Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003428.1 Hibiscus syriacus cultivar Beakdansim tig00007225_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: 184769
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:2041 original size:5 final size:5
Alignment explanation
Indices: 2031--2112 Score: 83
Period size: 5 Copynumber: 15.2 Consensus size: 5
2021 AACGGTCAAC
* *
2031 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
*
2080 GGTCG GGTCG GGTCAAA GGTCG GGTCG GGTCG G
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG G
2113 ACCGGTCAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
5 53 0.82
7 12 0.18
ACGTcount: A:0.09, C:0.21, G:0.52, T:0.18
Consensus pattern (5 bp):
GGTCG
Found at i:2052 original size:22 final size:22
Alignment explanation
Indices: 2024--2112 Score: 169
Period size: 22 Copynumber: 4.0 Consensus size: 22
2014 AACGGTCAAC
2024 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
2046 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
2068 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
2090 GGTCAAAGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
2112 G
1 G
2113 ACCGGTCAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
22 66 1.00
ACGTcount: A:0.10, C:0.21, G:0.51, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:2125 original size:9 final size:9
Alignment explanation
Indices: 2113--2205 Score: 78
Period size: 9 Copynumber: 9.7 Consensus size: 9
2103 GTCGGGTCGG
2113 ACCGGTCAA
1 ACCGGTCAA
* *
2122 ACCGATTCAG
1 ACCG-GTCAA
2132 ACCGGTCAA
1 ACCGGTCAA
*
2141 ACCGGTTCGA
1 ACCGG-TCAA
*
2151 ACCGGTTGAA
1 ACCGG-TCAA
2161 ACCGGTCAA
1 ACCGGTCAA
2170 ACCGGTCAGA
1 ACCGGTCA-A
*
2180 ACCGGTTGAAA
1 ACCGG-T-CAA
*
2191 ACCGGTTAA
1 ACCGGTCAA
2200 ACCGGT
1 ACCGGT
2206 TTCCAGCAGC
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
9 31 0.45
10 30 0.43
11 7 0.10
12 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:2164 original size:29 final size:31
Alignment explanation
Indices: 2132--2206 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
2122 ACCGATTCAG
2132 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
2161 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
2191 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
2207 TCCAGCAGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 2 0.05
29 24 0.57
30 15 0.36
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:2184 original size:19 final size:19
Alignment explanation
Indices: 2113--2205 Score: 75
Period size: 19 Copynumber: 4.8 Consensus size: 19
2103 GTCGGGTCGG
*
2113 ACCGGTCAAACCGATTCAG-
1 ACCGGTCAAACCG-GTCAGA
2132 ACCGGTCAAACCGGTTC-GA
1 ACCGGTCAAACCGG-TCAGA
*
2151 ACCGGTTGAAACCGGTCA-A
1 ACCGG-TCAAACCGGTCAGA
* *
2170 ACCGGTCAGAACCGGTTGAAA
1 ACCGGTCA-AACCGG-TCAGA
*
2191 ACCGGTTAAACCGGT
1 ACCGGTCAAACCGGT
2206 TTCCAGCAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
18 3 0.05
19 35 0.56
20 16 0.26
21 8 0.13
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAACCGGTCAGA
Found at i:9378 original size:5 final size:5
Alignment explanation
Indices: 9368--9449 Score: 83
Period size: 5 Copynumber: 15.2 Consensus size: 5
9358 AACGGTCAAC
* *
9368 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
*
9417 GGTCG GGTCG GGTCAAA GGTCG GGTCG GGTCG G
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG G
9450 ACCGGTCAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
5 53 0.82
7 12 0.18
ACGTcount: A:0.09, C:0.21, G:0.52, T:0.18
Consensus pattern (5 bp):
GGTCG
Found at i:9389 original size:22 final size:22
Alignment explanation
Indices: 9361--9449 Score: 169
Period size: 22 Copynumber: 4.0 Consensus size: 22
9351 AACGGTCAAC
9361 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
9383 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
9405 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
9427 GGTCAAAGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
9449 G
1 G
9450 ACCGGTCAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
22 66 1.00
ACGTcount: A:0.10, C:0.21, G:0.51, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:9462 original size:9 final size:9
Alignment explanation
Indices: 9450--9542 Score: 78
Period size: 9 Copynumber: 9.7 Consensus size: 9
9440 GTCGGGTCGG
9450 ACCGGTCAA
1 ACCGGTCAA
* *
9459 ACCGATTCAG
1 ACCG-GTCAA
9469 ACCGGTCAA
1 ACCGGTCAA
*
9478 ACCGGTTCGA
1 ACCGG-TCAA
*
9488 ACCGGTTGAA
1 ACCGG-TCAA
9498 ACCGGTCAA
1 ACCGGTCAA
9507 ACCGGTCAGA
1 ACCGGTCA-A
*
9517 ACCGGTTGAAA
1 ACCGG-T-CAA
*
9528 ACCGGTTAA
1 ACCGGTCAA
9537 ACCGGT
1 ACCGGT
9543 TTCCAGCAGC
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
9 31 0.45
10 30 0.43
11 7 0.10
12 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:9501 original size:29 final size:31
Alignment explanation
Indices: 9469--9543 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
9459 ACCGATTCAG
9469 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
9498 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
9528 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
9544 TCCAGCAGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 2 0.05
29 24 0.57
30 15 0.36
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:9521 original size:19 final size:19
Alignment explanation
Indices: 9450--9542 Score: 75
Period size: 19 Copynumber: 4.8 Consensus size: 19
9440 GTCGGGTCGG
*
9450 ACCGGTCAAACCGATTCAG-
1 ACCGGTCAAACCG-GTCAGA
9469 ACCGGTCAAACCGGTTC-GA
1 ACCGGTCAAACCGG-TCAGA
*
9488 ACCGGTTGAAACCGGTCA-A
1 ACCGG-TCAAACCGGTCAGA
* *
9507 ACCGGTCAGAACCGGTTGAAA
1 ACCGGTCA-AACCGG-TCAGA
*
9528 ACCGGTTAAACCGGT
1 ACCGGTCAAACCGGT
9543 TTCCAGCAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
18 3 0.05
19 35 0.56
20 16 0.26
21 8 0.13
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAACCGGTCAGA
Found at i:12721 original size:8 final size:8
Alignment explanation
Indices: 12703--12739 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
12693 ATTTCTCGTC
12703 TTTTCCTTT
1 TTTTCC-TT
12712 TTTTCCTT
1 TTTTCCTT
12720 TTTTCCTT
1 TTTTCCTT
*
12728 TTTTTCTT
1 TTTTCCTT
12736 TTTT
1 TTTT
12740 TTCTGATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTCCTT
Found at i:12740 original size:17 final size:17
Alignment explanation
Indices: 12703--12739 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
12693 ATTTCTCGTC
12703 TTTTCCTTTTTTTCCTT
1 TTTTCCTTTTTTTCCTT
12720 TTTTCCTTTTTTT-CTT
1 TTTTCCTTTTTTTCCTT
12736 TTTT
1 TTTT
12740 TTCTGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCCTTTTTTTCCTT
Found at i:12743 original size:9 final size:9
Alignment explanation
Indices: 12703--12742 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
12693 ATTTCTCGTC
12703 TTTTCCTTT
1 TTTTCCTTT
12712 TTTTCC-TT
1 TTTTCCTTT
12720 TTTTCCTTT
1 TTTTCCTTT
*
12729 TTTTCTTTT
1 TTTTCCTTT
12738 TTTTC
1 TTTTC
12743 TGATGAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 8 0.28
9 21 0.72
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTCCTTT
Found at i:17379 original size:56 final size:55
Alignment explanation
Indices: 17319--17444 Score: 207
Period size: 56 Copynumber: 2.2 Consensus size: 55
17309 TTACTTCATG
*
17319 TTCCTTTCATGGAGTATAGAACTCAAGAAATTTTCTGAAAACGGGTTCGCTCCCTA
1 TTCCTTTCA-GGAGTATAGAACTCAAGAAATCTTCTGAAAACGGGTTCGCTCCCTA
*
17375 TTCCTTTCAGAGAGTATAGAACTCAAGAAATCTTCTGAAAACGGGTTTGCTCCCTA
1 TTCCTTTCAG-GAGTATAGAACTCAAGAAATCTTCTGAAAACGGGTTCGCTCCCTA
17431 TTCCTTTCAAGGAG
1 TTCCTTTC-AGGAG
17445 GCTTAAAATG
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
55 1 0.02
56 63 0.95
57 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (55 bp):
TTCCTTTCAGGAGTATAGAACTCAAGAAATCTTCTGAAAACGGGTTCGCTCCCTA
Found at i:17521 original size:42 final size:41
Alignment explanation
Indices: 17443--17552 Score: 132
Period size: 42 Copynumber: 2.7 Consensus size: 41
17433 CCTTTCAAGG
* * * *
17443 AGGCTTA-AAATGGCCCGAATGACTTATCATCTTGCTCTAA
1 AGGCTTACAGATGGCCCGAAGGACTTATCATCATGCTCGAA
* *
17483 AGGCTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAA
1 AGGCTTACAGATGGCCCGAAGGACTT-ATCATCATGCTCGAA
* *
17525 AGACTTACTGATGGCCCGAAGGACTTAT
1 AGGCTTACAGATGGCCCGAAGGACTTAT
17553 AAATTGTGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 7 0.12
41 16 0.28
42 35 0.60
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (41 bp):
AGGCTTACAGATGGCCCGAAGGACTTATCATCATGCTCGAA
Found at i:17746 original size:215 final size:215
Alignment explanation
Indices: 17452--18570 Score: 1862
Period size: 215 Copynumber: 5.2 Consensus size: 215
17442 GAGGCTTAAA
* *
17452 ATGGCCCGAATGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAATCATCA
1 ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCA
*
17517 TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCT
66 TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTCT
*
17582 TCGTTTTCAAAAATTCCATCTTCTTAAAACATCACTTTTTCATTTTCAAATTCATGTGAAAATAT
131 TCGTTTTCAAAAATTCCATCTTCTTAAAACATCACTTTTTCATTTTCAAATTCATGTGAAAACAT
*
17647 CATACCCGAAGGTTTTATGG
196 CCTACCCGAAGGTTTTATGG
* * * *
17667 ATGGCCTGAAGGACTTGTCATCTTGCTCAAAAGGCTTACAGATGACCCGAAGGGTTTAAGCATCA
1 ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCA
* *
17732 TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTAAAATTTTGAAAATTACATTCT
66 TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTCT
17797 TCGTTTTCAAAAATTCCATCTTCTTAAAACATCACTTTTTCATTTTCAAATTCATGTGAAAACAT
131 TCGTTTTCAAAAATTCCATCTTCTTAAAACATCACTTTTTCATTTTCAAATTCATGTGAAAACAT
*
17862 CCTACCCAAAGGTTTTATGG
196 CCTACCCGAAGGTTTTATGG
* *
17882 ATGGCCCGAAGGACTTATCATCTTGATCTAAAGGCTTATAGATGACCCGAAGGATTTAAGCATCA
1 ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCA
* *
17947 TGCTCGAAAGACTTACTGATGGCCCAAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTTT
66 TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTCT
*
18012 TCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTTTCAAATTCATGTGAAAACAT
131 TCGTTTTCAAAAATTCCATCTTCTTAAAACATCACTTTTTCATTTTCAAATTCATGTGAAAACAT
*
18077 CCTACCCGAAGGTTTTACGG
196 CCTACCCGAAGGTTTTATGG
* * * * * *
18097 ATGACCTGAAGGATTTATCATCTTGCTCTAAAGGCTTATAGATTATCCGAAGGATTTAAGCATCA
1 ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCA
* * *
18162 TGCTCGAAAGACTTATTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTTT
66 TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTCT
* *
18227 TTGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTTTCAAATTCATGTGAAAACAT
131 TCGTTTTCAAAAATTCCATCTTCTTAAAACATCACTTTTTCATTTTCAAATTCATGTGAAAACAT
*
18292 CCTACCCGAAGGTTTTACGG
196 CCTACCCGAAGGTTTTATGG
* * * *
18312 ATGGCTCGAAGGATTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGAATTAGGCATCA
1 ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCA
*
18377 TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATTACATTCT
66 TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTCT
*
18442 TCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTTTTTATTTTCAAATTCATGTGAAAACAT
131 TCGTTTTCAAAAATTCCATCTTCTTAAAACATCACTTTTTCATTTTCAAATTCATGTGAAAACAT
*
18506 CCTACCCGAAGGTCTTATGG
196 CCTACCCGAAGGTTTTATGG
* * * *
18526 ACGGCCCAAAGGACTTATCATCTTGCCCTAAAGGCTTACAAATGA
1 ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
18571 GTTTGCTTCA
Statistics
Matches: 847, Mismatches: 57, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
214 86 0.10
215 761 0.90
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (215 bp):
ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCA
TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTCT
TCGTTTTCAAAAATTCCATCTTCTTAAAACATCACTTTTTCATTTTCAAATTCATGTGAAAACAT
CCTACCCGAAGGTTTTATGG
Found at i:19601 original size:126 final size:124
Alignment explanation
Indices: 19376--19677 Score: 435
Period size: 126 Copynumber: 2.4 Consensus size: 124
19366 TAACTTCTTG
* * * *
19376 GTCTGAATCTTGTCATCTCAATATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATACTGGT
1 GTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAATCATGCCCCAACATTATCTTATACCGGT
* * * *
19441 ATGGGCCTTCAAAATGCCCCATCACCTTAAATTGTAAGGCTCATTCTTC-ATGCCTCCGTA
66 ACGAGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTC-TCAATGCCTAC-TA
* *
19501 GTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAATCATGCCCCCAACATTATTTTATACCGG
1 GTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAATCATG-CCCCAACATTATCTTATACCGG
*
19566 TACGAGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTCAATGCCTACTT
65 TACGAGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTCAATGCCTACTA
* * *
19626 GTTCTGAATCTGGTCATCTCAACATGATGTGGCTTCAACCATGCCCCAACAT
1 G-TCTGAATCTTGTCATCTCAACATGATGTGGGTTCAATCATGCCCCAACAT
19678 ATCCTAACTT
Statistics
Matches: 159, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
125 51 0.32
126 108 0.68
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (124 bp):
GTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAATCATGCCCCAACATTATCTTATACCGGT
ACGAGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTCAATGCCTACTA
Found at i:24827 original size:15 final size:15
Alignment explanation
Indices: 24803--24833 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24793 ATTCACACGG
*
24803 TTTCTTTTAATTTTC
1 TTTCTCTTAATTTTC
24818 TTTCTCTTAATTTTC
1 TTTCTCTTAATTTTC
24833 T
1 T
24834 AATTTATTAT
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:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTCTCTTAATTTTC
Found at i:31196 original size:24 final size:23
Alignment explanation
Indices: 31123--31198 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
31113 AATTTAATAC
*
31123 TTGAAAATAA-AATA-AAAACAT
1 TTGAAAATAATAATATAAAAAAT
** *
31144 TAAAAAATAAT-ATATATAAATAT
1 TTGAAAATAATAATATA-AAAAAT
31167 TATGAAAATAATAAGTATAAAAAAT
1 T-TGAAAATAATAA-TATAAAAAAT
31192 TTGAAAA
1 TTGAAAA
31199 GAAAGAATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
21 11 0.26
22 1 0.02
23 6 0.14
24 14 0.33
25 7 0.16
26 4 0.09
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.29
Consensus pattern (23 bp):
TTGAAAATAATAATATAAAAAAT
Found at i:32060 original size:23 final size:23
Alignment explanation
Indices: 31993--32060 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
31983 ATGACTAATA
* *
31993 TAATAATAAAATA-ATAATTAAAG
1 TAATAATAAAA-ACAAAATAAAAG
** *
32016 TAATAATTTAAAC-ATATCAAAAG
1 TAATAATAAAAACAAAAT-AAAAG
32039 TAATAATAAAAACAAAATAAAA
1 TAATAATAAAAACAAAATAAAA
32061 TTGCAAATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
22 3 0.09
23 28 0.82
24 3 0.09
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.26
Consensus pattern (23 bp):
TAATAATAAAAACAAAATAAAAG
Found at i:35507 original size:20 final size:19
Alignment explanation
Indices: 35484--35530 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
35474 CGATATACCA
35484 GGTAAAAATATGATAAAAAC
1 GGTAAAAA-ATGATAAAAAC
* *
35504 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAAAC
35524 GGTAAAA
1 GGTAAAA
35531 CATTACCGGA
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:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:35648 original size:181 final size:181
Alignment explanation
Indices: 35272--35744 Score: 696
Period size: 181 Copynumber: 2.6 Consensus size: 181
35262 GATCCAAATT
* * * **
35272 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
35337 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAAC-ATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
35402 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * * *
35454 AATATTGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAAACGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
35519 AAACCGGTAAAACATTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACA-TACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
35583 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
130 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
35635 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATAATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
35700 AAACCGGTAAAACGATACCAGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAAC-ATACCGGATATATTGAAAGTGTCGATACTTT
35745 CGTAAGTACG
Statistics
Matches: 261, Mismatches: 28, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
181 165 0.63
182 96 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:37939 original size:21 final size:21
Alignment explanation
Indices: 37913--37974 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
37903 AATACAATCA
*
37913 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
37934 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
37955 AGAGTCGAAGATACACTTGA
1 AGAGTCGAAGAGAAACTTGA
37975 AAGGCATAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:38052 original size:32 final size:32
Alignment explanation
Indices: 38011--38071 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
38001 AAATAGATGG
*
38011 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
* *
38043 AGTGGTGAAAGAAGTTGGGGTGTTAAGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGG
38072 GTGATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.23
Consensus pattern (32 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
Found at i:39280 original size:4 final size:4
Alignment explanation
Indices: 39271--39303 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
39261 TAAGAGAATG
39271 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
39304 AAAGGACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:39906 original size:19 final size:19
Alignment explanation
Indices: 39882--39930 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
39872 AATGTAGGGT
39882 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
39901 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
39920 TAATTTTGTAT
1 TAATTTTGTAT
39931 GTGAATATAA
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:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:40515 original size:200 final size:200
Alignment explanation
Indices: 40164--40582 Score: 766
Period size: 200 Copynumber: 2.1 Consensus size: 200
40154 AATTTACAAT
*
40164 ATGGCAAACAGGGTGCAACCACAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAACAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
40229 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTT
*
40294 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCAACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
40359 AATGA
196 AATGA
* *
40364 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTTTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAACAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
40429 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTT
* *
40494 ATGAGAGAATATGTTTAAATAATGTGTCAACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCAACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
40559 AATGA
196 AATGA
40564 ATGGCAAACAGGGTGCAAC
1 ATGGCAAACAGGGTGCAAC
40583 TAGGGATGGC
Statistics
Matches: 211, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
200 211 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAACAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTT
ATGAGAGAATAGGTCTAAATAATGTGTCAACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:41418 original size:200 final size:200
Alignment explanation
Indices: 41044--41614 Score: 973
Period size: 200 Copynumber: 2.9 Consensus size: 200
41034 GCCATCCCTA
* * *
41044 GGTGCAACCATAAAGTGTCGAT-TATCTATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAA
1 GGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAA
* *
41108 AGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATA
66 AGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGATAGAATA
* * * *
41173 GGTTTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCAATATTTTTGGTTCAAAATGAATGGCA
131 GGTCTAAATAATGTGTCGACACATTTGTAGTTTGTGTCGATATTTTTGGTCCAAAATGAATGGCA
41238 AACAG
196 AACAG
* * * *
41243 TGTGCAACAATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCATAAATATCGAAACCCATA
1 GGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAA
*
41308 AGTATAATGTAATAGGTAATTTTTCGATCTAACCGGTACAAGTATACCGGTTTTATGATAGAATA
66 AGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGATAGAATA
*
41373 GGTCTAAATAATGTGTCGACACATTTGTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCA
131 GGTCTAAATAATGTGTCGACACATTTGTAGTTTGTGTCGATATTTTTGGTCCAAAATGAATGGCA
41438 AACAG
196 AACAG
41443 GGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAA
1 GGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAA
* *
41508 AGTATAATATAATAGGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTTATGATAGAATA
66 AGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGATAGAATA
*
41573 GGTCTAAATAATGTGTCGACACGTTTGTAGTTTGTGTCGATA
131 GGTCTAAATAATGTGTCGACACATTTGTAGTTTGTGTCGATA
41615 CTAATTTAAA
Statistics
Matches: 348, Mismatches: 23, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
199 19 0.05
200 329 0.95
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (200 bp):
GGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAACCCAAA
AGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGATAGAATA
GGTCTAAATAATGTGTCGACACATTTGTAGTTTGTGTCGATATTTTTGGTCCAAAATGAATGGCA
AACAG
Found at i:43102 original size:6 final size:6
Alignment explanation
Indices: 43091--43148 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
43081 CAAGCGGTCA
* * * * *
43091 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
*
43139 ATGATG ATGA
1 ATGAAG ATGA
43149 TCCAAACAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:43149 original size:12 final size:12
Alignment explanation
Indices: 43091--43148 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
43081 CAAGCGGTCA
*
43091 ATGAAGATGAAG
1 ATGACGATGAAG
*
43103 CTGACGATGAAG
1 ATGACGATGAAG
43115 ATGACGATGAAG
1 ATGACGATGAAG
*
43127 ATGACGATGATG
1 ATGACGATGAAG
*
43139 ATGATGATGA
1 ATGACGATGA
43149 TCCAAACAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:44872 original size:184 final size:184
Alignment explanation
Indices: 44354--46025 Score: 2818
Period size: 184 Copynumber: 9.1 Consensus size: 184
44344 CAAAGTTTTC
44354 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
*
44419 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
44484 TAACCGGTATAAATATACCGGCTTTATGAGCGAATAGGTCTACAACCTATATCG
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
44538 ACACTTTTTAATATTGTGTCGGTACTTTATGTCC---ACGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
* *
44600 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
*
44662 TATAACCTGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
44718 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
*
44783 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
44848 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
44902 ACACTTTTTAATATTGTGTCGGTACTTTATGCCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
*
44967 CAAAAAGTGTCGATTGAAAAAACATCGGAACCTAGAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
45032 TAACCGGTATAAATATACCGG-TTTATGAGCGAATAGGTCTACAACCTATATCG
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* * * *
45085 ACACTTTTTAATATTATGTCGGTACTTTATGTCCAGAACGGAAGAAAAATATGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
* *
45150 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
*
45212 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCA
129 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
45268 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACATTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
*
45333 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
**
45398 TAACATGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
45452 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCAATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
*
45517 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATGATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
45582 TAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* * * * *
45636 ACATTTTTTAATATTGTGTTGGTACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATAACTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
* *
45701 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
45763 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
45819 ACACTTTTTAATATTGTATCGGTACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
* * *
45884 CAAAACGTGTCGA---AATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGATTGAA--AAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
*
45946 TATAACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
46002 ACACTTTTTAATATTGTGTCGGTA
1 ACACTTTTTAATATTGTGTCGGTA
46026 ATTTTAAGTA
Statistics
Matches: 1405, Mismatches: 63, Indels: 41
0.93 0.04 0.03
Matches are distributed among these distances:
180 130 0.09
181 45 0.03
182 65 0.05
183 539 0.38
184 620 0.44
185 3 0.00
186 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (184 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:45392 original size:550 final size:550
Alignment explanation
Indices: 44354--46025 Score: 3050
Period size: 550 Copynumber: 3.0 Consensus size: 550
44344 CAAAGTTTTC
44354 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
*
44419 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
44484 TAACCGGTATAAATATACCGGCTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAA
131 TAACCGGTATAAATATACCGG-TTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAA
44549 TATTGTGTCGGTACTTTATGTCC---ACGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTC
195 TATTGTGTCGGTACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTC
*
44611 GACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCTGTATAA
260 GACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAA
44676 ATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGT
325 ATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGT
44741 ACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAAC
390 ACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAAC
44806 ATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTT
455 ATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTT
44871 TTATGAGCGAATAGGTCTACAACCTATATCG
520 TTATGAGCGAATAGGTCTACAACCTATATCG
*
44902 ACACTTTTTAATATTGTGTCGGTACTTTATGCCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
*
44967 CAAAAAGTGTCGATTGAAAAAACATCGGAACCTAGAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
45032 TAACCGGTATAAATATACCGGTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
131 TAACCGGTATAAATATACCGGTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
* *
45097 ATTATGTCGGTACTTTATGTCCAGAACGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTGTCG
196 ATTGTGTCGGTACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCG
45162 ACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
261 ACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
*
45227 TATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTA
326 TATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTA
*
45292 CTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACATTTTCAAAAAGTGTCGATTGAAAAAACA
391 CTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACA
**
45357 TCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACATGTATAAATATACCGGTTT
456 TCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTT
45422 TATGAGCGAATAGGTCTACAACCTATATCG
521 TATGAGCGAATAGGTCTACAACCTATATCG
* *
45452 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCAATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
*
45517 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATGATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
* *
45582 TAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCGACATTTTTTAA
131 TAACCGGTATAAATATACC-GGTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAA
* *
45647 TATTGTGTTGGTACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATAACTTGTCAAAAAGTGTC
195 TATTGTGTCGGTACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTC
45712 GACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAA
260 GACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAA
*
45777 ATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTATCGGT
325 ATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGT
* * * *
45842 ACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATACCTTTTCAAAACGTGTCGA---AATTTAC
390 ACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTTCAAAAAGTGTCGATTGAA--AAA
* *
45904 ACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACTGG
453 ACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG
45969 TTTTATGAGCGAATAGGTCTACAACCTATATCG
518 TTTTATGAGCGAATAGGTCTACAACCTATATCG
46002 ACACTTTTTAATATTGTGTCGGTA
1 ACACTTTTTAATATTGTGTCGGTA
46026 ATTTTAAGTA
Statistics
Matches: 1086, Mismatches: 32, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
547 65 0.06
548 150 0.14
550 587 0.54
551 284 0.26
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (550 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
TAACCGGTATAAATATACCGGTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
ATTGTGTCGGTACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCG
ACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAA
TATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTA
CTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACA
TCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTT
TATGAGCGAATAGGTCTACAACCTATATCG
Found at i:45843 original size:734 final size:726
Alignment explanation
Indices: 44354--46025 Score: 2873
Period size: 734 Copynumber: 2.3 Consensus size: 726
44344 CAAAGTTTTC
*
44354 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATACCTTTT
* * *
44419 CAAAAAGTGTCG-ATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAAT
66 CAAAAAGTGTCGAATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAAT
*
44483 ATAACCGGTATAAATATACCGGCTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTA
128 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTA
*
44548 ATATTGTGTCGGTACTTTATGTCCACGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGA
193 ATATTGTGTCGGTACTTTATGTCCACGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGA
* * *
44613 CATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCTGTATAAAT
258 -ATTAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACATGTATAAAT
44678 ATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTAC
322 ATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTAC
* *
44743 TTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACAT
387 TTTATGTCCAGAATGGAAGAAAAATATGTCAATACCTTTTCAAAAAGTGTCGATTGAAAAAACAT
* *
44808 CGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTT
452 CGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTT
44873 ATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGCCCAG
517 ATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGCCCAG
* * * *
44938 AATGGAAGAAAAATGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCTAGA
582 AACGGAAGAAAAATGTGTCGATAACTTGTCAAAAAGTGTCGATT--AAAAACATCGGAACCCAGA
45003 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTATGAGCGAATAG
645 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTATGAGCGAATAG
45068 GTCTACAACCTATATCG
710 GTCTACAACCTATATCG
* * *
45085 ACACTTTTTAATATTATGTCGGTACTTTATGTCCAGAACGGAAGAAAAATATGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATACCTTTT
45150 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
45215 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCAACACTTTTTAAT
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
* *
45280 ATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACATTTTCAAAAAGTGTCG
195 ATTGTGTCGGTACTTTATGTCC---ACGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCG
*
45345 -ATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACATGTATA
257 AATT---AAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACATGTATA
45409 AATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGG
319 AATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGG
45474 TACTTTATGTCCAGAATGGAAGAAAAATATGTCAATACCTTTTCAAAAAGTGTCGATTGAAAAAA
384 TACTTTATGTCCAGAATGGAAGAAAAATATGTCAATACCTTTTCAAAAAGTGTCGATTGAAAAAA
*
45539 CATCGGAACCCAGAATTATAATGTAATAGATGATTTTGTAATATAACCGGTATAAATATACCAGT
449 CATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGT
* * *
45604 TTTATGAGCGAATAGGTCTACAACCTATATCGACATTTTTTAATATTGTGTTGGTACTTTATGTC
514 TTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGCC
* *
45669 CAGAACGGAAGAAAAATGTGTCGATAACTTGTCAAAAAGTGTCGACATT-TACACATCGGAACCC
579 CAGAACGGAAGAAAAATGTGTCGATAACTTGTCAAAAAGTGTCG--ATTAAAAACATCGGAACCC
45733 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
642 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG-TTTATGAGCGA
45798 ATAGGTCTACAACCTATATCG
706 ATAGGTCTACAACCTATATCG
*
45819 ACACTTTTTAATATTGTATCGGTACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATACCTTTT
*
45884 CAAAACGTGTCGAAATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCG-AATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
45949 AACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
46014 ATTGTGTCGGTA
195 ATTGTGTCGGTA
46026 ATTTTAAGTA
Statistics
Matches: 892, Mismatches: 37, Indels: 21
0.94 0.04 0.02
Matches are distributed among these distances:
730 130 0.15
731 76 0.09
733 105 0.12
734 577 0.65
735 1 0.00
736 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (726 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAACGGAAGAAAAATGTGTCGATACCTTTT
CAAAAAGTGTCGAATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
TTGTGTCGGTACTTTATGTCCACGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGAATT
AAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACATGTATAAATATAC
CGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTA
TGTCCAGAATGGAAGAAAAATATGTCAATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGA
ACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGA
GCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGCCCAGAACG
GAAGAAAAATGTGTCGATAACTTGTCAAAAAGTGTCGATTAAAAACATCGGAACCCAGAATTATA
ATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTATGAGCGAATAGGTCTAC
AACCTATATCG
Found at i:49197 original size:86 final size:87
Alignment explanation
Indices: 49051--49212 Score: 281
Period size: 86 Copynumber: 1.9 Consensus size: 87
49041 AAATAGGTCA
*
49051 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTATTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
49116 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
* *
49138 ATATAAGCGCTATCTATTACATTA-ATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
49202 CCGGTTAAATA
66 CCCGTTAAATA
49213 ATATAACATA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
86 48 0.68
87 23 0.32
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATACCTATTTTATT
Found at i:49488 original size:28 final size:28
Alignment explanation
Indices: 49456--49525 Score: 140
Period size: 28 Copynumber: 2.5 Consensus size: 28
49446 CTCAGCCTTC
49456 TCAACTGCACCTTTCATGCCCCGAGCTT
1 TCAACTGCACCTTTCATGCCCCGAGCTT
49484 TCAACTGCACCTTTCATGCCCCGAGCTT
1 TCAACTGCACCTTTCATGCCCCGAGCTT
49512 TCAACTGCACCTTT
1 TCAACTGCACCTTT
49526 TGCAGCGGCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.19, C:0.39, G:0.13, T:0.30
Consensus pattern (28 bp):
TCAACTGCACCTTTCATGCCCCGAGCTT
Found at i:49933 original size:28 final size:22
Alignment explanation
Indices: 49876--49923 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
49866 TAAGATGTGG
49876 AAAACCTTCTGTATCAAACTCA
1 AAAACCTTCTGTATCAAACTCA
49898 AAAACCTTCTGTATCAAACTCA
1 AAAACCTTCTGTATCAAACTCA
49920 AAAA
1 AAAA
49924 GCAGATCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.25
Consensus pattern (22 bp):
AAAACCTTCTGTATCAAACTCA
Found at i:50921 original size:23 final size:24
Alignment explanation
Indices: 50891--50939 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
50881 CAGTATGGGC
50891 TATTGTAA-ATGGTTGAATTTGCA
1 TATTGTAAGATGGTTGAATTTGCA
50914 TATTGTAATGATGGTTGAATTTGCA
1 TATTGTAA-GATGGTTGAATTTGCA
50939 T
1 T
50940 TAATTCGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.33
25 16 0.67
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (24 bp):
TATTGTAAGATGGTTGAATTTGCA
Found at i:53336 original size:29 final size:29
Alignment explanation
Indices: 53294--53368 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
53284 ACCGTTGACC
53294 GGGTGTTAGTTTTGTAAATATT-TAAAAAA
1 GGGTGTTAGTTTTGTAAATATTGT-AAAAA
*
53323 GGGTGTTAGTTTTGTAAATATTGTTAAAA
1 GGGTGTTAGTTTTGTAAATATTGTAAAAA
53352 GGGTGTTAGTTTTGTAA
1 GGGTGTTAGTTTTGTAA
53369 TTAATTTCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 43 0.98
30 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (29 bp):
GGGTGTTAGTTTTGTAAATATTGTAAAAA
Found at i:60477 original size:29 final size:29
Alignment explanation
Indices: 60432--60505 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
60422 CGGTTGACCG
*
60432 GGTGTTAGTTTTTTAAATATT-TAAAAAAA
1 GGTGTTAGTTTTGTAAATATTGT-AAAAAA
* *
60461 GGTGTTAGTTTTGTAAATATTGTTAAAAC
1 GGTGTTAGTTTTGTAAATATTGTAAAAAA
60490 GGTGTTAGTTTTGTAA
1 GGTGTTAGTTTTGTAA
60506 TTAATTTCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 40 0.98
30 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (29 bp):
GGTGTTAGTTTTGTAAATATTGTAAAAAA
Found at i:68476 original size:2 final size:2
Alignment explanation
Indices: 68469--68500 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
68459 CTATCCACCC
68469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68501 CTCTAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72051 original size:18 final size:18
Alignment explanation
Indices: 72024--72060 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
72014 TTAATTACAC
*
72024 AATATTATAATAAATTTT
1 AATATAATAATAAATTTT
*
72042 AATATAATAATATATTTT
1 AATATAATAATAAATTTT
72060 A
1 A
72061 GTACCTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATAATAATAAATTTT
Found at i:82523 original size:60 final size:60
Alignment explanation
Indices: 82398--82523 Score: 130
Period size: 60 Copynumber: 2.1 Consensus size: 60
82388 AATTATCTCT
* * * * * *
82398 GACTATAGGTCGTTACTTGATTGAGTCCCTCAATTATTAAAAGTTACAAAATGGTCTCAC
1 GACTATAGGTCGTTACTTGATTGAGTCCCCCAACTACTAAAAATTACAAAATGATCACAC
* * * *
82458 AACTATAGGAT-GTTACTTTG-TTGAGTCCCCCTACTACTAAAAATTATAAAATGATCACCC
1 GACTATAGG-TCGTTAC-TTGATTGAGTCCCCCAACTACTAAAAATTACAAAATGATCACAC
82518 GACTAT
1 GACTAT
82524 TCATATGTTC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
60 49 0.92
61 4 0.08
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (60 bp):
GACTATAGGTCGTTACTTGATTGAGTCCCCCAACTACTAAAAATTACAAAATGATCACAC
Found at i:83147 original size:30 final size:31
Alignment explanation
Indices: 83092--83154 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
83082 CACACAAAAG
83092 ATAAATATAATTTATTTGTACATATTATGTA
1 ATAAATATAATTTATTTGTACATATTATGTA
83123 ATAAATATAATTTATTTG-ACATATTATGTA
1 ATAAATATAATTTATTTGTACATATTATGTA
83153 AT
1 AT
83155 TTATATCACA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 14 0.44
31 18 0.56
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (31 bp):
ATAAATATAATTTATTTGTACATATTATGTA
Found at i:85453 original size:2 final size:2
Alignment explanation
Indices: 85446--85479 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
85436 TACTAGTATC
85446 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85480 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86544 original size:21 final size:21
Alignment explanation
Indices: 86493--86546 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
86483 ATTATGACTA
*
86493 TCGCAATACGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
86514 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
86535 TCGCAATGCGAT
1 TCGCAATGCGAT
86547 ACTGACTATC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:86560 original size:20 final size:20
Alignment explanation
Indices: 86535--86668 Score: 135
Period size: 20 Copynumber: 6.7 Consensus size: 20
86525 TTTTCCCAAT
*
86535 TCGCAATGCGATACTGACTA
1 TCGCAACGCGATACTGACTA
* *
86555 TCGCAACGCGATAAT-ACAAAA
1 TCGCAACGCGATACTGAC--TA
* *
86576 TCGCAACACGATACTGACTT
1 TCGCAACGCGATACTGACTA
* *
86596 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTA
* *
86616 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTA
* *
86636 TCGCAACGAGATTCTGACTA
1 TCGCAACGCGATACTGACTA
*
86656 TCGCAACGAGATA
1 TCGCAACGCGATA
86669 ATACAGAATC
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 81 0.82
21 14 0.14
22 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTA
Found at i:86566 original size:41 final size:41
Alignment explanation
Indices: 86521--86648 Score: 125
Period size: 41 Copynumber: 3.1 Consensus size: 41
86511 ATTTCGCGTT
* * * *
86521 GCGATTTTCCCAATTCGCAATGCGATACTGACTATCGCAAC
1 GCGATTATACCAATTCGCAACGCGATACTGACTTTCGCAAC
* * * *
86562 GCGATAATACAAAATCGCAACACGATACTGACTTTCGCAAC
1 GCGATTATACCAATTCGCAACGCGATACTGACTTTCGCAAC
* * *
86603 GCGATTCTGA-C-TTTCGCAACGCGATTCTGACTTTCGCAAC
1 GCGATTAT-ACCAATTCGCAACGCGATACTGACTTTCGCAAC
*
86643 GAGATT
1 GCGATT
86649 CTGACTATCG
Statistics
Matches: 70, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
40 30 0.43
41 39 0.56
42 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (41 bp):
GCGATTATACCAATTCGCAACGCGATACTGACTTTCGCAAC
Found at i:86841 original size:12 final size:12
Alignment explanation
Indices: 86822--86855 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
86812 CTCTCCGGCG
86822 ACATCCGTTCCT
1 ACATCCGTTCCT
*
86834 ATATCCGTTCCT
1 ACATCCGTTCCT
86846 ACATCC-TTCC
1 ACATCCGTTCC
86856 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:89958 original size:20 final size:20
Alignment explanation
Indices: 89933--89988 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
89923 CAACGGGGAA
*
89933 ATCGCAACGCGAATATGGCT
1 ATCGCAACGCGAAAATGGCT
*
89953 ATCGCAATGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
89973 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
89989 CGCAATGCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:90047 original size:19 final size:19
Alignment explanation
Indices: 90025--90071 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
90015 CGATTTTCTT
90025 GTTGCGATTTTCATTTCGC
1 GTTGCGATTTTCATTTCGC
90044 GTTGCGATTTTCATTTCGC
1 GTTGCGATTTTCATTTCGC
*
90063 ATTGCGATT
1 GTTGCGATT
90072 CTCTCGTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (19 bp):
GTTGCGATTTTCATTTCGC
Found at i:90230 original size:14 final size:14
Alignment explanation
Indices: 90211--90247 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
90201 CATCAATTAA
90211 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
90225 ACAAATCATCTTTT
1 ACAAATCAACATTT
90239 ACAAATCAA
1 ACAAATCAA
90248 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:91701 original size:40 final size:42
Alignment explanation
Indices: 91657--91746 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
91647 CCTCTTCAAC
*
91657 GATGACAGTGGCCTCTTGAACG-GTGG-GGGGACTCTTGAGG
1 GATGACAGAGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
91697 GATGATAGAGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGAGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
91739 GATGACAG
1 GATGACAG
91747 GTGAGTCGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 20 0.45
41 3 0.07
42 21 0.48
ACGTcount: A:0.22, C:0.16, G:0.40, T:0.22
Consensus pattern (42 bp):
GATGACAGAGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:92132 original size:20 final size:20
Alignment explanation
Indices: 92090--92155 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
92080 TAGTTTACTT
* * **
92090 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAAATGACTA
92110 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
92130 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
92150 TCGCAA
1 TCGCAA
92156 TGCGAAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:92164 original size:19 final size:20
Alignment explanation
Indices: 92109--92176 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
92099 GAAACTTAAA
* *
92109 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGGAAATGACT
*
92129 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGGAAATGACT
* **
92149 ATCGCAATGC-GAAATGAAA
1 ATCGCAACGCGGAAATGACT
92168 ATCGCAACG
1 ATCGCAACG
92177 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:92204 original size:19 final size:18
Alignment explanation
Indices: 92149--92212 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
92139 GGAAATGGCT
*
92149 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAA-CAAA
92168 ATCGCAA--CG--ACAAA
1 ATCGCAATGCGAAACAAA
92182 ATCGCAATGCGAAACACAA
1 ATCGCAATGCGAAACA-AA
*
92201 ATCGCATTGCGA
1 ATCGCAATGCGA
92213 TTTTCATTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 3 0.08
19 20 0.53
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (18 bp):
ATCGCAATGCGAAACAAA
Found at i:92229 original size:19 final size:19
Alignment explanation
Indices: 92202--92323 Score: 92
Period size: 19 Copynumber: 6.6 Consensus size: 19
92192 GAAACACAAA
*
92202 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
92221 TCGTGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
92240 TCGCATTGCGA-TTT--TG
1 TCGCGTTGCGATTTTCATT
92256 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* ***
92273 TCGCATTGCGATAGCCATT
1 TCGCGTTGCGATTTTCATT
**
92292 TCCGCGTTGCGATAGTCATTT
1 T-CGCGTTGCGATTTTCA-TT
*
92313 TCGTGTTGCGA
1 TCGCGTTGCGA
92324 AAGTAAATTA
Statistics
Matches: 82, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
14 7 0.09
15 3 0.04
16 2 0.02
17 2 0.02
18 3 0.04
19 39 0.48
20 23 0.28
21 3 0.04
ACGTcount: A:0.14, C:0.20, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:92303 original size:20 final size:19
Alignment explanation
Indices: 92269--92323 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
92259 TTGCGATTTT
*
92269 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
92288 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
92308 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
92324 AAGTAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:92888 original size:18 final size:18
Alignment explanation
Indices: 92865--92911 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
92855 GGGTCGATCC
92865 GGTGATGACTCTAGGTGA
1 GGTGATGACTCTAGGTGA
*
92883 GGTGAT-AGCTCTGGGTGA
1 GGTGATGA-CTCTAGGTGA
92901 GGTGATGACTC
1 GGTGATGACTC
92912 CCGAAGTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.19, C:0.13, G:0.40, T:0.28
Consensus pattern (18 bp):
GGTGATGACTCTAGGTGA
Found at i:94265 original size:20 final size:20
Alignment explanation
Indices: 94242--94292 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
94232 TCTGAAACTT
94242 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
94262 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
94282 ACTATCGCAAC
1 AAAATCGCAAC
94293 GAGAGAATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.51, C:0.24, G:0.14, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:94918 original size:21 final size:21
Alignment explanation
Indices: 94888--94962 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
94878 CGCTTTGAAA
*
94888 ATCGCATTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
* *
94909 ATCGCGTTGCGA--AAGTCAGT
1 ATCGCGTTGCGATTATGT-ATT
*
94929 ATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATTATGTATT
94950 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
94963 AGTCAGTATC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 14 0.31
21 26 0.58
22 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.37
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:94933 original size:20 final size:20
Alignment explanation
Indices: 94908--94982 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
94898 GATTATGTAT
*
94908 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
94928 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
94949 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
94969 TATCACATTGCGAT
1 TATCGCGTTGCGAT
94983 TTTCCAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 3 0.07
20 26 0.58
21 14 0.31
22 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:94948 original size:41 final size:41
Alignment explanation
Indices: 94888--94985 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 41
94878 CGCTTTGAAA
*
94888 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* *
94929 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
*
94970 ATCACATTGCGATTTT
1 ATCGCATTGCGATTTT
94986 CCAAATTCGC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:95000 original size:21 final size:20
Alignment explanation
Indices: 94974--95022 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
94964 GTCAGTATCA
*
94974 CATTGCGATTTTCCAAATTCG
1 CATTGCGA-TTTACAAATTCG
**
94995 CATTGCGATTTACTTATTCG
1 CATTGCGATTTACAAATTCG
95015 CATTGCGA
1 CATTGCGA
95023 ATTGGGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (20 bp):
CATTGCGATTTACAAATTCG
Found at i:95001 original size:41 final size:41
Alignment explanation
Indices: 94908--95003 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
94898 GATTATGTAT
* * * ** *
94908 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAGTATCACATTGCGATTTTCAAA
94949 TATCGCGTTGCGATAGTCAGTATCACATTGCGATTTTCCAAA
1 TATCGCGTTGCGATAGTCAGTATCACATTGCGATTTT-CAAA
*
94991 T-TCGCATTGCGAT
1 TATCGCGTTGCGAT
95004 TTACTTATTC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 45 0.96
42 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTCAGTATCACATTGCGATTTTCAAA
Found at i:95064 original size:21 final size:22
Alignment explanation
Indices: 95012--95064 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
95002 ATTTACTTAT
*
95012 TCGCATTGCG-AATTGGGAAAA
1 TCGCACTGCGAAATTGGGAAAA
95033 TCGCAAC-GCGAAATT-GGAAAA
1 TCGC-ACTGCGAAATTGGGAAAA
95054 TCGCACTGCGA
1 TCGCACTGCGA
95065 TAGTCATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.07
21 21 0.75
22 5 0.18
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (22 bp):
TCGCACTGCGAAATTGGGAAAA
Found at i:95993 original size:74 final size:74
Alignment explanation
Indices: 95793--96136 Score: 396
Period size: 74 Copynumber: 4.6 Consensus size: 74
95783 TAAAAACGAT
* * *
95793 TAATAATATAAAC-GT-AAAAAAATAGGCACTACTTATTATTATATTAAAATA-ACTACCGA-TT
1 TAATAATATAAACGGTAAAAAAAATAGGCGCTAC---CTATTACATTAAAATACA-TACCGATTT
*
95854 TGTTTAAAGATTAC
62 TTTTTAAAG-TTAC
95868 TAA-ATATATAAACGGTAAAATAAAATAGGCGCTACCTATTACATTAAAATACATACCGATTTTT
1 TAATA-ATATAAACGGTAAAA-AAAATAGGCGCTACCTATTACATTAAAATACATACCGATTTTT
*
95932 TTTAAAGTTTC
64 TTTAAAGTTAC
* * *
95943 TAATAATATAAACGGTAAAAAAAATAGACGCTACCTATTACATTAAAATACCTACCGGTTTTTAT
1 TAATAATATAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACATACCGATTTTT-T
* * **
96008 TGAAGGTTGT
65 TTAAAGTTAC
* *
96018 TAATAATATAAACGGT-AAAAAAATAGGCGCTACATATTACATTAAAATACATACCG-GTTTTTT
1 TAATAATATAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACATACCGATTTTTTT
* *
96081 TAAGGTCAC
66 TAAAGTTAC
* * *
96090 TAATAATGTAAACGGTAAAAAAAATAAGTGCTACCTATTACATTAAA
1 TAATAATATAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAA
96137 CTACCTATCG
Statistics
Matches: 236, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
72 22 0.09
73 31 0.13
74 78 0.33
75 75 0.32
76 14 0.06
77 3 0.01
78 13 0.06
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.32
Consensus pattern (74 bp):
TAATAATATAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACATACCGATTTTTTT
TAAAGTTAC
Found at i:96133 original size:147 final size:150
Alignment explanation
Indices: 95873--96143 Score: 433
Period size: 147 Copynumber: 1.8 Consensus size: 150
95863 ATTACTAAAT
* *
95873 ATATAAACGGTAAAATAAAATAGGCGCTACCTATTACATTAAAATACATACCGATTTTTTTTAAA
1 ATATAAACGGTAAAATAAAATAGGCGCTACATATTACATTAAAATACATACCGAGTTTTTTTAAA
**
95938 GTTTCTAATAATATAAACGGTAAAAAAAATAGACGCTACCTATTACATTAAAATACCTACCGGTT
66 GTCACTAATAATATAAACGGTAAAAAAAATAGACGCTACCTATTACATTAAAATACCTACCGGTT
96003 TTTATTGAAGGTTGTTAATA
131 TTTATTGAAGGTTGTTAATA
*
96023 ATATAAACGGT-AAA-AAAATAGGCGCTACATATTACATTAAAATACATACCG-GTTTTTTTAAG
1 ATATAAACGGTAAAATAAAATAGGCGCTACATATTACATTAAAATACATACCGAGTTTTTTTAAA
* * *
96085 GTCACTAATAATGTAAACGGTAAAAAAAATA-AGTGCTACCTATTACATTAAACTACCTA
66 GTCACTAATAATATAAACGGTAAAAAAAATAGA-CGCTACCTATTACATTAAAATACCTA
96144 TCGATATGTT
Statistics
Matches: 112, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
146 1 0.01
147 61 0.54
148 36 0.32
149 3 0.03
150 11 0.10
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (150 bp):
ATATAAACGGTAAAATAAAATAGGCGCTACATATTACATTAAAATACATACCGAGTTTTTTTAAA
GTCACTAATAATATAAACGGTAAAAAAAATAGACGCTACCTATTACATTAAAATACCTACCGGTT
TTTATTGAAGGTTGTTAATA
Found at i:96483 original size:112 final size:112
Alignment explanation
Indices: 96226--96461 Score: 375
Period size: 112 Copynumber: 2.1 Consensus size: 112
96216 CAGTGTCTAT
* * *
96226 AAAGTATCGATACTTTATAAAAATGTATCGATGCATAACAATATAACATGTAAAAATATGATAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAA
* *
96291 ACTAGTTTCATTATGACAACACCGGTAAAGAACTACCGTATATGTTG
66 ACTAGTTTCATTATGACAAAACCGGTAAAGAACTACCGTATATATTG
* *
96338 AAAGTATCGATACTTTATAAAAATATATCGATACATAACAATATAACAGGTAATAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAA
* *
96403 ACTAGTTTCATTATGATAAAACCGGTAAAGAGCTACC-TGATATATTG
66 ACTAGTTTCATTATGACAAAACCGGTAAAGAACTACCGT-ATATATTG
96450 AAAGTATCGATA
1 AAAGTATCGATA
96462 TTTTTTGTAT
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
111 1 0.01
112 113 0.99
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (112 bp):
AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAA
ACTAGTTTCATTATGACAAAACCGGTAAAGAACTACCGTATATATTG
Found at i:111664 original size:31 final size:29
Alignment explanation
Indices: 111606--111664 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
111596 GGTATGATTT
*
111606 CGAAATAAATGAAAATTTAGGTACTAAAA
1 CGAAATAAATGAAAATTTAAGTACTAAAA
* *
111635 CGAAATAAAACTGATAATTTAAGTGCTAAA
1 CGAAAT-AAA-TGAAAATTTAAGTACTAAA
111665 TGTGTAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.24
30 3 0.12
31 16 0.64
ACGTcount: A:0.53, C:0.08, G:0.14, T:0.25
Consensus pattern (29 bp):
CGAAATAAATGAAAATTTAAGTACTAAAA
Found at i:117664 original size:13 final size:13
Alignment explanation
Indices: 117648--117673 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117638 AGTAAAAACT
117648 AAATAATAATAAA
1 AAATAATAATAAA
117661 AAATAATAATAAA
1 AAATAATAATAAA
117674 TGTGAAATAA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAATAATAAA
Found at i:118917 original size:3 final size:3
Alignment explanation
Indices: 118884--118950 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
118874 AACGGGAAAA
* * *
118884 AAT AA- AAT AA- AAT AAGT AAAT AAA AAA AAT AAT AAT AAAT AAT GAT
1 AAT AAT AAT AAT AAT AA-T -AAT AAT AAT AAT AAT AAT -AAT AAT AAT
118930 AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
118951 TAAAAACTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 6 0.11
3 41 0.76
4 5 0.09
5 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:118917 original size:25 final size:26
Alignment explanation
Indices: 118880--118950 Score: 67
Period size: 28 Copynumber: 2.7 Consensus size: 26
118870 CTGAAACGGG
118880 AAAAAATAA-AATAAAATAA-G-TAAAT
1 AAAAAA-AATAATAAAATAATGAT-AAT
118905 AAAAAAAATAATAATAAATAATGATAAT
1 AAAAAAAATAAT-A-AAATAATGATAAT
* *
118933 AATAATAATAATAAAATA
1 AAAAAAAATAATAAAATA
118951 TAAAAACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
24 2 0.05
25 9 0.23
26 6 0.15
27 7 0.18
28 14 0.36
29 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (26 bp):
AAAAAAAATAATAAAATAATGATAAT
Found at i:118953 original size:22 final size:22
Alignment explanation
Indices: 118911--118953 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
118901 AAATAAAAAA
*
118911 AATAATAATAAATAATGATAAT
1 AATAATAATAAAAAATGATAAT
118933 AATAATAATAATAAAAT-ATAA
1 AATAATAATAA-AAAATGATAA
118954 AAACTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AATAATAATAAAAAATGATAAT
Found at i:119078 original size:36 final size:35
Alignment explanation
Indices: 119038--119304 Score: 216
Period size: 38 Copynumber: 7.2 Consensus size: 35
119028 TTTAAAAAAC
* *
119038 TATATAATTTTCAAAAATGTTTTAAAAATTACATAT
1 TATATAATTTTC-AAAATGTTTTAAAAACTATATAT
*
119074 TATAT-ATGCTTTCAAAATGTTTTTCAAAAAATTATATAT
1 TATATAAT--TTTCAAAATG-TTTT--AAAAACTATATAT
*
119113 TATATATCTATTTTCAAAACGTTTTAAAAACTATATAAT
1 TATATA---ATTTTCAAAATGTTTTAAAAACTATAT-AT
* *
119152 ATATATATATATTCAAAAATGTTTTGAAAACTATATAT
1 -TATATA-ATTTTC-AAAATGTTTTAAAAACTATATAT
** * *
119190 TATATTTCTTTTCAAAAACGTTTT-AAAACTATATAA
1 TATA-TAATTTTC-AAAATGTTTTAAAAACTATATAT
*
119226 TATATAAATGTTTTTAAAATGTTTTAAAAACTATATAT
1 TATAT-AA--TTTTCAAAATGTTTTAAAAACTATATAT
* * * *
119264 CATAT-ATTTTCAAAATGTTTTCAAAATTATATAA
1 TATATAATTTTCAAAATGTTTTAAAAACTATATAT
119298 TATATAA
1 TATATAA
119305 ATAAAAAACA
Statistics
Matches: 191, Mismatches: 22, Indels: 37
0.76 0.09 0.15
Matches are distributed among these distances:
34 28 0.15
35 4 0.02
36 27 0.14
37 35 0.18
38 38 0.20
39 38 0.20
40 10 0.05
41 9 0.05
43 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (35 bp):
TATATAATTTTCAAAATGTTTTAAAAACTATATAT
Found at i:119155 original size:38 final size:38
Alignment explanation
Indices: 119038--119303 Score: 237
Period size: 37 Copynumber: 7.1 Consensus size: 38
119028 TTTAAAAAAC
* *
119038 TATATA-ATTTTCAAAAATGTTTTAAAAATTACAT-AT-
1 TATATATATTTTC-AAAATGTTTTAAAAACTATATAATA
** * *
119074 TATATATGCTTTCAAAATGTTTTTCAAAAAATTATATATTA
1 TATATATATTTTCAAAATG-TTTT--AAAAACTATATAATA
* *
119115 TATATCTATTTTCAAAACGTTTTAAAAACTATATAATA
1 TATATATATTTTCAAAATGTTTTAAAAACTATATAATA
* *
119153 TATATATATATTCAAAAATGTTTTGAAAACTATAT-AT-
1 TATATATATTTTC-AAAATGTTTTAAAAACTATATAATA
* * *
119190 TATATTTCTTTTCAAAAACGTTTT-AAAACTATATAATA
1 TATATATATTTTC-AAAATGTTTTAAAAACTATATAATA
* * *
119228 TATAAATGTTTTTAAAATGTTTTAAAAAC--TAT-ATA
1 TATATATATTTTCAAAATGTTTTAAAAACTATATAATA
* * *
119263 T-CATATATTTTCAAAATGTTTTCAAAATTATATAATA
1 TATATATATTTTCAAAATGTTTTAAAAACTATATAATA
119300 TATA
1 TATA
119304 AATAAAAAAC
Statistics
Matches: 186, Mismatches: 30, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
34 21 0.11
35 4 0.02
36 28 0.15
37 43 0.23
38 41 0.22
39 29 0.16
40 5 0.03
41 15 0.08
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (38 bp):
TATATATATTTTCAAAATGTTTTAAAAACTATATAATA
Found at i:119189 original size:147 final size:142
Alignment explanation
Indices: 118987--119303 Score: 297
Period size: 147 Copynumber: 2.2 Consensus size: 142
118977 AAACTGTTTC
*
118987 TTTTAAAAACTATATATTATATATAAATTTAAAAAAAACATTTTAAAAAACTATA-TA-A-TTTT
1 TTTTAAAAACTATATAATATATATAAATTT-AAAAAAACATTTTAAAAAACTATATTATATTTTT
* * *
119049 CAAAAATGTTTTAAAA-AT-TACATATTATATATGCTTTCAAAATGTTTTTCAAAAAATTATATA
65 CAAAAACGTTTTAAAACATATA-ATA-TATAAATGCTTTCAAAATG-TTTT--AAAAACTATATA
*
119112 TTATATATCTATTTTCAAAACG
125 -T-CATA--TATTTTCAAAACG
* * ** *
119134 TTTTAAAAACTATATAATATATATATATATT-CAAAAATGTTTT-GAAAACTATATATTATATTT
1 TTTTAAAAACTATATAATATATATAAAT-TTAAAAAAACATTTTAAAAAAC--TATATTATA--T
* *
119197 CTTTTCAAAAACGTTTTAAAACTATATAATATATAAATGTTTTTAAAATGTTTTAAAAACTATAT
61 -TTTTCAAAAACGTTTTAAAAC-ATATAATATATAAATGCTTTCAAAATGTTTTAAAAACTATAT
*
119262 ATCATATATTTTCAAAATG
124 ATCATATATTTTCAAAACG
* *
119281 TTTTCAAAATTATATAATATATA
1 TTTTAAAAACTATATAATATATA
119304 AATAAAAAAC
Statistics
Matches: 143, Mismatches: 15, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
145 5 0.03
146 9 0.06
147 63 0.44
148 4 0.03
149 4 0.03
150 1 0.01
151 11 0.08
153 23 0.16
154 16 0.11
155 5 0.03
156 2 0.01
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (142 bp):
TTTTAAAAACTATATAATATATATAAATTTAAAAAAACATTTTAAAAAACTATATTATATTTTTC
AAAAACGTTTTAAAACATATAATATATAAATGCTTTCAAAATGTTTTAAAAACTATATATCATAT
ATTTTCAAAACG
Found at i:120517 original size:169 final size:164
Alignment explanation
Indices: 119916--120812 Score: 1127
Period size: 169 Copynumber: 5.4 Consensus size: 164
119906 AAGTTGAATA
*
119916 TAATCGAACTCGAAGGTCTTT-AGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TAATCGAACTCGAAGGTCTTTGA-CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * * *
119980 GCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAA
65 GCCGTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
* * *
120045 GTTGTGCTGCAAATGATATGCC-CTGGAGCTGAGCG
130 GTTATGCTGCAAATGATATGCCTC-GAAGCTGAGTG
* ** * *
120080 TAGTCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGAAGGTCTTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * ** * * *
120145 TCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGG-TCACAGATAACCCTTCTAGCCTTGA
66 CCGTTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAA
* * *
120209 GTTATGCTGTAAATGATGTTCCCTCGAAGCTGAGTG
130 GTTATGCTGCAAATGAT-ATGCCTCGAAGCTGAGTG
** * * *
120245 TAATCGAACTCGGGGGTCTTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATATG
1 TAATCGAACTCGAAGGTCTTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
120310 CC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
66 CCGTT-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
* * * *
120374 GTTATGCTGCAAATGACATGCCTTGGAGCTGAGCG
130 GTTATGCTGCAAATGATATGCCTCGAAGCTGAGTG
* * *
120409 TAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTC--T--TTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGA
* * * *
120474 TGTGCCATCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAC
62 TGTGCCGTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAC
*
120539 TTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
126 TTAAGTTATGCTGCAAATGATATG-CCTCGAAGCTGAGTG
* *
120579 TAATCGAACTCGAAGGTCTTTGGTGACATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
1 TAATCGAACTCGAAGGTC-TT--TGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT
* * * * *
120644 GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTACTCGACT
63 GTGCCGTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACT
*
120709 TAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
127 TAAGTTATGCTGCAAATGATATG-CCTCGAAGCTGAGTG
* * * *
120748 TAATCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
1 TAATCGAACTCGAAGGTC-TT--TGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT
120813 TTGTTTAAAA
Statistics
Matches: 658, Mismatches: 60, Indels: 25
0.89 0.08 0.03
Matches are distributed among these distances:
164 162 0.25
165 140 0.21
166 2 0.00
167 1 0.00
168 44 0.07
169 280 0.43
170 29 0.04
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (164 bp):
TAATCGAACTCGAAGGTCTTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
CCGTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
TTATGCTGCAAATGATATGCCTCGAAGCTGAGTG
Found at i:120543 original size:85 final size:85
Alignment explanation
Indices: 119916--120812 Score: 1123
Period size: 84 Copynumber: 10.8 Consensus size: 85
119906 AAGTTGAATA
* * *
119916 TAATCGAACTCGAAGGTC--T--TTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* *
119977 TGTGCCGTTG-AGCTGAGCG
66 TGTGCCCTCGAAGCTGAGCG
* * * * * *
119996 TAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* *
120061 TATGCCCT-GGAGCTGAGCG
66 TGTGCCCTCGAAGCTGAGCG
* ** * *
120080 TAGTCGAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* * *
120141 TGTGTCGTTG-AGCTGAGCG
66 TGTGCCCTCGAAGCTGAGCG
* * ** * * * *
120160 TAGTCGAACTCAAAGGTCTTTTGG-TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
1 TAATCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
* *
120224 ATGTTCCCTCGAAGCTGAGTG
65 ATGTGCCCTCGAAGCTGAGCG
** * * * *
120245 TAATCGAACTCGGGGGTC--T--TTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAA
1 TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* * *
120306 TATG-CCTTGGAGCTGAGCG
66 TGTGCCCTCGAAGCTGAGCG
*
120325 TAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
** * *
120390 CATG-CCTTGGAGCTGAGCG
66 TGTGCCCTCGAAGCTGAGCG
*
120409 TAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* *
120474 TGTGCCATCGAAGCTGAGTG
66 TGTGCCCTCGAAGCTGAGCG
120494 TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
*
120559 TGTGCCCTCGAAGCTGAGTG
66 TGTGCCCTCGAAGCTGAGCG
* *
120579 TAATCGAACTCGAAGGTCTTTGG-TGACATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
*
120643 TGTGCCCTCGAAGCTGAGTG
66 TGTGCCCTCGAAGCTGAGCG
*
120663 TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTACTCGACTTAAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
*
120728 TGTGCCCTCGAAGCTGAGTG
66 TGTGCCCTCGAAGCTGAGCG
* * * *
120748 TAATCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
120812 T
66 T
120813 TTGTTTAAAA
Statistics
Matches: 718, Mismatches: 80, Indels: 34
0.86 0.10 0.04
Matches are distributed among these distances:
80 109 0.15
81 36 0.05
82 4 0.01
83 2 0.00
84 347 0.48
85 220 0.31
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (85 bp):
TAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
TGTGCCCTCGAAGCTGAGCG
Found at i:123017 original size:76 final size:76
Alignment explanation
Indices: 122907--123115 Score: 305
Period size: 76 Copynumber: 2.8 Consensus size: 76
122897 CCGTTGTACA
* *
122907 AGGGGGGAATCGGTACCCCCT-TGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
** *
122971 CAAAACTGTTT
66 CAAAACCATTC
* * *
122982 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
*
123047 CCAAACCATTC
66 CAAAACCATTC
*
123058 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA-ATCTGGAATT
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATA-CTGGAATT
123116 TTTGGCTTTG
Statistics
Matches: 120, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
75 19 0.16
76 101 0.84
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
CAAAACCATTC
Found at i:125748 original size:20 final size:21
Alignment explanation
Indices: 125696--125756 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
125686 ATTCCCCTGT
125696 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
*
125719 GGGGGAATCGGTTCCCTC-AG
1 GGGGGAATCGGTTCCCTCAAA
* *
125739 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
125757 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.16, C:0.26, G:0.36, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:131667 original size:76 final size:76
Alignment explanation
Indices: 131516--131700 Score: 273
Period size: 75 Copynumber: 2.4 Consensus size: 76
131506 TGTTGTACAA
* * ** *
131516 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCAAAACTGTTTAGGGGGAATCGG
1 GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCAAAACCATTCAGGGGGAATCGG
131581 TTCCTCCTAT-
66 TTCCTCCTATG
* *
131591 GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGGCCAAACCATTCAGGGGGGAATCG
1 GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCAAAACCATTCA-GGGGGAATCG
131656 GTTCCTCCTATG
65 GTTCCTCCTATG
* *
131668 GGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAA
131701 TTTTTGGATT
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
75 47 0.47
76 21 0.21
77 31 0.31
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (76 bp):
GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCAAAACCATTCAGGGGGAATCGG
TTCCTCCTATG
Found at i:135471 original size:15 final size:18
Alignment explanation
Indices: 135431--135471 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
135421 ATAATAATAA
135431 AAAAAAATAATAAATGTG
1 AAAAAAATAATAAATGTG
*
135449 AAATAAATAA-AAA-GT-
1 AAAAAAATAATAAATGTG
135464 AAAAAAAT
1 AAAAAAAT
135472 TAAAGAGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 7 0.33
16 2 0.10
17 3 0.14
18 9 0.43
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (18 bp):
AAAAAAATAATAAATGTG
Found at i:136743 original size:4 final size:4
Alignment explanation
Indices: 136719--136767 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
136709 AACGGGAAAA
*
136719 AAAT AAATT AAAAT AAGT AAAT AAAT AAAT AAA- AAAT -AAT -AAT AAAT
1 AAAT AAA-T -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
136766 AA
1 AA
136768 TGATAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 9 0.23
4 25 0.64
5 2 0.05
6 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:136761 original size:3 final size:3
Alignment explanation
Indices: 136753--136791 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
136743 ATAAATAAAA
*
136753 AAT AAT AAT AAAT AAT GAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
136792 ATATAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:136781 original size:25 final size:21
Alignment explanation
Indices: 136719--136803 Score: 75
Period size: 22 Copynumber: 3.8 Consensus size: 21
136709 AACGGGAAAA
*
136719 AAATAAAT-TAAAATAAGTAAAT
1 AAATAAATAAAAAATAA-T-AAT
136741 AAATAAATAAAAAATAATAAT
1 AAATAAATAAAAAATAATAAT
136762 AAATAATGATAATAATAATAATAAT
1 AAATAA--ATAA-AA-AATAATAAT
*
136787 -AATAAATATAAATATAA
1 AAATAAATA-AAAAATAA
136804 AAACTATATA
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
21 13 0.24
22 14 0.25
23 12 0.22
24 7 0.13
25 9 0.16
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
AAATAAATAAAAAATAATAAT
Found at i:136797 original size:9 final size:10
Alignment explanation
Indices: 136738--136794 Score: 73
Period size: 10 Copynumber: 5.8 Consensus size: 10
136728 AAAATAAGTA
136738 AATAAATAAAT
1 AATAAAT-AAT
*
136749 AAAAAATAAT
1 AATAAATAAT
136759 AATAAATAAT
1 AATAAATAAT
*
136769 GAT-AATAAT
1 AATAAATAAT
136778 AAT-AATAAT
1 AATAAATAAT
136787 AATAAATA
1 AATAAATA
136795 TAAATATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
9 17 0.41
10 18 0.44
11 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (10 bp):
AATAAATAAT
Found at i:136797 original size:12 final size:12
Alignment explanation
Indices: 136738--136803 Score: 56
Period size: 10 Copynumber: 5.9 Consensus size: 12
136728 AAAATAAGTA
136738 AATAAATA-AAT
1 AATAAATATAAT
136749 AA-AAA-ATAAT
1 AATAAATATAAT
*
136759 AATAAATAATGAT
1 AATAAAT-ATAAT
136772 AAT-AATAATAAT
1 AATAAAT-ATAAT
136784 AAT-AATA-AAT
1 AATAAATATAAT
136794 -ATAAATATAA
1 AATAAATATAA
136804 AAACTATATA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
9 3 0.06
10 15 0.32
11 8 0.17
12 14 0.30
13 7 0.15
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
AATAAATATAAT
Found at i:136919 original size:33 final size:33
Alignment explanation
Indices: 136877--136943 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
136867 AAAAAAAACA
* *
136877 TTTTAAAAAACTATATAATTTTCAAAAATGTTT
1 TTTTAAAAAACCATATAATTTTAAAAAATGTTT
*
136910 TTTTTAAAAACCATATAATTTTAAAAAATGTTT
1 TTTTAAAAAACCATATAATTTTAAAAAATGTTT
136943 T
1 T
136944 AAAAATTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (33 bp):
TTTTAAAAAACCATATAATTTTAAAAAATGTTT
Found at i:137066 original size:37 final size:36
Alignment explanation
Indices: 136934--137184 Score: 240
Period size: 37 Copynumber: 6.8 Consensus size: 36
136924 ATAATTTTAA
* * *
136934 AAAATGTTTTAAAAATTACATATTATATAT-TCTTTC
1 AAAATGTTTTAAAAACTATATAATATATATAT-TTTC
* *
136970 AAAATGTTTTTCAAAAAATTATATATTATATATCTATTTTC
1 AAAATG-TTTT--AAAAACTATATA--ATATATATATTTTC
*
137011 AAAACGTTTTAAAAACTATATAATATATATATTTTC
1 AAAATGTTTTAAAAACTATATAATATATATATTTTC
* * * *
137047 AAAAATGTTTTGAAAACTATATATTATATTTCTTTTC
1 -AAAATGTTTTAAAAACTATATAATATATATATTTTC
* * *
137084 AAAAACGTTTT-AAAACTATATAATATATAAATGTTTTT
1 -AAAATGTTTTAAAAACTATATAATATAT--ATATTTTC
*
137122 AAAATGTTTTAAAAACTATAT-AT-CATATATTTTC
1 AAAATGTTTTAAAAACTATATAATATATATATTTTC
* *
137156 AAAATGTTTTCAAAATTATATAATATATA
1 AAAATGTTTTAAAAACTATATAATATATA
137185 AATAAAAAAC
Statistics
Matches: 180, Mismatches: 23, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
34 25 0.14
35 2 0.01
36 40 0.22
37 56 0.31
38 26 0.14
39 11 0.06
40 4 0.02
41 15 0.08
42 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (36 bp):
AAAATGTTTTAAAAACTATATAATATATATATTTTC
Found at i:138342 original size:22 final size:23
Alignment explanation
Indices: 138317--138364 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
138307 CACCCAAGAC
*
138317 CCAAATACAGTCATCCCAG-AGT
1 CCAAATACAGTCAGCCCAGTAGT
* *
138339 CCAATTATAGTCAGCCCAGTAGT
1 CCAAATACAGTCAGCCCAGTAGT
138362 CCA
1 CCA
138365 GTTACGAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (23 bp):
CCAAATACAGTCAGCCCAGTAGT
Found at i:139810 original size:60 final size:59
Alignment explanation
Indices: 139711--139885 Score: 165
Period size: 60 Copynumber: 2.9 Consensus size: 59
139701 AGTGTAACTC
* * * * * * *
139711 TCATTCTATATTGGTCCCTAAACTTTTAAATATTTCAATTTCATGCCTAAACTATTAC-T
1 TCATTCTAAATTAGT-CCTAAACTTTTAAACATTGCAATTTCATCCCCAAACTATGACAT
**
139770 ATCATTCTAAATTAGTCCTAAAACTTTTGGACATTGCAATTTCATCCCCAAACTATGACAT
1 -TCATTCTAAATTAGTCCT-AAACTTTTAAACATTGCAATTTCATCCCCAAACTATGACAT
* * * * *
139831 TCAGTCCAAATTAGCCCTCAAACTTTTTAAACATTCCAATTTTAT-CCCAAACTAT
1 TCATTCTAAATTAGTCCT-AAAC-TTTTAAACATTGCAATTTCATCCCCAAACTAT
139886 ATGTGTATAT
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
59 3 0.03
60 74 0.78
61 18 0.19
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (59 bp):
TCATTCTAAATTAGTCCTAAACTTTTAAACATTGCAATTTCATCCCCAAACTATGACAT
Found at i:140103 original size:60 final size:61
Alignment explanation
Indices: 140039--140170 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 61
140029 TTCGGAGACC
* * * *
140039 AATTTAGAAAGAGGGTCATAGTTT-AGGGATGAAA-TTAGAA-TATGCAAAAGTTTAAGGACT
1 AATTTAGAAAGAGAGTCATAATTTGA-GGATAAAATTTA-AATTATGCAAAAATTTAAGGACT
* * * *
140099 AATTTAGAATGAGAGTCCTAATTTGATGATAAAATTTAAATTATTCAAAAATTTAAGGACT
1 AATTTAGAAAGAGAGTCATAATTTGAGGATAAAATTTAAATTATGCAAAAATTTAAGGACT
140160 AATTTA-AAAGA
1 AATTTAGAAAGA
140171 AATATTATAG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
60 32 0.53
61 28 0.47
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (61 bp):
AATTTAGAAAGAGAGTCATAATTTGAGGATAAAATTTAAATTATGCAAAAATTTAAGGACT
Found at i:141369 original size:28 final size:28
Alignment explanation
Indices: 141297--141369 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
141287 TCACGTGAGC
*
141297 TCACCATTTCCAACCCATGCCAATGCCT
1 TCACCATTTCCAACCCGTGCCAATGCCT
*
141325 TCACCATTTCCAACCCGTGCCAGTGCCT
1 TCACCATTTCCAACCCGTGCCAATGCCT
141353 TCACCATTTCCAACCCG
1 TCACCATTTCCAACCCG
141370 GGCTTACTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.22, C:0.44, G:0.10, T:0.25
Consensus pattern (28 bp):
TCACCATTTCCAACCCGTGCCAATGCCT
Found at i:145291 original size:20 final size:21
Alignment explanation
Indices: 145245--145297 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
145235 TCATACCAAG
*
145245 GACGAGAAGACCTTTCATAAC
1 GACGAGAAGACCTTTCATAAA
*
145266 GACGAGAAGACC-TTCGTAAA
1 GACGAGAAGACCTTTCATAAA
145286 GACGAGAAGACC
1 GACGAGAAGACC
145298 ACATCACATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.13
Consensus pattern (21 bp):
GACGAGAAGACCTTTCATAAA
Found at i:150212 original size:36 final size:36
Alignment explanation
Indices: 150056--150245 Score: 229
Period size: 36 Copynumber: 5.2 Consensus size: 36
150046 AAGTCAATCC
150056 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * *
150092 GAAGCCTTCACCGGAGAATAGTGAAGCAATCAATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * *
150128 GAAGCCTTCACTGGAGAATAGTGAAGCAAACCATCA
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * *
150164 TAAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * * * *
150200 TAAGTCTTCACC-AAAAAGTAGTGAAGCAGATCCATTT
1 TAAGCCTTCACCGGAGAA-TAGTGAAGCA-AACCATCT
150237 TAAGCCTTC
1 TAAGCCTTC
150246 TCAGAAGAGT
Statistics
Matches: 133, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
35 2 0.02
36 117 0.88
37 14 0.11
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (36 bp):
TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
Found at i:150744 original size:51 final size:52
Alignment explanation
Indices: 150627--151023 Score: 348
Period size: 51 Copynumber: 7.6 Consensus size: 52
150617 AAGATTATTA
* *
150627 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTTGAAGAGATG-TC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG--TTGAAGAGATGTTC
* *
150680 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TGAAGAGATGTTC
1 -GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGAAGAGATGTTC
*
150732 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTG-A-AGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC-GTTGAAGAGATGTTC
* *
150783 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTGAAGAGATGTTC
* * * * * *
150834 GAGTTCTATACTCCTTAAAGAAGGAAGGAGCGAACCCGTTTCCAAAAGATTATTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TT-GAAGAGA-TGTTC
* * ** *
150889 GAGTTCTATACTCCTTAAAGAAA-A---AGGGAATTCGCTT-ACAGAAGATTATTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTGA-AG-AGA-TGTTC
* * * * *
150940 AAGTTTTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTAAGAAGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGT-TGAAG-AGATGTTC
* * * *
150994 GAGTTCCATAATCCCTAGAGAAATAGGGAG
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAG
151024 TAGACACGAT
Statistics
Matches: 297, Mismatches: 30, Indels: 32
0.83 0.08 0.09
Matches are distributed among these distances:
49 1 0.00
50 1 0.00
51 177 0.60
52 4 0.01
53 3 0.01
54 72 0.24
55 38 0.13
56 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (52 bp):
GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGAAGAGATGTTC
Found at i:150952 original size:157 final size:155
Alignment explanation
Indices: 150616--151016 Score: 390
Period size: 157 Copynumber: 2.6 Consensus size: 155
150606 TGAAGCAAAT
*
150616 GAAGATTATT-AGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTTGAAGAGATGTC
1 GAAGATTATTCA-AGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTTGAAGAGATGTC
* * * * *
150680 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGAAGAGATGTTCGAGTTCTATACTC
65 TGAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTCAAAAGATATTCGAGTTCTATACTC
* *
150745 CCTAAAGAAAGAGGGAGCGAACCCATTT
130 CCTAAAGAAAAAGGGA--GAACCCATTA
* * * * *
150773 GAAGA-TGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCG-TTTG-A-AGATGT-T
1 GAAGATTATTCAAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTTGAAGAGATGTCT
* * *
150833 CGAGTTCTATACTCCTTAAAGAAGGAAGGAGCGAACCCGTTTCCAAAAGATTATTCGAGTTCTAT
66 -GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCG--T-CAAAAGA-TATTCGAGTTCTAT
* * *
150898 ACTCCTTAAAGAAAAAGGGA-ATTCGC-TTACA
126 ACTCCCTAAAGAAAAAGGGAGA-ACCCATT--A
* * **
150929 GAAGATTATTCAAGTTTTATACTCCCTAGAGAAAGAGGGAGCGAACCTG-TAAGAAGAAGATGT-
1 GAAGATTATTCAAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTTGAAG-AGATGTC
* *
150992 TCGAGTTCCATAATCCCTAGAGAAA
65 T-GAGTTCCATACTCCCTAAAGAAA
151017 TAGGGAGTAG
Statistics
Matches: 198, Mismatches: 33, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
152 1 0.01
153 39 0.20
154 4 0.02
155 7 0.04
156 46 0.23
157 74 0.37
158 1 0.01
160 26 0.13
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.24
Consensus pattern (155 bp):
GAAGATTATTCAAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTTGAAGAGATGTCT
GAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTCAAAAGATATTCGAGTTCTATACTCC
CTAAAGAAAAAGGGAGAACCCATTA
Found at i:151074 original size:55 final size:55
Alignment explanation
Indices: 151012--151622 Score: 620
Period size: 55 Copynumber: 11.2 Consensus size: 55
151002 TAATCCCTAG
* * *
151012 AGAAATAGGGAGTAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* *
151067 A-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGA-AATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * *
151122 AGGAATAGGGAGCATACACG-TT-TTCAAAAGATT-TTCGAGT-TCTATACTTCCCTGG
1 AGAAATAGGGAGCAGACACGATTGTT--GAAGATTGTTCGAGTCT-TATAC-TCTCTGA
* * * * * *
151177 AGAAAGAGGGAAC-GAACCCGATTATTGAAGATTG-T-GGGTCTTATACTCTTTGA
1 AGAAATAGGGAGCAG-ACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
** * * *
151230 AGAAATAGGG-GCAGATGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
151284 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * *
151339 AGAAATAGGGGGCAGACGCAATTGATGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
151392 AGAAATAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* ** * *
151447 AGAAATAGGGGGCAGATGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * **
151500 AGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * *
151555 AGAAATAGGGGGCAGACAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTG-TTCGAGTCTTATACTCTCTGA
151610 AGAAATAGGGAGC
1 AGAAATAGGGAGC
151623 GAACCCATTT
Statistics
Matches: 477, Mismatches: 59, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
52 15 0.03
53 111 0.23
54 55 0.12
55 292 0.61
56 2 0.00
57 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (55 bp):
AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
Found at i:151276 original size:108 final size:108
Alignment explanation
Indices: 151200--151570 Score: 613
Period size: 108 Copynumber: 3.4 Consensus size: 108
151190 GAACCCGATT
* * * *
151200 ATTGAAGATTG-T-GGGTCTTATACTCTTTGAAGAAATA-GGGGCAGATGCAATAGTTGAAGATT
1 ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCAATTGATGAAGATT
151262 GTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
66 G-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* *
151307 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATT
1 ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCAATTGATGAAGATT
*
151372 GTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATC
66 GTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* *
151415 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGATGAAGATT
1 ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCAATTGATGAAGATT
*
151480 GTGGGTCTTATACTCTCTGAAGAAAAAGGGGGCAGACGCAATC
66 GTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
151523 ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA
1 ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA
151571 CAAGTTTGTT
Statistics
Matches: 249, Mismatches: 12, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
107 10 0.04
108 192 0.77
109 24 0.10
110 23 0.09
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (108 bp):
ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCAATTGATGAAGATT
GTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
Found at i:151444 original size:163 final size:161
Alignment explanation
Indices: 151051--151619 Score: 627
Period size: 163 Copynumber: 3.5 Consensus size: 161
151041 GATTATTCGA
* * * * *
151051 GTCTCATACTCTCTGAA-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATAC
1 GTCTTATACTCTCTGAAGA-AATAGGGGGCAGACACAATTGTTGAAGATTGTTCGAGTCTTATAC
* * * * * * * * *
151115 TCTCTGAAGGAATAGGGAGCATACACGTTTTCAAAAGATT-TTCGAGT-TCTATACTTCCCTGGA
65 TCTCTGAAGAAATAGGGGGCAGACGCATGTT--GAAGATTGTTCGAGTCT-TATAC-TCTCTGAA
* ** * *
151178 GAAAGAGGGAAC-GAACCCGATTATTGAAGATTGTGG
126 GAAAAAGGGGGCAG-ACGCAATTATTGAAGATTGTGG
* ** * *
151214 GTCTTATACTCTTTGAAGAAATA-GGGGCAGATGCAATAGTTGAAGATTGTTCGGGTCTTATACT
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATTGTTGAAGATTGTTCGAGTCTTATACT
151278 CTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAA
66 CTCTGAAGAAATAGGGGGCAGACGC-AT-GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAA
*
151343 ATAGGGGGCAGACGCAATTGA-TGAAGATTGTGG
129 AAAGGGGGCAGACGCAATT-ATTGAAGATTGTGG
*
151376 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTATACT
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATTGTTGAAGATTGTTCGAGTCTTATACT
* * *
151441 CTCTGAAGAAATAGGGGGCAGATGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAA
66 CTCTGAAGAAATAGGGGGCAGACGC-A-TGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAA
* *
151504 AAAGGGGGCAGACGCAATCATTGAAGATTGTTCGA
129 AAAGGGGGCAGACGCAATTATTGAAGATTG-T-GG
* *
151539 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACA-AGTTTGTTGAAGA-TGATTCAAGTCTTATA
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACACA-ATTGTTGAAGATTG-TTCGAGTCTTATA
*
151602 CCCTCTGAAGAAATAGGG
64 CTCTCTGAAGAAATAGGG
151620 AGCGAACCCA
Statistics
Matches: 352, Mismatches: 40, Indels: 28
0.84 0.10 0.07
Matches are distributed among these distances:
160 1 0.00
161 47 0.13
162 120 0.34
163 179 0.51
164 5 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (161 bp):
GTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATTGTTGAAGATTGTTCGAGTCTTATACT
CTCTGAAGAAATAGGGGGCAGACGCATGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAAA
AGGGGGCAGACGCAATTATTGAAGATTGTGG
Found at i:151584 original size:108 final size:107
Alignment explanation
Indices: 151200--151619 Score: 598
Period size: 108 Copynumber: 3.9 Consensus size: 107
151190 GAACCCGATT
* * * *
151200 ATTGAAGATTG-T-GGGTCTTATACTCTTTGAAGAAATA-GGGGCAGATGCAATAGTTGAAGATT
1 ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA-GCAATTGATGAAGATT
151262 GTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
65 G-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
*
151307 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGATGAAGATT
1 ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA-GCAATTGATGAAGATT
*
151372 GTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATC
65 GTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* *
151415 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGATGAAGATT
1 ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA-GCAATTGATGAAGATT
*
151480 GTGGGTCTTATACTCTCTGAAGAAAAAGGGGGCAGACGCAATC
65 GTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
*
151523 ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA-CAAGTTTGTTGAAGA-
1 ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAGCAA--TTGATGAAGAT
** *
151586 TGATTCAAGTCTTATACCCTCTGAAGAAATAGGG
64 TG--T-GGGTCTTATACTCTCTGAAGAAATAGGG
151620 AGCGAACCCA
Statistics
Matches: 287, Mismatches: 18, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
106 2 0.01
107 12 0.04
108 201 0.70
109 25 0.09
110 47 0.16
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (107 bp):
ATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAGCAATTGATGAAGATTG
TGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
Found at i:152512 original size:28 final size:28
Alignment explanation
Indices: 152472--152545 Score: 148
Period size: 28 Copynumber: 2.6 Consensus size: 28
152462 ATCACGTGAG
152472 TTCACCATTTCCAACCCGTGCCAGTGCC
1 TTCACCATTTCCAACCCGTGCCAGTGCC
152500 TTCACCATTTCCAACCCGTGCCAGTGCC
1 TTCACCATTTCCAACCCGTGCCAGTGCC
152528 TTCACCATTTCCAACCCG
1 TTCACCATTTCCAACCCG
152546 GGCTTACCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.19, C:0.43, G:0.12, T:0.26
Consensus pattern (28 bp):
TTCACCATTTCCAACCCGTGCCAGTGCC
Found at i:155672 original size:25 final size:25
Alignment explanation
Indices: 155638--155713 Score: 134
Period size: 25 Copynumber: 3.0 Consensus size: 25
155628 CCAAAAAAAG
155638 AAAGTACTAATAATAAATGCTCTGT
1 AAAGTACTAATAATAAATGCTCTGT
155663 AAAGTACTAATAATAAATGCTCTGT
1 AAAGTACTAATAATAAATGCTCTGT
* *
155688 AAAGTATTAATAATAAATACTCTGT
1 AAAGTACTAATAATAAATGCTCTGT
155713 A
1 A
155714 GCTGTAAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (25 bp):
AAAGTACTAATAATAAATGCTCTGT
Found at i:155898 original size:24 final size:24
Alignment explanation
Indices: 155871--155922 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
155861 CGTTTATGTT
155871 TGTTCGTTTATGTGCGTTCATTTA
1 TGTTCGTTTATGTGCGTTCATTTA
155895 TGTTCGTTTATGTGCGTTCATTTA
1 TGTTCGTTTATGTGCGTTCATTTA
155919 TGTT
1 TGTT
155923 TAGTTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.56
Consensus pattern (24 bp):
TGTTCGTTTATGTGCGTTCATTTA
Found at i:155913 original size:14 final size:14
Alignment explanation
Indices: 155859--155921 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 14
155849 TGACAATATA
**
155859 TTCGTTTATGTTTG
1 TTCGTTTATGTGCG
155873 TTCGTTTATGTGCG
1 TTCGTTTATGTGCG
*
155887 TTCATTTA--T--G
1 TTCGTTTATGTGCG
155897 TTCGTTTATGTGCG
1 TTCGTTTATGTGCG
*
155911 TTCATTTATGT
1 TTCGTTTATGT
155922 TTAGTTTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
10 8 0.20
12 2 0.05
14 30 0.75
ACGTcount: A:0.11, C:0.11, G:0.21, T:0.57
Consensus pattern (14 bp):
TTCGTTTATGTGCG
Found at i:156155 original size:24 final size:23
Alignment explanation
Indices: 156122--156220 Score: 83
Period size: 24 Copynumber: 4.2 Consensus size: 23
156112 TTTATGTTAA
*
156122 TTTATTGTGTTCGTTTACGTTCG
1 TTTATTGTGTTCGTTTAAGTTCG
* *
156145 TTCGT-TTGTGTTCTTTTAAGTTTG
1 TT--TATTGTGTTCGTTTAAGTTCG
* *
156169 TTTATTGTGTTCGTTTATGTTCA
1 TTTATTGTGTTCGTTTAAGTTCG
* * **
156192 TTTAAATCTGTTCGTTTATCTTCG
1 TTT-ATTGTGTTCGTTTAAGTTCG
156216 TTTAT
1 TTTAT
156221 CATTTAAATG
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
22 1 0.02
23 21 0.35
24 37 0.62
25 1 0.02
ACGTcount: A:0.12, C:0.11, G:0.17, T:0.60
Consensus pattern (23 bp):
TTTATTGTGTTCGTTTAAGTTCG
Found at i:158287 original size:25 final size:25
Alignment explanation
Indices: 158253--158303 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
158243 CCAAAAAAAG
*
158253 AAAGTACTAATAATAAATGCTCTGT
1 AAAGTACTAATAATAAATACTCTGT
158278 AAAGTACTAATAATAAATACTCTGT
1 AAAGTACTAATAATAAATACTCTGT
158303 A
1 A
158304 GCTGTAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (25 bp):
AAAGTACTAATAATAAATACTCTGT
Found at i:158603 original size:24 final size:24
Alignment explanation
Indices: 158586--158637 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
158576 CGTTTATGTT
158586 TGTTCGTTTATGTGCGTTCATTTA
1 TGTTCGTTTATGTGCGTTCATTTA
158610 TGTTCGTTTATGTGCGTTCATTTA
1 TGTTCGTTTATGTGCGTTCATTTA
158634 TGTT
1 TGTT
158638 TAGTTCAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.56
Consensus pattern (24 bp):
TGTTCGTTTATGTGCGTTCATTTA
Found at i:158617 original size:14 final size:14
Alignment explanation
Indices: 158573--158637 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
158563 TCGGTAATAT
* *
158573 GTTCGTTTATGTTT
1 GTTCATTTATGTTC
* *
158587 GTTCGTTTATGTGC
1 GTTCATTTATGTTC
158601 GTTCATTTATGTTC
1 GTTCATTTATGTTC
*
158615 G----TTTATGTGC
1 GTTCATTTATGTTC
158625 GTTCATTTATGTT
1 GTTCATTTATGTT
158638 TAGTTCAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
10 9 0.22
14 32 0.78
ACGTcount: A:0.11, C:0.11, G:0.22, T:0.57
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:158851 original size:24 final size:23
Alignment explanation
Indices: 158818--158916 Score: 85
Period size: 24 Copynumber: 4.2 Consensus size: 23
158808 TTTATGTTAA
*
158818 TTTATTGTGTTCGTTTACGTTCG
1 TTTATTGTGTTCGTTTAAGTTCG
* *
158841 TTCGT-TTGTGTTCTTTTAAGTTTG
1 TT--TATTGTGTTCGTTTAAGTTCG
* *
158865 TTTATTGTGTTCGTTTATGTTCA
1 TTTATTGTGTTCGTTTAAGTTCG
**
158888 TTTAAATT-TGTTCGTTTATCTTCG
1 TTT--ATTGTGTTCGTTTAAGTTCG
158912 TTTAT
1 TTTAT
158917 CATTTAAATG
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.05
23 20 0.32
24 35 0.56
25 4 0.06
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.61
Consensus pattern (23 bp):
TTTATTGTGTTCGTTTAAGTTCG
Found at i:164435 original size:10 final size:11
Alignment explanation
Indices: 164407--164437 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
164397 AAATTAATGC
164407 AAGAAAAAAGA
1 AAGAAAAAAGA
164418 AAGAAAAAAGA
1 AAGAAAAAAGA
*
164429 AGGAAAAAA
1 AAGAAAAAA
164438 TATCACCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:167117 original size:15 final size:15
Alignment explanation
Indices: 167092--167163 Score: 101
Period size: 15 Copynumber: 4.9 Consensus size: 15
167082 TGGTTTTCCA
167092 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
167107 GAATTTGAATTACTG
1 GAAAATGAATTACTG
167122 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
167137 GAATTTGAATT-CTG
1 GAAAATGAATTACTG
167151 GAAAATGAATTAC
1 GAAAATGAATTAC
167164 ATTTCTGTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
14 12 0.25
15 36 0.75
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (15 bp):
GAAAATGAATTACTG
Found at i:167161 original size:29 final size:30
Alignment explanation
Indices: 167092--167163 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
167082 TGGTTTTCCA
167092 GAAAATGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATTACTG
167122 GAAAATGAATTACTGGAATTTGAATT-CTG
1 GAAAATGAATTACTGGAATTTGAATTACTG
167151 GAAAATGAATTAC
1 GAAAATGAATTAC
167164 ATTTCTGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 16 0.38
30 26 0.62
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (30 bp):
GAAAATGAATTACTGGAATTTGAATTACTG
Found at i:167169 original size:20 final size:20
Alignment explanation
Indices: 167146--167215 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
167136 GGAATTTGAA
167146 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
167166 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
167186 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
167206 TTCTGGAAAA
1 TTCTGGAAAA
167216 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:167435 original size:28 final size:27
Alignment explanation
Indices: 167381--167452 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 27
167371 CTTTACTAAA
* *
167381 TATTATTGAAATATAAAATAATATTAT
1 TATTATTAAAATATAAAAAAATATTAT
167408 TCATTATTAAATATATAAAAAAATTTATTAT
1 T-ATTATTAAA-ATATAAAAAAA--TATTAT
167439 ATATTATTAAAATA
1 -TATTATTAAAATA
167453 AAATATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
27 1 0.03
28 8 0.21
29 10 0.26
30 3 0.08
31 15 0.39
32 1 0.03
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (27 bp):
TATTATTAAAATATAAAAAAATATTAT
Found at i:167453 original size:28 final size:28
Alignment explanation
Indices: 167380--167480 Score: 91
Period size: 28 Copynumber: 3.5 Consensus size: 28
167370 TCTTTACTAA
* *
167380 ATATTATTGAAATATAAAATAATATTAT
1 ATATTATTAAAATATAAAAAAATATTAT
167408 -TCATTATTAAATATATAAAAAAATTTATTAT
1 AT-ATTATTAAA-ATATAAAAAAA--TATTAT
*
167439 ATATTATTAAAATA-AAATATAATATCT-T
1 ATATTATTAAAATATAAA-AAAATAT-TAT
*
167467 ATATTATTATAATA
1 ATATTATTAAAATA
167481 AATTGATTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
27 1 0.02
28 25 0.40
29 14 0.23
30 6 0.10
31 15 0.24
32 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (28 bp):
ATATTATTAAAATATAAAAAAATATTAT
Found at i:167519 original size:24 final size:23
Alignment explanation
Indices: 167495--167570 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
167485 GATTATTTTA
*
167495 TATAATATTAAAAATA-TAATAT
1 TATATTATTAAAAATATTAATAT
* *
167517 TATATTATTATAAATATTAATAAA
1 TATATTATTAAAAATATTAAT-AT
* *
167541 TATATT-TTAAATATTTTAATAAT
1 TATATTATTAAAAATATTAAT-AT
167564 TAATATT
1 T-ATATT
167571 TTGATGAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 14 0.32
23 18 0.41
24 12 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TATATTATTAAAAATATTAATAT
Found at i:167525 original size:22 final size:24
Alignment explanation
Indices: 167494--167562 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 24
167484 TGATTATTTT
*
167494 ATATAATATTAAAAATA-TAAT-A
1 ATATATTATTAAAAATATTAATAA
* *
167516 TTATATTATTATAAATATTAATAA
1 ATATATTATTAAAAATATTAATAA
* *
167540 ATATATT-TTAAATATTTTAATAA
1 ATATATTATTAAAAATATTAATAA
167563 TTAATATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 14 0.37
23 17 0.45
24 7 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
ATATATTATTAAAAATATTAATAA
Found at i:168002 original size:2 final size:2
Alignment explanation
Indices: 167995--168027 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
167985 AATCATGTAT
167995 TA TA 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 TA TA T
168028 GAATGATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:168169 original size:31 final size:31
Alignment explanation
Indices: 168131--168195 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
168121 ATGGTACATG
**
168131 GTCTTTAATATTATCAATCCGTTTGATTTTA
1 GTCTTTAATATTATCAATCCGTTCAATTTTA
*
168162 GTCTTTAATATTATCGATCCGTTCAATTTTA
1 GTCTTTAATATTATCAATCCGTTCAATTTTA
168193 GTC
1 GTC
168196 CCTCAATCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (31 bp):
GTCTTTAATATTATCAATCCGTTCAATTTTA
Done.