
35197 TATATTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTA
1 TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTA
35262 TGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
66 TGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
*
35327 ACACAAAAAATTATTTTATTGTTTTGATATTTTATAAAATAATATT
131 ACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATT
35373 AATTTGGGTC
Statistics
Matches: 1108, Mismatches: 44, Indels: 8
0.96 0.04 0.01
Matches are distributed among these distances:
488 52 0.05
489 288 0.26
490 601 0.54
491 167 0.15
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (489 bp):
TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTA
TGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
ACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAA
TATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATA
TATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTC
ACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAA
GGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATA
TAAGCGCTACCTATTACATCATATTTTTACCTAT
Found at i:34660 original size:23 final size:23
Alignment explanation
Indices: 34625--34697 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
34615 ATACTTTACA
* *
34625 ATATAAGCACTACTTATTACATT
1 ATATAAGCGCTACATATTACATT
*
34648 ATATAAACGCTACATATTACATT
1 ATATAAGCGCTACATATTACATT
* *
34671 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACATATTACATT
34694 ATAT
1 ATAT
34698 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACATATTACATT
Found at i:35149 original size:23 final size:23
Alignment explanation
Indices: 35114--35186 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
35104 ATACTTTACA
* *
35114 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
35137 ATATAAATGCTACCAATTACATT
1 ATATAAACGCTACCTATTACATT
* *
35160 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
35183 ATAT
1 ATAT
35187 TTTTACATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:38288 original size:120 final size:120
Alignment explanation
Indices: 38075--38321 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
38065 TTTTTCTTCC
*
38075 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
38140 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
* *
38195 ATTCTTGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * * *
38260 CATAAAATCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
38315 ATTCTGG
1 ATTCTGG
38322 GTTCCGATGT
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:38471 original size:303 final size:303
Alignment explanation
Indices: 37913--39109 Score: 2162
Period size: 303 Copynumber: 4.0 Consensus size: 303
37903 AATTAGCGAA
*
37913 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
1 ACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
* *
37978 CGGTTATATTATAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTGTAAATGTCGACACT
66 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACAC-
38043 TTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAA
130 TTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAA
38108 AAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATTA
195 AAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATTA
*
38173 CAAAATTATCTAGTACATTATAATTCTTGACATAAAGTACCGAC
260 CAAAATTATCTAGTACATTATAATTCTGGACATAAAGTACCGAC
*
38217 ACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATAC
1 ACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
38282 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
66 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
38347 TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAA
131 TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAA
38412 AGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATTAC
196 AGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATTAC
38477 AAAATTATCTAGTACATTATAATTCTGGACATAAAGTACCGAC
261 AAAATTATCTAGTACATTATAATTCTGGACATAAAGTACCGAC
*
38520 ACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGATCATAAAACCGGTATATTTATAC
1 ACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
* **
38585 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATATACAAATGTCGACACT
66 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
38650 TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAA
131 TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAA
* * * *
38715 AGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGATTATATTAC
196 AGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATTAC
*
38780 AAAATTATCTATTACATTATAATTCTGGACATAAAGTACCGAC
261 AAAATTATCTAGTACATTATAATTCTGGACATAAAGTACCGAC
* *
38823 ACAATATTAAAAAGTGTCAATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
1 ACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
*
38888 CGGTTATATTGCAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
66 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
*
38953 TTTTGACAAGGTATCGACACAGTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAA
131 TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAA
* * * * *
39018 AGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAA-TGGTATATTTATACCGGTTATATTAT
196 AGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATTAC
*
39082 AAAATTATCTATTACATTATAATTCTGG
261 AAAATTATCTAGTACATTATAATTCTGG
39110 GTTCTGATGT
Statistics
Matches: 867, Mismatches: 26, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
302 51 0.06
303 691 0.80
304 125 0.14
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (303 bp):
ACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAA
AGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATTAC
AAAATTATCTAGTACATTATAATTCTGGACATAAAGTACCGAC
Found at i:38591 original size:120 final size:120
Alignment explanation
Indices: 38378--38624 Score: 440
Period size: 120 Copynumber: 2.1 Consensus size: 120
38368 TTTTTCTTCC
* *
38378 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGAT
38443 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
*
38498 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGAT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGAT
* * *
38563 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
38618 ATTCTGG
1 ATTCTGG
38625 GTTCCGATAT
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGAT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:38895 original size:120 final size:120
Alignment explanation
Indices: 38681--38927 Score: 467
Period size: 120 Copynumber: 2.1 Consensus size: 120
38671 TTTTTCTTCC
*
38681 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCAATATAGGTTGTAGACCTATTCGCT
38746 CATAAAACCGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATA
66 CATAAAACCGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATA
38801 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCAATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCAATATAGGTTGTAGACCTATTCGCT
* *
38866 CATAAAACCGGTATATTTATACCGGTTATATTGCAAAATTATCTATTACATTATA
66 CATAAAACCGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATA
38921 ATTCTGG
1 ATTCTGG
38928 GTTCCGATGT
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 124 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCAATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATA
Found at i:39130 original size:182 final size:183
Alignment explanation
Indices: 38801--39204 Score: 747
Period size: 182 Copynumber: 2.2 Consensus size: 183
38791 TTACATTATA
38801 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCAATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCAATATAGGTTGTAGACCTATTCGCT
*
38866 CATAAAACCGGTATATTTATACCGGTTATATTGCAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
38931 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACAGTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACAGTTTTCTTCC
*
38984 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCAATATAGGTTGTAGACCTATTCGCT
* *
39049 CATAAAA-TGGTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* *
39113 CTGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACAGTTTTCTTCC
39166 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
39205 GAAAACTTTG
Statistics
Matches: 215, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
182 144 0.67
183 71 0.33
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCAATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACAGTTTTCTTCC
Found at i:40442 original size:18 final size:18
Alignment explanation
Indices: 40415--40460 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
40405 CTTGTTTGGA
* *
40415 TCATCATCATCATCATCG
1 TCATCTTCATCATCAGCG
* *
40433 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCAGCG
40451 TCATCTTCAT
1 TCATCTTCAT
40461 TTACCGCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCAGCG
Found at i:40444 original size:12 final size:12
Alignment explanation
Indices: 40415--40460 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
40405 CTTGTTTGGA
* *
40415 TCATCATCATCA
1 TCATCGTCATCT
40427 TCATCGTCATCT
1 TCATCGTCATCT
*
40439 TCATCGTCAGCT
1 TCATCGTCATCT
*
40451 TCATCTTCAT
1 TCATCGTCAT
40461 TTACCGCTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.39
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:42276 original size:200 final size:200
Alignment explanation
Indices: 41952--43072 Score: 1990
Period size: 200 Copynumber: 5.6 Consensus size: 200
41942 AACATTAAAT
*
41952 AGTGTCGATACATTATTTAGACCTATTCTCTCATAACACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
42017 AAAATTACCTAATACATTATACTTATGGGTTTAGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * * * * *
42082 GATCGACACTTTATGGTTGCACCCTGTTTTCCATTCAATCTGGACAAAAAATATCGATATAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
42147 ACAAA
196 ACAAA
* *
42152 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTAA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
42217 AAAATTACCTATTACATTATACTTATGGGTTTTGATGTTTATGGGATCGACACTTTTTATATATT
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
42282 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
*
42347 AAAAA
196 ACAAA
*
42352 AGTGTCGAAACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
42417 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
42482 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
42547 ACAAA
196 ACAAA
*
42552 AGTGTCGATACATTATTTAGACTTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
**
42617 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCAGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
42682 GATCGACACTTTATTGTTGCACCTTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
42747 ACAAA
196 ACAAA
*
42752 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
42817 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTCTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
42882 GATCGACACTTTATGGTTGCACCTTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
42947 ACAAA
196 ACAAA
*
42952 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
43017 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTT
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTT
43073 ATGGTTGCAC
Statistics
Matches: 888, Mismatches: 33, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
200 888 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:43339 original size:18 final size:18
Alignment explanation
Indices: 43316--43376 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
43306 TCTCATTCAT
*
43316 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
43334 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
43353 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
43372 AATTA
1 AATTA
43377 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:43352 original size:19 final size:19
Alignment explanation
Indices: 43328--43376 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
43318 TTATATTCAC
43328 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
43347 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
43366 ATACAAAATTA
1 ATACAAAATTA
43377 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:45136 original size:33 final size:33
Alignment explanation
Indices: 45099--45164 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
45089 CATCTTAATA
*
45099 TCACCCATTAACACCCCAACTTCTTTCACCACT
1 TCACCCATCAACACCCCAACTTCTTTCACCACT
* * *
45132 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCATCAACACCCCAACTTCTTTCACCACT
45165 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCATCAACACCCCAACTTCTTTCACCACT
Found at i:45223 original size:21 final size:21
Alignment explanation
Indices: 45198--45283 Score: 136
Period size: 21 Copynumber: 4.1 Consensus size: 21
45188 CCCCTTATGC
* *
45198 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
45219 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
45240 CTCTCAAGTTTCTTTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
45261 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
45282 CT
1 CT
45284 TGATTGTCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.16, C:0.30, G:0.10, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:47561 original size:20 final size:19
Alignment explanation
Indices: 47515--47561 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
47505 TCCGGTATCG
*
47515 TTTTATCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
47534 TTGGTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
47555 TTTTACC
1 TTTTACC
47562 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:47803 original size:161 final size:162
Alignment explanation
Indices: 47538--47875 Score: 534
Period size: 161 Copynumber: 2.1 Consensus size: 162
47528 ATCATTTTGG
* ** *
47538 TACCGGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATATTTTTTTTTAAAGTATCG
1 TACCGGTTTTATCATATTTTTACCTGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCG
*
47603 ACACATTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-TAAAG
66 ACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
* * *
47667 TATCGACACTTTCAATATATCCGGTAACGTTT
131 TACCGACACTTTAAATATATCCGGTAACGCTT
*
47699 TACCGGTTTTATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCG
1 TACCGGTTTTATCATATTTTTACCTGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCG
* ** *
47764 ACACTTTATAGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATTAAAG
66 ACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
* *
47829 TACCGACACTTTAAATGTATCCGGTAGCGCTT
131 TACCGACACTTTAAATATATCCGGTAACGCTT
47861 TACCGGTTTTATCAT
1 TACCGGTTTTATCAT
47876 TTCAATACCG
Statistics
Matches: 161, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
161 114 0.71
162 47 0.29
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (162 bp):
TACCGGTTTTATCATATTTTTACCTGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCG
ACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
TACCGACACTTTAAATATATCCGGTAACGCTT
Done.