Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009398.1 Hibiscus syriacus cultivar Beakdansim tig00113303_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: 82920
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Found at i:6314 original size:19 final size:19
Alignment explanation
Indices: 6264--6331 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 19
6254 CCGGTTTTCA
6264 ACCGGTTCTG-ACCGGTTTCG
1 ACCGG-TCTGAACCGGTTT-G
*
6284 ACCTGT-TCGAACCGGTTTG
1 ACCGGTCT-GAACCGGTTTG
6303 ACCGGTCTGAACCGGTTTG
1 ACCGGTCTGAACCGGTTTG
*
6322 ATCGGTCTGA
1 ACCGGTCTGA
6332 CCCGACCGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.02
19 28 0.67
20 13 0.31
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.29
Consensus pattern (19 bp):
ACCGGTCTGAACCGGTTTG
Found at i:6327 original size:9 final size:9
Alignment explanation
Indices: 6244--6333 Score: 63
Period size: 10 Copynumber: 9.3 Consensus size: 9
6234 GCTGCTGGAA
*
6244 ACCGGTTTA
1 ACCGGTTTG
*
6253 ACCGGTTTTCA
1 ACCGG-TTT-G
6264 ACCGGTTCTG
1 ACCGGTT-TG
6274 ACCGGTTTCG
1 ACCGGTTT-G
* *
6284 ACCTGTTCG
1 ACCGGTTTG
6293 AACCGGTTTG
1 -ACCGGTTTG
*
6303 ACCGGTCTG
1 ACCGGTTTG
6312 AACCGGTTTG
1 -ACCGGTTTG
* *
6322 ATCGGTCTG
1 ACCGGTTTG
6331 ACC
1 ACC
6334 CGACCGACCG
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
9 24 0.37
10 34 0.52
11 7 0.11
ACGTcount: A:0.16, C:0.28, G:0.27, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:6349 original size:5 final size:5
Alignment explanation
Indices: 6330--6405 Score: 75
Period size: 5 Copynumber: 14.8 Consensus size: 5
6320 TGATCGGTCT
* *
6330 GACCC GA-CC GA-CC GACCC GACCC GACCGTT GACCC GACTC GACCC GACCC
1 GACCC GACCC GACCC GACCC GACCC GACC--C GACCC GACCC GACCC GACCC
*
6380 GACCGTT GACCC GACCC GACCC GACC
1 GACC--C GACCC GACCC GACCC GACC
6406 GTTGACCGTT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
4 8 0.13
5 44 0.73
7 8 0.13
ACGTcount: A:0.20, C:0.51, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:6365 original size:17 final size:17
Alignment explanation
Indices: 6343--6400 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
6333 CCGACCGACC
6343 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
*
6360 GACCCGACTCGA-C---
1 GACCCGACCCGACCGTT
6373 ---CCGACCCGACCGTT
1 GACCCGACCCGACCGTT
6387 GACCCGACCCGACC
1 GACCCGACCCGACC
6401 CGACCGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
10 8 0.25
11 1 0.03
16 1 0.03
17 22 0.69
ACGTcount: A:0.19, C:0.50, G:0.22, T:0.09
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:6366 original size:22 final size:22
Alignment explanation
Indices: 6341--6412 Score: 99
Period size: 22 Copynumber: 3.0 Consensus size: 22
6331 ACCCGACCGA
6341 CCGACCCGACCCGACCGTTGACCC
1 CCGACCCGACCCGACCGTTGA--C
6365 GACTCGACCCGACCCGACCGTTGAC
1 --C-CGACCCGACCCGACCGTTGAC
6390 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
6412 C
1 C
6413 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
22 22 0.49
23 1 0.02
25 1 0.02
26 1 0.02
27 20 0.44
ACGTcount: A:0.18, C:0.50, G:0.22, T:0.10
Consensus pattern (22 bp):
CCGACCCGACCCGACCGTTGAC
Found at i:6377 original size:27 final size:26
Alignment explanation
Indices: 6337--6419 Score: 121
Period size: 27 Copynumber: 3.0 Consensus size: 26
6327 TCTGACCCGA
6337 CCGACCGACCCGACCCGACCGTTGAC
1 CCGACCGACCCGACCCGACCGTTGAC
6363 CCGACTCGACCCGACCCGACCGTTGAC
1 CCGAC-CGACCCGACCCGACCGTTGAC
*
6390 CCGACCCGACCCGACCGTTGACCGTTGAC
1 CCGA-CCGACCCGACC--CGACCGTTGAC
6419 C
1 C
6420 GTTGACCGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
26 5 0.10
27 35 0.67
28 1 0.02
29 11 0.21
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.11
Consensus pattern (26 bp):
CCGACCGACCCGACCCGACCGTTGAC
Found at i:6414 original size:7 final size:7
Alignment explanation
Indices: 6402--6432 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
6392 GACCCGACCC
6402 GACCGTT
1 GACCGTT
6409 GACCGTT
1 GACCGTT
6416 GACCGTT
1 GACCGTT
6423 GACCGTT
1 GACCGTT
6430 GAC
1 GAC
6433 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:12851 original size:19 final size:17
Alignment explanation
Indices: 12822--12862 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 17
12812 ATACATAATA
12822 TATATATATATATATTT
1 TATATATATATATATTT
12839 TCATATCATATATATATTT
1 T-ATAT-ATATATATATTT
12858 TATAT
1 TATAT
12863 TTTTTCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.05
18 8 0.36
19 13 0.59
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATATATATATATTT
Found at i:12870 original size:23 final size:26
Alignment explanation
Indices: 12819--12887 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
12809 ATAATACATA
12819 ATATATATATATATATATTTTCATATC
1 ATATATATATATATATATTTT-ATATC
*
12846 ATATATATAT-TTTATATTTT-T-TC
1 ATATATATATATATATATTTTATATC
* *
12869 ATATGTTATATACATATAT
1 ATAT-ATATATATATATAT
12888 CATACAATAG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 6 0.17
24 6 0.17
25 5 0.14
26 9 0.25
27 10 0.28
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (26 bp):
ATATATATATATATATATTTTATATC
Found at i:12878 original size:28 final size:29
Alignment explanation
Indices: 12819--12887 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
12809 ATAATACATA
12819 ATATATATATATATATATTTTCATATCAT
1 ATATATATATATATATATTTTCATATCAT
* * **
12848 ATATATAT-TTTATATTTTTTCATATGTT
1 ATATATATATATATATATTTTCATATCAT
*
12876 ATATACATATAT
1 ATATATATATAT
12888 CATACAATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 23 0.70
29 10 0.30
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (29 bp):
ATATATATATATATATATTTTCATATCAT
Found at i:16191 original size:130 final size:130
Alignment explanation
Indices: 16050--16297 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
16040 TATTTATATA
*
16050 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
16115 TTAGCACATGATCATGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
*
16180 ATCAATTTGGTCCTAAATTAAATAATATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
16245 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
16298 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:16328 original size:130 final size:129
Alignment explanation
Indices: 16064--16328 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
16054 ATTTGGTCCT
* *
16064 AAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * *** * * **** *
16129 TGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
*
16194 AAATTAAATAATATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * * * *
16259 TGATATGTGTTATTGGTGACACATGTCACCTCCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
16323 -A
128 CA
16324 AAATT
1 AAATT
16329 TGGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:16654 original size:28 final size:27
Alignment explanation
Indices: 16623--16685 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
16613 AGTTGATACA
*
16623 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
16651 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
16679 ATATTTT
1 ATATTTT
16686 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:16938 original size:21 final size:21
Alignment explanation
Indices: 16914--16957 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
16904 TATTACCTTA
16914 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
16935 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
16956 AA
1 AA
16958 GGTTTAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:16974 original size:35 final size:35
Alignment explanation
Indices: 16925--17010 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 35
16915 ATTGAAGTAT
** * *
16925 TTTAGAATTTAATTGAAGTATTTTAGAATTTAAGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAAGG
* * **
16960 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAAGG
*
16995 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
17011 TGACTGTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAAGG
Found at i:18109 original size:20 final size:19
Alignment explanation
Indices: 18086--18132 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
18076 CGATATACCA
18086 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
18106 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
18126 GGTAAAA
1 GGTAAAA
18133 CGTTACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:18210 original size:181 final size:182
Alignment explanation
Indices: 17874--18346 Score: 723
Period size: 181 Copynumber: 2.6 Consensus size: 182
17864 GATCCAAATT
* * * * **
17874 AAAAATATGTCGATCCAAAACGATATAAGAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
17939 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * *
18004 GTGAATTTAAAATAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
18056 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
18121 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTTGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
18185 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
18237 AAAAATATATTGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
18302 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
18347 CGTAAATACG
Statistics
Matches: 264, Mismatches: 27, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
181 168 0.64
182 96 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:18290 original size:20 final size:19
Alignment explanation
Indices: 18267--18313 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
18257 CGATATAACA
18267 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
18287 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
18307 GGTAAAA
1 GGTAAAA
18314 CGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:18318 original size:17 final size:19
Alignment explanation
Indices: 18278--18318 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
18268 GTAAAAATAT
*
18278 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
18298 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
18315 GATA
1 GATA
18319 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:19371 original size:183 final size:183
Alignment explanation
Indices: 19058--19827 Score: 1359
Period size: 183 Copynumber: 4.2 Consensus size: 183
19048 CAAAGTTTTC
*
19058 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * * *
19123 C-AAAAGTGTCG--ATTGAAAAAATATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
* *
19185 TATAATCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
19241 ACACATTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
19306 CAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
19371 AACCGGTAT-AATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
19423 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
19488 CAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
19553 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
19606 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
19671 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
19736 AACCGGTATAAATATACCGATTTTATGAGTGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
19789 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
19828 TATAATGTAC
Statistics
Matches: 568, Mismatches: 15, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
182 178 0.31
183 377 0.66
184 10 0.02
186 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:19728 original size:365 final size:364
Alignment explanation
Indices: 19058--19827 Score: 1355
Period size: 365 Copynumber: 2.1 Consensus size: 364
19048 CAAAGTTTTC
*
19058 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * *
19123 CAAAAGTGTCGATTGAAAAAATATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAGTATCGATT--AAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
19188 AATCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACATTTTAAT
129 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACATTTTAAT
*
19253 ATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCG
194 ATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCG
*
19318 ACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTAT-AA
259 ACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
*
19382 TATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
324 TATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
19423 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
19488 CAAAAAGTATCGACATT-TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 C-AAAAGTATCG--ATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
19552 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAA
128 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACATTTTAA
19617 TATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTC
193 TATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTC
19682 GACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAA
258 GACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAA
*
19747 ATATACCGATTTTATGAGTGAATAGGTCTACAACCTATATCG
323 ATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
*
19789 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
19828 TATAATGTAC
Statistics
Matches: 387, Mismatches: 14, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
365 296 0.76
366 88 0.23
368 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (364 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAGTATCGATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACATTTTAATAT
TGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGAC
ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
TACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:19914 original size:120 final size:120
Alignment explanation
Indices: 19701--19947 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
19691 ACATCGGAAC
*
19701 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGT
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
19766 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
19821 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
19886 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
19941 CCAGAAT
1 CCAGAAT
19948 GGAAGAAAAA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:20065 original size:303 final size:303
Alignment explanation
Indices: 19518--20112 Score: 1118
Period size: 303 Copynumber: 2.0 Consensus size: 303
19508 ACATCGGAAC
19518 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
19583 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
19648 AGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
19713 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGTGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTAC
*
19778 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * *
19821 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
19886 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
19951 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
20016 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTAC
20081 AACCTATATCGACACTTTTTAATATTGTGTCG
261 AACCTATATCGACACTTTTTAATATTGTGTCG
20113 CTAATTTTAA
Statistics
Matches: 284, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
303 284 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (303 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTAC
AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:23565 original size:87 final size:87
Alignment explanation
Indices: 23461--23623 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
23451 AAATAGGTCA
23461 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
23526 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
* *
23548 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
* *
23613 TCGGTTAAATA
66 CCCGTTAAATA
23624 ATATAACATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATACCTATTTTATT
Found at i:23595 original size:23 final size:23
Alignment explanation
Indices: 23545--23589 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
23535 TACCTATTTT
* *
23545 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
23568 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
23590 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:23836 original size:18 final size:19
Alignment explanation
Indices: 23805--23842 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
23795 CGATAAAGTA
* *
23805 TTATTTAAATTATT-ATTT
1 TTATTAAAAATATTAATTT
23823 TTATTAAAAATATTAATTT
1 TTATTAAAAATATTAATTT
23842 T
1 T
23843 GCAATCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTAAAAATATTAATTT
Found at i:26293 original size:15 final size:15
Alignment explanation
Indices: 26270--26312 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
26260 TTAGCTGGGT
* *
26270 GGGCGGATGTGGGGC
1 GGGCAGATGCGGGGC
26285 GGGCAGATGCGGGGC
1 GGGCAGATGCGGGGC
* *
26300 GAGAAGATGCGGG
1 GGGCAGATGCGGG
26313 ATGGGTAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.16, C:0.14, G:0.60, T:0.09
Consensus pattern (15 bp):
GGGCAGATGCGGGGC
Found at i:29815 original size:12 final size:12
Alignment explanation
Indices: 29800--29834 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
29790 GAACCTGGAT
29800 TATCACCTTTTG
1 TATCACCTTTTG
*
29812 TATCACCTTTAG
1 TATCACCTTTTG
*
29824 CATCACCTTTT
1 TATCACCTTTT
29835 CCACTACTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.06, T:0.46
Consensus pattern (12 bp):
TATCACCTTTTG
Found at i:30186 original size:24 final size:22
Alignment explanation
Indices: 30142--30190 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 22
30132 ATTCAAACCA
30142 AAATCATATAAAAATCATTTAGT
1 AAATCATATAAAAATCATTTA-T
*
30165 AAATCAGTATAAAGAT-ATTTTAT
1 AAATCA-TATAAAAATCA-TTTAT
30188 AAA
1 AAA
30191 ATAATTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (22 bp):
AAATCATATAAAAATCATTTAT
Found at i:35956 original size:55 final size:55
Alignment explanation
Indices: 35457--35953 Score: 619
Period size: 55 Copynumber: 9.0 Consensus size: 55
35447 CTTCAAATGG
* * *
35457 CGGGTCCGCTCCCTATTCTTTCA-AGGAGTATA-AGACTTGAACAATCTTCAGAAAA
1 CGGGTCCGCTCCCTATTCCTTCAGA-GAGTATAGA-ACTCGAACAATCTTCATAAAA
* * * * * *
35512 TGCGTCTGCTCCCTATTCATTCAGGGAGTATA-AGACTCGAATAATCTTCA-ATAAA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCATA-AAA
* * *
35567 CGGGTCCGCTCCCTATTCATCCAGGGAGTATAGAACTCGAACAATCTTCATAAAA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAA
* *
35622 CGGGTACGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ATAAA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAA
* ** * *
35677 CGGGTCTGCTCCCTATTTATTTAGGGAGTATAGAACTCGAACAATCTTCA-ACAAA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAA
* * *
35732 CGGGTCCACTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAA
* * * *
35787 CGGGTCCGCTCTCTATTTCTTGAGAGAGTATAGAACTCGAAGAATCTTCATAAAA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAA
* *
35842 CGAGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAA
* * *
35897 CGAGTCCGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCATAAAA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAA
35952 CG
1 CG
35954 AGTTTGCTTC
Statistics
Matches: 395, Mismatches: 41, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
54 2 0.01
55 390 0.99
56 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (55 bp):
CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAA
Found at i:36010 original size:37 final size:36
Alignment explanation
Indices: 35955--36026 Score: 126
Period size: 37 Copynumber: 2.0 Consensus size: 36
35945 CATAAAACGA
35955 GTTTGCTTCACTAATCTTCCGTGAAGGCTTACAGATG
1 GTTTGCTTCACTAATCTTCCGTGAAGGCTTA-AGATG
*
35992 GTTTGCTTCACTACTCTTCCGTGAAGGCTTAAGAT
1 GTTTGCTTCACTAATCTTCCGTGAAGGCTTAAGAT
36027 TGACCTGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 4 0.12
37 30 0.88
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (36 bp):
GTTTGCTTCACTAATCTTCCGTGAAGGCTTAAGATG
Found at i:37257 original size:45 final size:45
Alignment explanation
Indices: 37193--37278 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
37183 CAAACTCAAC
*
37193 TCAAGTCGCCCTTTGCGGGTTTTCAACTTGAGA-CCTCCTTTGGTT
1 TCAAGACGCCCTTTGCGGGTTTTCAACTTGA-ACCCTCCTTTGGTT
* *
37238 TCAAGACGCCCTTTTCGGGTTTTCATCTTGAACCCTCCTTT
1 TCAAGACGCCCTTTGCGGGTTTTCAACTTGAACCCTCCTTT
37279 TATTTCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.03
45 36 0.97
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (45 bp):
TCAAGACGCCCTTTGCGGGTTTTCAACTTGAACCCTCCTTTGGTT
Found at i:37316 original size:7 final size:7
Alignment explanation
Indices: 37290--37372 Score: 121
Period size: 7 Copynumber: 11.7 Consensus size: 7
37280 ATTTCTATTT
*
37290 TTTTTCT
1 TTTTTCA
37297 TTCTTTCA
1 TT-TTTCA
*
37305 TTTTTTA
1 TTTTTCA
37312 TTTTTCA
1 TTTTTCA
37319 TTTTTCA
1 TTTTTCA
37326 TTTTTCA
1 TTTTTCA
37333 TTTTTCA
1 TTTTTCA
37340 TTTTTCA
1 TTTTTCA
37347 TTTTTCA
1 TTTTTCA
*
37354 GTTTTCA
1 TTTTTCA
*
37361 GTTTTCA
1 TTTTTCA
37368 TTTTT
1 TTTTT
37373 TTCTTTTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
7 64 0.91
8 6 0.09
ACGTcount: A:0.12, C:0.13, G:0.02, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:37379 original size:21 final size:20
Alignment explanation
Indices: 37287--37434 Score: 101
Period size: 21 Copynumber: 7.2 Consensus size: 20
37277 TTTATTTCTA
*
37287 TTTTTTTTCTTTCTTTCATTT
1 TTTTTTTTCATT-TTTCATTT
37308 TTTATTTTTCATTTTTCATTT
1 TTT-TTTTTCATTTTTCATTT
*
37329 TTCATTTTTCATTTTTCATTT
1 TT-TTTTTTCATTTTTCATTT
** *
37350 TTCAGTTTTCAGTTTTCA-TT
1 TT-TTTTTTCATTTTTCATTT
*
37370 TTTTTCTT--TTTTTCATTAT
1 TTTTTTTTCATTTTTCATT-T
37389 TTTTCCTTTT--TTATTTC-TCTT
1 TTTT--TTTTCATT-TTTCAT-TT
*
37410 TTTTTTTTCTTTTTTCATTT
1 TTTTTTTTCATTTTTCATTT
37430 CTTTT
1 -TTTT
37435 CAGGCGAAAT
Statistics
Matches: 106, Mismatches: 9, Indels: 24
0.76 0.06 0.17
Matches are distributed among these distances:
17 6 0.06
18 1 0.01
19 12 0.11
20 10 0.09
21 64 0.60
22 13 0.12
ACGTcount: A:0.09, C:0.14, G:0.01, T:0.76
Consensus pattern (20 bp):
TTTTTTTTCATTTTTCATTT
Found at i:37384 original size:17 final size:17
Alignment explanation
Indices: 37362--37424 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
37352 CAGTTTTCAG
37362 TTTTCATTTTTTTCTTT
1 TTTTCATTTTTTTCTTT
*
37379 TTTTCATTATTTTTCCTT
1 TTTTCATT-TTTTTCTTT
37397 TTTT-ATTTCTCTTT-TTT
1 TTTTCATTT-T-TTTCTTT
37414 TTTTC-TTTTTT
1 TTTTCATTTTTT
37425 CATTTCTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
15 2 0.05
16 2 0.05
17 21 0.52
18 15 0.38
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCATTTTTTTCTTT
Found at i:37410 original size:13 final size:13
Alignment explanation
Indices: 37390--37431 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
37380 TTTCATTATT
37390 TTTC-CTTTTTTA
1 TTTCTCTTTTTTA
37402 TTTCTCTTTTTT-
1 TTTCTCTTTTTTA
37414 TTT-TCTTTTTTCA
1 TTTCTCTTTTTT-A
37427 TTTCT
1 TTTCT
37432 TTTCAGGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.31
12 7 0.27
13 10 0.38
14 1 0.04
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTCTCTTTTTTA
Found at i:37435 original size:17 final size:16
Alignment explanation
Indices: 37288--37424 Score: 67
Period size: 14 Copynumber: 8.4 Consensus size: 16
37278 TTATTTCTAT
37288 TTTTTTTCTTTCTTTCA
1 TTTTTTTCTTT-TTTCA
*
37305 -TTTTTT-ATTTTTCA
1 TTTTTTTCTTTTTTCA
*
37319 --TTTTTCATTTTTCA
1 TTTTTTTCTTTTTTCA
*
37333 --TTTTTCATTTTTCA
1 TTTTTTTCTTTTTTCA
37347 TTTTTCAGTT-TTCAGTTTTCA
1 TTTTT---TTCTT---TTTTCA
37368 TTTTTTTCTTTTTTTCA
1 TTTTTTTC-TTTTTTCA
37385 TTATTTTTCCTTTTTT-A
1 TT-TTTTT-CTTTTTTCA
*
37402 TTTCTCTTTTTTTTTTC-
1 TTT-T-TTTCTTTTTTCA
37419 TTTTTT
1 TTTTTT
37425 CATTTCTTTT
Statistics
Matches: 101, Mismatches: 3, Indels: 34
0.73 0.02 0.25
Matches are distributed among these distances:
13 5 0.05
14 27 0.27
15 4 0.04
16 11 0.11
17 21 0.21
18 17 0.17
19 3 0.03
20 2 0.02
21 11 0.11
ACGTcount: A:0.09, C:0.13, G:0.01, T:0.76
Consensus pattern (16 bp):
TTTTTTTCTTTTTTCA
Found at i:43369 original size:23 final size:23
Alignment explanation
Indices: 43343--43406 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
43333 CAGCTCATAT
43343 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
43366 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
43389 AATTACACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
43407 TATAATAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:43593 original size:103 final size:103
Alignment explanation
Indices: 43424--43639 Score: 387
Period size: 103 Copynumber: 2.1 Consensus size: 103
43414 ATGTCCATAT
* *
43424 GGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGA
1 GGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGA
*
43489 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
66 CTTCACACATGTTCCAAAGAATACATATATATCCCGAA
*
43527 GGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGA
1 GGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGA
*
43592 CTTCATACATGTTCCAAAGAATACATATATATCCCGAA
66 CTTCACACATGTTCCAAAGAATACATATATATCCCGAA
43630 GGACCACATA
1 GGACCACATA
43640 GACCCTCGAT
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
GGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGA
CTTCACACATGTTCCAAAGAATACATATATATCCCGAA
Found at i:44483 original size:64 final size:64
Alignment explanation
Indices: 44375--44595 Score: 234
Period size: 64 Copynumber: 3.5 Consensus size: 64
44365 TAATGAAGGT
* * * * * *
44375 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGTATTCGATGTTGT-ATTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTT-TCATTATTAATGGG
* * * * *
44439 ATGCATTGATGCA-TGCCTTATGCATTGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACAAATTGCATTCGATGTTTCATTATTAATGGG
* **
44503 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGT-TTCATTATTAATGGG
**
44566 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
44596 ACACCTTCAA
Statistics
Matches: 131, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
63 4 0.03
64 122 0.93
65 5 0.04
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:49347 original size:23 final size:23
Alignment explanation
Indices: 49321--49384 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
49311 CAGCTCATAT
49321 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
49344 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
49367 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
49385 TATAATAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:49571 original size:103 final size:103
Alignment explanation
Indices: 49400--49617 Score: 366
Period size: 103 Copynumber: 2.1 Consensus size: 103
49390 TAATGTCCAT
* * *
49400 AAGGACCACATATCATTCTTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCGTACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCGTACCA
*
49465 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
*
49503 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTC-TCACC
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCGT-ACC
*
49567 AGACTTCATACATGTTCCAAAGAATACATATATATCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATATCCCG
49606 AAGGACCACATA
1 AAGGACCACATA
49618 GACCCTCGAC
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
102 1 0.01
103 107 0.99
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCGTACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:50461 original size:64 final size:64
Alignment explanation
Indices: 50353--50573 Score: 227
Period size: 64 Copynumber: 3.5 Consensus size: 64
50343 TAATGAAGGT
* * * ** *
50353 ATGCATCGATGCACTA-TTGATGCATCGGTGCATAAAATGTATTCGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTT-ATGCATCGATGCACAAATTACATTCGATGTT-TCATTATTAATGG
50416 G
64 G
* * *
50417 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTACATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACAAATTACATTCGATGTTTCATTATTAATGGG
* * **
50481 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTACATTCGATGT-TTCATTATTAATGGG
**
50544 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
50574 ACACCTTCAA
Statistics
Matches: 133, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
63 4 0.03
64 122 0.92
65 7 0.05
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACAAATTACATTCGATGTTTCATTATTAATGGG
Found at i:56058 original size:45 final size:46
Alignment explanation
Indices: 55991--56095 Score: 176
Period size: 45 Copynumber: 2.3 Consensus size: 46
55981 CCATGTTTTG
55991 TTATTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATAC
1 TTATTCA-AAAAATAAATCCTAACCGCATGATATCTAATTCGCATAC
* *
56038 TTATTCAAAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGC
1 TTATTCAAAAAATAAATCCTAACCGCATGATATCTAATTCGCATAC
56083 TTATTCAAAAAAT
1 TTATTCAAAAAAT
56096 GAAAATAAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
45 40 0.71
46 9 0.16
47 7 0.12
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (46 bp):
TTATTCAAAAAATAAATCCTAACCGCATGATATCTAATTCGCATAC
Found at i:69422 original size:15 final size:15
Alignment explanation
Indices: 69402--69432 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
69392 CTTATTTTTT
69402 AATCTAATAAATAAA
1 AATCTAATAAATAAA
*
69417 AATCTATTAAATAAA
1 AATCTAATAAATAAA
69432 A
1 A
69433 TAAAACATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AATCTAATAAATAAA
Found at i:71068 original size:23 final size:23
Alignment explanation
Indices: 71033--71105 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
71023 ATACTTTACA
*
71033 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
71056 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* * *
71079 ATATAAGTGCTACATATTACATC
1 ATATAAGCGCTACCTATTACATT
71102 ATAT
1 ATAT
71106 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):
ATATAAGCGCTACCTATTACATT
Found at i:71546 original size:23 final size:23
Alignment explanation
Indices: 71520--71592 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
71510 ATATTTTACA
*
71520 ATATAAACACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
71543 ATATAAACGCTACCTATTATATT
1 ATATAAACGCTACCTATTACATT
* *
71566 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
71589 ATAT
1 ATAT
71593 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:71644 original size:22 final size:22
Alignment explanation
Indices: 71610--71654 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
71600 TATTATATTG
* *
71610 AAAGTATCTATACTTTTTATAA
1 AAAGAATCGATACTTTTTATAA
*
71632 AAAGAATCGATACTTTTTTTAA
1 AAAGAATCGATACTTTTTATAA
71654 A
1 A
71655 GTTATGTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (22 bp):
AAAGAATCGATACTTTTTATAA
Found at i:71993 original size:489 final size:489
Alignment explanation
Indices: 70587--72876 Score: 3633
Period size: 489 Copynumber: 4.6 Consensus size: 489
70577 ATACTTTACA
* *
70587 ATATAAGCGCTACCTATTACATTATATTTTTACCTGA-TATATTGTAAAGTATCGAT-CATTTTT
1 ATATAAGCGCTACCTATTACATCATATTTTTACCT-ATTATATTG-AAAGTATCTATAC-TTTTT
*
70650 ATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGT
63 ATAAAAAGAATCGATAC-TTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGT
*
70715 TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTT
126 TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTT
* *
70780 TTGATATTTTATAAAATATTATTTAGAATTTAAATTTAATAATATTAACCAAAGATAATAATAAA
191 TTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAA
70845 TATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAA
256 TATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAA
*
70910 TCATTAGACAG-CTATAATTACTAAATTAATATCTTAAAACTCACTTAAAAGATAACCTTAAATT
321 TCATTAGAC-GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATT
* * *
70974 AATGTTTTCAACAGTAAAAAAAATATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAA
385 AATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAA
71039 GCACTACCTATTACATTATATAAACGCTACCTATTACATT
450 GCACTACCTATTACATTATATAAACGCTACCTATTACATT
* * * *
71079 ATATAAGTGCTACATATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATA
1 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCTATACTTTTTATA
*
71144 AAAATG-ATCGATATTTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTC
66 AAAA-GAATCGATA-CTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTC
71208 ATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
129 ATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
71273 ATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAG---ATAATAAATAT
194 ATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATAT
*
71335 GCAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCA
259 GTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCA
*
71400 TTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATA
324 TTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATG
* * *
71465 TTTTCCACAGTGAAAAAAGTATTGACACTTTTATAAAAAGGATAGATATTTTACAATATAAACAC
389 TTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCAC
*
71530 TACCTATTACATTATATAAACGCTACCTATTATATT
454 TACCTATTACATTATATAAACGCTACCTATTACATT
71566 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCTATACTTTTTATA
1 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCTATACTTTTTATA
71631 AAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
66 AAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
*
71696 GTTTTCCACCTACAATATTAATTTAATAATTTCATTTTCACAAAAAATTATTTGATTGTTTTGAT
131 GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
* *
71761 ATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
196 ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
*
71826 AATATATATGTTTATTGTTTTTAATTTAATAATAATGTATACCGTAACGTAAAAAATAAATCATT
261 AATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATT
71891 AGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTT
326 AGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTT
71956 TTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTA
391 TTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTA
72021 CCTATTACATTATATAAACGCTACCTATTACATT
456 CCTATTACATTATATAAACGCTACCTATTACATT
* *
72055 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCAATATTTTTTATA
1 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCTATACTTTTTATA
*
72120 AAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTAATAGTGTTTCAT
66 AAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
* * *
72184 ATTTTTCACCTAAAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
131 GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
72249 ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
196 ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
* *
72314 AATATATATGTTTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCAAT
261 AATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATT
72379 AGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTT
326 AGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTT
*
72444 TTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGGATAGATACTTTACAACATAAGCACT
391 TTCCACAGTGAAAAAAGTATGGACACTTTTAT-AAAAAGGATAGATACTTTACAATATAAGCACT
*
72509 ACCTATTACATTATATAAACACTACCTATTACATT
455 ACCTATTACATTATATAAACGCTACCTATTACATT
* *** * *
72544 ATATAAGCGCTACCTATTACATTATATAAACACTACCTATTACATTATATAAGCGCTACCTATTA
1 ATATAAGCGCTACCTATTACATCATAT---TTTTACCTATT--A-TAT-T----G--A--AAGT-
*
72609 CATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTTTT
50 -ATC-TA----TA-C-----T-TT-----T-T--ATA--------AAAAGA-ATCGATACTTTTT
72674 TTAAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATAT
85 TT-AAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATAT
72739 TAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATT
149 TAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATT
*
72804 TAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTAATATATATGTTTATTGT
214 TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGT
72869 TTTTAATT
279 TTTTAATT
72877 ATTGGTTTTG
Statistics
Matches: 1678, Mismatches: 62, Indels: 71
0.93 0.03 0.04
Matches are distributed among these distances:
486 164 0.10
487 302 0.18
488 302 0.18
489 433 0.26
490 131 0.08
491 60 0.04
492 49 0.03
494 1 0.00
495 3 0.00
496 1 0.00
500 1 0.00
502 1 0.00
504 2 0.00
506 3 0.00
507 1 0.00
511 2 0.00
517 1 0.00
518 2 0.00
523 1 0.00
524 1 0.00
526 3 0.00
534 4 0.00
535 15 0.01
536 24 0.01
537 171 0.10
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (489 bp):
ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCTATACTTTTTATA
AAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
AATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATT
AGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTT
TTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTA
CCTATTACATTATATAAACGCTACCTATTACATT
Found at i:72044 original size:23 final size:23
Alignment explanation
Indices: 72009--72081 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
71999 ATACTTTACA
*
72009 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
72032 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
72055 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
72078 ATAT
1 ATAT
72082 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:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:72531 original size:23 final size:23
Alignment explanation
Indices: 72500--72616 Score: 189
Period size: 23 Copynumber: 5.1 Consensus size: 23
72490 ACTTTACAAC
72500 ATAAGCACTACCTATTACATTAT
1 ATAAGCACTACCTATTACATTAT
*
72523 ATAAACACTACCTATTACATTAT
1 ATAAGCACTACCTATTACATTAT
*
72546 ATAAGCGCTACCTATTACATTAT
1 ATAAGCACTACCTATTACATTAT
*
72569 ATAAACACTACCTATTACATTAT
1 ATAAGCACTACCTATTACATTAT
* *
72592 ATAAGCGCTACCTATTACATCAT
1 ATAAGCACTACCTATTACATTAT
72615 AT
1 AT
72617 TTTTACCTAT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 86 1.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATAAGCACTACCTATTACATTAT
Found at i:72551 original size:46 final size:46
Alignment explanation
Indices: 72500--72616 Score: 216
Period size: 46 Copynumber: 2.5 Consensus size: 46
72490 ACTTTACAAC
*
72500 ATAAGCACTACCTATTACATTATATAAACACTACCTATTACATTAT
1 ATAAGCGCTACCTATTACATTATATAAACACTACCTATTACATTAT
72546 ATAAGCGCTACCTATTACATTATATAAACACTACCTATTACATTAT
1 ATAAGCGCTACCTATTACATTATATAAACACTACCTATTACATTAT
*
72592 ATAAGCGCTACCTATTACATCATAT
1 ATAAGCGCTACCTATTACATTATAT
72617 TTTTACCTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.34
Consensus pattern (46 bp):
ATAAGCGCTACCTATTACATTATATAAACACTACCTATTACATTAT
Found at i:75734 original size:117 final size:119
Alignment explanation
Indices: 75514--75756 Score: 375
Period size: 117 Copynumber: 2.1 Consensus size: 119
75504 TTTTTCTTCC
* *
75514 ATTCTGGAAATAAAGTACCGACACAATATTAAAAAGTGTTGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGAAATAAAGTACCGACACAAAATTAAAAAGTGTTGACATAGGTTGTAGACCTATTCACT
*
75579 AATAAAACCGGTATACTTATACCGGTTATATTACAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAATTATATAGTACATTATA
* * *
75633 ATTCTGGACAT-AAGTACCGACACAAAATT-AAAAGTGTTGATATATGTTGTAGACCTATTCACT
1 ATTCTGGAAATAAAGTACCGACACAAAATTAAAAAGTGTTGACATAGGTTGTAGACCTATTCACT
* * *
75696 CATAAAACCGGTATATTTATACC-GTTATATTACAAAATTATATATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTAC-AAATTATATAGTACATTATA
75750 ATTCTGG
1 ATTCTGG
75757 GTTCCGATGT
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
116 10 0.09
117 77 0.68
118 17 0.15
119 10 0.09
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (119 bp):
ATTCTGGAAATAAAGTACCGACACAAAATTAAAAAGTGTTGACATAGGTTGTAGACCTATTCACT
AATAAAACCGGTATACTTATACCGGTTATATTACAAATTATATAGTACATTATA
Found at i:75908 original size:299 final size:302
Alignment explanation
Indices: 75349--75939 Score: 1044
Period size: 299 Copynumber: 2.0 Consensus size: 302
75339 TTAAAATTAG
* *
75349 CGACACAATATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTT
*
75414 ATACCGGTTATATTACAAAATTATTTATTACATTATAATTCTGGGTTCCGATGTGTAAACGTCGA
66 ATACCGGTTATATTACAAAATTATATATTACATTATAATTCTGGGTTCCGATGTGTAAACGTCGA
75479 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGAAATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGAAATAAAGTACCGACACAATATT
* * *
75544 AAAAAGTGTTGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCACTAATAAAACCGGTATACTTATACCAGTTATA
75609 TTAC-AAATTATCTAGTACATTATAATTCTGGACATAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAGTAC
*
75650 CGACACAAAATT-AAAAGTGTTGATATATGTTGTAGACCTATTCACTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTT
*
75714 ATACC-GTTATATTACAAAATTATATATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATATATTACATTATAATTCTGGGTTCCGATGTGTAAACGTCGA
*
75778 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGAAATAAAGTACCGACACAATATT
* * *
75843 AAAAAGTGTCGATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTTATACCAGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCACTAATAAAACCGGTATACTTATACCAGTTATA
*
75908 TTACAAAATTATCTATTACATTATAATTCTGG
261 TTACAAAATTATCTAGTACATTATAATTCTGG
75940 GTTCCGATGT
Statistics
Matches: 276, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
299 184 0.67
300 81 0.29
301 11 0.04
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (302 bp):
CGACACAAAATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATATATTACATTATAATTCTGGGTTCCGATGTGTAAACGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGAAATAAAGTACCGACACAATATT
AAAAAGTGTCGACATAGGTTGTAGACCTATTCACTAATAAAACCGGTATACTTATACCAGTTATA
TTACAAAATTATCTAGTACATTATAATTCTGGACATAAGTAC
Found at i:76013 original size:182 final size:181
Alignment explanation
Indices: 75633--76213 Score: 960
Period size: 182 Copynumber: 3.2 Consensus size: 181
75623 GTACATTATA
* * *
75633 ATTCTGGACAT-AAGTACCGACACAAAATTAAAAGTGTTGATATATGTTGTAGACCTATTCACTC
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTATTCACTC
*
75697 ATAAAACCGGTATATTTATACCGTTATATTACAAAATTATATATTACATTATAATTCTGGGTTCC
66 ATAAAACCGGTATATTTATACCGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCC
75762 GATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 GATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
75813 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACT
1 ATTCTGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCACT
75878 CATAAAACCGGTATATTTATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
65 CATAAAACCGGTATATTTATACC-GTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
75943 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
129 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
75996 ATTCTGGACAT-AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCACT
* *
76060 CATAAAACCGGCATATTTATACCGATTATATTAC-AAA--ATCTATTACATTATAATTATGGGTT
65 CATAAAACCGGTATATTTATACCG-TTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* * *
76122 CCGATGTTTTTTCAA--TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
129 CCGATG---TGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
76176 ATTCTGGACATAAAGTACCGACACAATATTAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAGTGT
76214 GAAAACTTTG
Statistics
Matches: 383, Mismatches: 10, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
179 30 0.08
180 68 0.18
181 39 0.10
182 142 0.37
183 104 0.27
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (181 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTATTCACTC
ATAAAACCGGTATATTTATACCGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCC
GATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:79461 original size:198 final size:199
Alignment explanation
Indices: 78832--79585 Score: 1256
Period size: 200 Copynumber: 3.8 Consensus size: 199
78822 AACATTAAAC
* * * * *
78832 AGTGTCGATACA-TATTATATACCAATTCTCCCATAAAACTGGTATACTTATACCGGTTAGATTG
1 AGTGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
* *
78896 AAAAATTACCTAATACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTT-TATAT
65 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
*
78960 GGATCGACACTTTATGGTTGCACCTG-TTGCCATTCATTCTGGACCAAAATTATCGACACAAACT
130 GGATCGACACTTTATGGTTGCACCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
79024 ACAAA
195 ACAAA
*
79029 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
79094 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * *
79159 GATCGACATTTTATTGTTGCACCCTGTTTACCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCA-CCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
79224 ACAAA
195 ACAAA
*
79229 AGTGTCGATACATTATTTAGACCTATTATCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
79294 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACAC-TTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
79358 GATCG-CACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCA-CCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
79422 ACAAA
195 ACAAA
* *
79427 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTA-CGATTAGATTAA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
79491 AAAATTACCTA-TACATTAT--TTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
79553 GATCGACACTTTATGGTTGCACCTGTTTGCCAT
131 GATCGACACTTTATGGTTGCACCTGTTTGCCAT
79586 ATTGTAAATT
Statistics
Matches: 528, Mismatches: 23, Indels: 14
0.93 0.04 0.02
Matches are distributed among these distances:
194 29 0.05
195 28 0.05
196 22 0.04
197 131 0.25
198 142 0.27
199 20 0.04
200 156 0.30
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (199 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATGGTTGCACCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTA
CAAA
Found at i:79830 original size:18 final size:18
Alignment explanation
Indices: 79807--79866 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
79797 TCTCATTCAT
* *
79807 AATTATATTCACATACAA
1 AATTATAATCATATACAA
*
79825 AATTATAAATCGTATACAA
1 AATTAT-AATCATATACAA
*
79844 AATTATAATCTTATACAA
1 AATTATAATCATATACAA
79862 AATTA
1 AATTA
79867 ACCTACATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
18 22 0.59
19 15 0.41
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.35
Consensus pattern (18 bp):
AATTATAATCATATACAA
Found at i:79843 original size:19 final size:18
Alignment explanation
Indices: 79819--79866 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
79809 TTATATTCAC
79819 ATACAAAATTATAAATCGT
1 ATACAAAATTAT-AATCGT
*
79838 ATACAAAATTATAATCTT
1 ATACAAAATTATAATCGT
79856 ATACAAAATTA
1 ATACAAAATTA
79867 ACCTACATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.33
Consensus pattern (18 bp):
ATACAAAATTATAATCGT
Done.