Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001863.1 Hibiscus syriacus cultivar Beakdansim tig00003767_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: 87034
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:13449 original size:22 final size:22
Alignment explanation
Indices: 13424--13467 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13414 GTCGAGGGAT
*
13424 TATTTGTATACTTTACCCTATA
1 TATTTGTATACTTCACCCTATA
13446 TATTTGTATACTTCACCCTATA
1 TATTTGTATACTTCACCCTATA
13468 ATTATCAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (22 bp):
TATTTGTATACTTCACCCTATA
Found at i:15620 original size:14 final size:14
Alignment explanation
Indices: 15586--15614 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15576 TTATTTAAAA
15586 TAATT-TAACTATT
1 TAATTATAACTATT
15599 TAATTATAACTATT
1 TAATTATAACTATT
15613 TA
1 TA
15615 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTATAACTATT
Found at i:19145 original size:23 final size:22
Alignment explanation
Indices: 19114--19180 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
19104 CAAATGATCG
19114 AAAA-TGTGTCATAAAGACAAA
1 AAAATTGTGTCATAAAGACAAA
*
19135 TAAAATTGTGTCATAAAGACAGA
1 -AAAATTGTGTCATAAAGACAAA
*
19158 AAAATATGT-TCATAAAGATAAA
1 AAAAT-TGTGTCATAAAGACAAA
19180 A
1 A
19181 TTATTAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 21 0.52
23 19 0.47
ACGTcount: A:0.55, C:0.07, G:0.13, T:0.24
Consensus pattern (22 bp):
AAAATTGTGTCATAAAGACAAA
Found at i:19161 original size:22 final size:23
Alignment explanation
Indices: 19114--19175 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
19104 CAAATGATCG
19114 AAAA-TGTGTCATAAAGACAAAT
1 AAAATTGTGTCATAAAGACAAAT
*
19136 AAAATTGTGTCATAAAGACAGA-
1 AAAATTGTGTCATAAAGACAAAT
19158 AAAATATGT-TCATAAAGA
1 AAAAT-TGTGTCATAAAGA
19176 TAAAATTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 18 0.49
23 19 0.51
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.24
Consensus pattern (23 bp):
AAAATTGTGTCATAAAGACAAAT
Found at i:26479 original size:32 final size:28
Alignment explanation
Indices: 26412--26470 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
26402 TAGCACCTAT
* *
26412 ATATTATTTTTATTAATTAAAACTCGAA
1 ATATAATTCTTATTAATTAAAACTCGAA
*
26440 ATATAATTCTTATTAATTAAAACTTGAA
1 ATATAATTCTTATTAATTAAAACTCGAA
26468 ATA
1 ATA
26471 ACATTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (28 bp):
ATATAATTCTTATTAATTAAAACTCGAA
Found at i:34902 original size:15 final size:17
Alignment explanation
Indices: 34863--34904 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
34853 CTAATTTAAA
* *
34863 TATATTTTTATCTATCT
1 TATAATTTTATATATCT
34880 TATAATTTTATATAT-T
1 TATAATTTTATATATCT
34896 T-TAATTTTA
1 TATAATTTTA
34905 AAGAATGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 8 0.35
16 2 0.09
17 13 0.57
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (17 bp):
TATAATTTTATATATCT
Found at i:39377 original size:9 final size:9
Alignment explanation
Indices: 39342--39384 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
39332 TTACAAATAT
*
39342 AAAAAAATC
1 AAAAAATTC
*
39351 AGAAAAATAC
1 A-AAAAATTC
*
39361 GAAAAATTC
1 AAAAAATTC
39370 AAAAAATTC
1 AAAAAATTC
39379 AAAAAA
1 AAAAAA
39385 AAAATTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 22 0.79
10 6 0.21
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (9 bp):
AAAAAATTC
Found at i:39383 original size:18 final size:19
Alignment explanation
Indices: 39336--39385 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
39326 TTAATTTTAC
*
39336 AAATATAAAAAAATCAGAA
1 AAATACAAAAAAATCAGAA
* *
39355 AAATACGAAAAATTCA-AA
1 AAATACAAAAAAATCAGAA
*
39373 AAATTCAAAAAAA
1 AAATACAAAAAAA
39386 AAATTAATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.72, C:0.08, G:0.04, T:0.16
Consensus pattern (19 bp):
AAATACAAAAAAATCAGAA
Found at i:39455 original size:15 final size:17
Alignment explanation
Indices: 39416--39457 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
39406 CTAATTTAAA
* *
39416 TATATTTTTATCTATCT
1 TATAATTTTATATATCT
39433 TATAATTTTATATAT-T
1 TATAATTTTATATATCT
39449 T-TAATTTTA
1 TATAATTTTA
39458 AAAAATGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 8 0.35
16 2 0.09
17 13 0.57
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (17 bp):
TATAATTTTATATATCT
Found at i:39872 original size:22 final size:20
Alignment explanation
Indices: 39844--39884 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
39834 AAAATGAGAG
39844 TTATTTTGAAAAATAAAAATAT
1 TTATTTT-AAAAA-AAAAATAT
*
39866 TTATTTTAATAAAAAAATA
1 TTATTTTAAAAAAAAAATA
39885 GGATAAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TTATTTTAAAAAAAAAATAT
Found at i:42426 original size:177 final size:177
Alignment explanation
Indices: 42130--42484 Score: 669
Period size: 177 Copynumber: 2.0 Consensus size: 177
42120 TCCGCTTCTC
42130 TGCTTTGGCTACATAAGGTGCTTTTTCCTGAACATATTAATTCTAATTCTATCAGAGAACACATT
1 TGCTTTGGCTACATAAGGTGCTTTTTCCTGAACATATTAATTCTAATTCTATCAGAGAACACATT
42195 TGCATATATAGGTTTTGAAAGTTTCAAAGAGCACTTGTAAATACTCACAGCTTCAGACAAGCTCT
66 TGCATATATAGGTTTTGAAAGTTTCAAAGAGCACTTGTAAATACTCACAGCTTCAG--AAGCTCT
42260 TCCATTTATCTCCTCCAGCTTTGCCAACCT-AA-AGTAGGGGAAATTAA
129 TCCATTTATCTCCTCCAGCTTTGCCAACCTAAATAGTAGGGGAAATTAA
42307 TGCTTTGGCTACATAAGGTGCTTTTTCCTGAACATATTAATTCTAATTCTATCAGAGAACACATT
1 TGCTTTGGCTACATAAGGTGCTTTTTCCTGAACATATTAATTCTAATTCTATCAGAGAACACATT
42372 TGCATATATAGGTTTTGAAAGTTTCAAAGAGCACTTGTAAATACTCACAGCTTCAGAAGCTCTTC
66 TGCATATATAGGTTTTGAAAGTTTCAAAGAGCACTTGTAAATACTCACAGCTTCAGAAGCTCTTC
42437 CATTTATCTCCTCCAGCTTTGCCAACCTAAAATAGTAGGGGAAATTAA
131 CATTTATCTCCTCCAGCTTTGCCAACCT-AAATAGTAGGGGAAATTAA
42485 AACAAAAGAA
Statistics
Matches: 175, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
175 37 0.21
177 123 0.70
178 15 0.09
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (177 bp):
TGCTTTGGCTACATAAGGTGCTTTTTCCTGAACATATTAATTCTAATTCTATCAGAGAACACATT
TGCATATATAGGTTTTGAAAGTTTCAAAGAGCACTTGTAAATACTCACAGCTTCAGAAGCTCTTC
CATTTATCTCCTCCAGCTTTGCCAACCTAAATAGTAGGGGAAATTAA
Found at i:44970 original size:26 final size:27
Alignment explanation
Indices: 44921--44971 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
44911 TACAAATTAG
***
44921 AACATCAAAGGGCCTTTTTTATTAATT
1 AACATCAAAGGGCCTTTAAAATTAATT
44948 AACATCAAAGGG-CTTTAAAATTAA
1 AACATCAAAGGGCCTTTAAAATTAA
44972 GTTATGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (27 bp):
AACATCAAAGGGCCTTTAAAATTAATT
Found at i:45280 original size:16 final size:17
Alignment explanation
Indices: 45242--45287 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
45232 TGTTTATGAG
45242 GGAATTGAAATCTGTGAA
1 GGAATTGAAATCTGT-AA
45260 GGAATTGAAATCTGT-A
1 GGAATTGAAATCTGTAA
*
45276 GGAATTGGAATC
1 GGAATTGAAATC
45288 AAATTCTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.44
18 15 0.56
ACGTcount: A:0.37, C:0.07, G:0.28, T:0.28
Consensus pattern (17 bp):
GGAATTGAAATCTGTAA
Found at i:46316 original size:153 final size:153
Alignment explanation
Indices: 46020--46317 Score: 415
Period size: 153 Copynumber: 1.9 Consensus size: 153
46010 GACTTAATCT
46020 GACCCGACCCGAATTATATATATTTTCGGGTCGATCCGGTTTTTTCACCCTAAACCCAAACCCGA
1 GACCCGACCCGAATTATATATATTTTCGGGTCGATCCGGTTTTTTCACCCTAAACCC-AA--C-A
* * * * *
46085 CCCGAATATCACACTTAAAAAATCCGACCATACCCGAACAAAATAAAGTTTCATATGACCCGACC
62 CCCGAATATCACACTTAAAAAACCCAACCATACCCGAACAAAATAAAGTTCCACACGACCCGACC
46150 CGAATATATGAATTAAAAATCCAACCC
127 CGAATATATGAATTAAAAATCCAACCC
*
46177 GACCCGACCCGAAATTAT-TATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCC-A-ACC
1 GACCCGACCCG-AATTATATATATTTTCGGGTCGATCCGG-TTTTTTCACCCTAAACCCAACACC
* * *
46239 CGAATATCACACTTAAAAAACCCCAATC-TGACCCGACCAAAATAAAGTTCCACCCGACCCGACC
64 CGAATATCACACTTAAAAAA-CCCAACCAT-ACCCGAACAAAATAAAGTTCCACACGACCCGACC
46303 CGAATATATGAATTA
127 CGAATATATGAATTA
46318 GAAACCCGAC
Statistics
Matches: 128, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
152 24 0.19
153 48 0.38
156 1 0.01
157 31 0.24
158 24 0.19
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (153 bp):
GACCCGACCCGAATTATATATATTTTCGGGTCGATCCGGTTTTTTCACCCTAAACCCAACACCCG
AATATCACACTTAAAAAACCCAACCATACCCGAACAAAATAAAGTTCCACACGACCCGACCCGAA
TATATGAATTAAAAATCCAACCC
Found at i:47031 original size:30 final size:30
Alignment explanation
Indices: 46987--47058 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
46977 AGGTGATCTA
46987 GGCGACCAAATGAAGGTCGCCGGGTGGTATG
1 GGCGACC-AATGAAGGTCGCCGGGTGGTATG
*
47018 GGCGACCAATGAAGGTCGCCGGGTGGTCTG
1 GGCGACCAATGAAGGTCGCCGGGTGGTATG
47048 GGCGACCAATG
1 GGCGACCAATG
47059 CTGCGTGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 33 0.82
31 7 0.17
ACGTcount: A:0.21, C:0.22, G:0.42, T:0.15
Consensus pattern (30 bp):
GGCGACCAATGAAGGTCGCCGGGTGGTATG
Found at i:47682 original size:50 final size:50
Alignment explanation
Indices: 47621--47722 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
47611 AAAATTATTG
*
47621 AATACAAAACAAGATATCCCAATAATCAATTTTAAAATAAATACATACTA
1 AATACAAAACAAGATATCCCAATAATCAATTCTAAAATAAATACATACTA
47671 AATACAAAACAAGATATCCCAATAATCAATTCTAAAATAAATACATACTA
1 AATACAAAACAAGATATCCCAATAATCAATTCTAAAATAAATACATACTA
47721 AA
1 AA
47723 ATATGATAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.25
Consensus pattern (50 bp):
AATACAAAACAAGATATCCCAATAATCAATTCTAAAATAAATACATACTA
Found at i:47911 original size:30 final size:30
Alignment explanation
Indices: 47875--47931 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
47865 ATTTGCATGG
47875 CGCCCTGACCACCCGACGACCTTCATTGGT
1 CGCCCTGACCACCCGACGACCTTCATTGGT
* *
47905 CGCCCTGACCACCCGGCGACTTTCATT
1 CGCCCTGACCACCCGACGACCTTCATT
47932 CGAACTATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.44, G:0.19, T:0.21
Consensus pattern (30 bp):
CGCCCTGACCACCCGACGACCTTCATTGGT
Found at i:52491 original size:43 final size:43
Alignment explanation
Indices: 52423--52542 Score: 136
Period size: 43 Copynumber: 2.7 Consensus size: 43
52413 TTAAAGTTCA
52423 CGGCGTTTGTTAACGAAAAACGCCGCAATAGGTGACGATATATAG
1 CGGCGTTTGTTAA--AAAAACGCCGCAATAGGTGACGATATATAG
* ** * *
52468 CGGCGTTTGTTGAAAAAACGCCGCAATAGGTGTTGCTATTTAG
1 CGGCGTTTGTTAAAAAAACGCCGCAATAGGTGACGATATATAG
*
52511 CGGCGTTTGTCTTAAAAATA--CCGCAATAGGTG
1 CGGCGTTTG--TTAAAAAAACGCCGCAATAGGTG
52543 TTGTTGTTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
43 47 0.71
45 19 0.29
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (43 bp):
CGGCGTTTGTTAAAAAAACGCCGCAATAGGTGACGATATATAG
Found at i:52543 original size:43 final size:43
Alignment explanation
Indices: 52438--52624 Score: 169
Period size: 43 Copynumber: 4.3 Consensus size: 43
52428 TTTGTTAACG
* ** * * *
52438 AAAAACGCCGCAATAGGTGACGATATATAGCGGCGTTTGT-TGA
1 AAAAACACCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCT-T
*
52481 AAAAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTT
1 AAAAACACCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTT
* * * * * **
52524 AAAAATACCGCAATAGGTGTTGTTGTTTAGCGGCATTTTTCCC
1 AAAAACACCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTT
* * * * *
52567 ACAAACGCTGCAATAGGTATTGCTATTTAGCGGCGTTTGGCTT
1 AAAAACACCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTT
* *
52610 ACAAACGCCGCAATA
1 AAAAACACCGCAATA
52625 AATATCGTTG
Statistics
Matches: 117, Mismatches: 26, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
43 116 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
AAAAACACCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTT
Found at i:52573 original size:86 final size:86
Alignment explanation
Indices: 52483--52690 Score: 281
Period size: 86 Copynumber: 2.4 Consensus size: 86
52473 TTTGTTGAAA
* * ** * *
52483 AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTTAAAAATACCGCAATAGGTGTTGTT
1 AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGGCTTAAAAACACCGCAATAAATATCGTT
52548 GTTTAGCGGCATTTTTCCCAC
66 GTTTAGCGGCATTTTTCCCAC
* * * *
52569 AAACGCTGCAATAGGTATTGCTATTTAGCGGCGTTTGGCTTACAAACGCCGCAATAAATATCGTT
1 AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGGCTTAAAAACACCGCAATAAATATCGTT
**
52634 GTTTAGCGGTGTTTTTCCCAC
66 GTTTAGCGGCATTTTTCCCAC
* * *
52655 AAACGTCGCAATAGGTGTTGTTGTTTAGCGGCGTTT
1 AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTT
52691 TTCAAACAAG
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 105 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (86 bp):
AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGGCTTAAAAACACCGCAATAAATATCGTT
GTTTAGCGGCATTTTTCCCAC
Found at i:52639 original size:43 final size:43
Alignment explanation
Indices: 52465--52710 Score: 204
Period size: 43 Copynumber: 5.7 Consensus size: 43
52455 TGACGATATA
*** * * * *
52465 TAGCGGCGTTTGTTGAAAAAACGCCGCAATAGGTGTTGCTATT
1 TAGCGGCGTTTGTCCCACAAACGCCGCAATAGGTATTGTTGTT
** * ** *
52508 TAGCGGCGTTTGTCTTAAAAATACCGCAATAGGTGTTGTTGTT
1 TAGCGGCGTTTGTCCCACAAACGCCGCAATAGGTATTGTTGTT
* * * * *
52551 TAGCGGCATTTTTCCCACAAACGCTGCAATAGGTATTGCTATT
1 TAGCGGCGTTTGTCCCACAAACGCCGCAATAGGTATTGTTGTT
* ** ** *
52594 TAGCGGCGTTTGGCTTACAAACGCCGCAATAAATATCGTTGTT
1 TAGCGGCGTTTGTCCCACAAACGCCGCAATAGGTATTGTTGTT
* * * *
52637 TAGCGGTGTTTTTCCCACAAACGTCGCAATAGGTGTTGTTGTT
1 TAGCGGCGTTTGTCCCACAAACGCCGCAATAGGTATTGTTGTT
* ** *
52680 TAGCGGCGTTTTTCAAACAAGCGCCGCAATA
1 TAGCGGCGTTTGTCCCACAAACGCCGCAATA
52711 AGCGTTGAGA
Statistics
Matches: 159, Mismatches: 44, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 159 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (43 bp):
TAGCGGCGTTTGTCCCACAAACGCCGCAATAGGTATTGTTGTT
Found at i:52725 original size:86 final size:82
Alignment explanation
Indices: 52483--52735 Score: 231
Period size: 86 Copynumber: 2.9 Consensus size: 82
52473 TTTGTTGAAA
* ** * *
52483 AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTTAAA-AATACCGCAATAGGTGTTGT
1 AAACG-CGCAATAGGTGTTGCTATTTAGCGGCGTTT-T-TCAAACAACGCCGCAATAAGCGTTG-
*
52547 TGTTTAGCGGCATTTTTCCCAC
62 -GTTTAGCGGCGTTTTTCCCAC
* ** ** *
52569 AAACGCTGCAATAGGTATTGCTATTTAGCGGCGTTTGGCTTACAAACGCCGCAATAAATATCGTT
1 AAACGC-GCAATAGGTGTTGCTATTTAGCGGCGTTTTTCAAAC-AACGCCGCAAT--A-AGCGTT
*
52634 -GTTTAGCGGTGTTTTTCCCAC
61 GGTTTAGCGGCGTTTTTCCCAC
* *
52655 AAACGTCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTTCAAACAAGCGCCGCAATAAGCGTTGAG
1 AAACG-CGCAATAGGTGTTGCTATTTAGCGGCGTTTTTCAAACAA-CGCCGCAATAAGCGTTG-G
52720 ATTTAGCGGCGTTTTT
63 -TTTAGCGGCGTTTTT
52736 ATCGAAAACG
Statistics
Matches: 134, Mismatches: 22, Indels: 22
0.75 0.12 0.12
Matches are distributed among these distances:
83 5 0.04
84 2 0.01
85 4 0.03
86 118 0.88
87 1 0.01
88 1 0.01
89 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (82 bp):
AAACGCGCAATAGGTGTTGCTATTTAGCGGCGTTTTTCAAACAACGCCGCAATAAGCGTTGGTTT
AGCGGCGTTTTTCCCAC
Found at i:52768 original size:129 final size:127
Alignment explanation
Indices: 52532--52776 Score: 271
Period size: 129 Copynumber: 1.9 Consensus size: 127
52522 TTAAAAATAC
** * * * **
52532 CGCAATAGGTGTTGTTGTTTAGCGGCATTTTTCCCACAAACGCTGCAATAGGTATTGCTATTTAG
1 CGCAATAGGTGTTGTTGTTTAGCGGCATTTTTCAAACAAACGCCGCAATAAGCATTGAGATTTAG
* * *
52597 CGGCGTTTGGCTTACAAACGCCGCAATAAATATCGTTGTTTAGCGGTGTTTTTCCCACAAACGT
66 CGGCGTTT-G-TTACAAACGCCGCAATAAATATCGATATTTAGCGGCGTTTTTCCCACAAACGT
* * *
52661 CGCAATAGGTGTTGTTGTTTAGCGGCGTTTTTCAAACAAGCGCCGCAATAAGCGTTGAGATTTAG
1 CGCAATAGGTGTTGTTGTTTAGCGGCATTTTTCAAACAAACGCCGCAATAAGCATTGAGATTTAG
**
52726 CGGCGTTT-TTATCGAAAACGCCGCTACAT-GTTAT-GATATTTAGCGGCGTTT
66 CGGCGTTTGTTA-C--AAACGCCGC-A-ATAAATATCGATATTTAGCGGCGTTT
52777 GTGGTAAAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
126 3 0.03
127 1 0.01
129 86 0.90
130 4 0.04
131 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (127 bp):
CGCAATAGGTGTTGTTGTTTAGCGGCATTTTTCAAACAAACGCCGCAATAAGCATTGAGATTTAG
CGGCGTTTGTTACAAACGCCGCAATAAATATCGATATTTAGCGGCGTTTTTCCCACAAACGT
Found at i:54686 original size:3 final size:3
Alignment explanation
Indices: 54680--54728 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
54670 CATCATCATC
54680 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
54728 A
1 A
54729 AAGCTATATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:57658 original size:42 final size:42
Alignment explanation
Indices: 57591--57972 Score: 443
Period size: 42 Copynumber: 9.2 Consensus size: 42
57581 GTAAAATTGT
* *
57591 GGCGTTTGTAAATACAAACGCCACTAAAGTACGAGTC-ATTAGC
1 GGCGTTTGT-ATTAAAAACGCCACTAAAGTACGAGTCTA-TAGC
* *
57634 AGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGC
1 GGCGTTTGTATTAAAAACGCCACTAAAGTACGAGTCTATAGC
* * *
57676 GACGTTTGCATTAAAAATGCCACTAAAGTACGAGTCTATAGC
1 GGCGTTTGTATTAAAAACGCCACTAAAGTACGAGTCTATAGC
*
57718 GGCGTTTGTA-TAAAAACGCCACTAAAGTAAGAGTC-ATTAGC
1 GGCGTTTGTATTAAAAACGCCACTAAAGTACGAGTCTA-TAGC
* * *
57759 AGCGTTTGTATTCAAAACGCCACAAAAGTACGAGTCTATAGC
1 GGCGTTTGTATTAAAAACGCCACTAAAGTACGAGTCTATAGC
* * * *
57801 GGCGTTTGCATTCAAAACGCCACTAAAGTAAGAGTCTATAAC
1 GGCGTTTGTATTAAAAACGCCACTAAAGTACGAGTCTATAGC
* * *
57843 GGCATTTGTA-TAAAAACGCCACTAAAGTACTAGTTTATAGC
1 GGCGTTTGTATTAAAAACGCCACTAAAGTACGAGTCTATAGC
* * * * * *
57884 GGCGTTTATA-TAAAAATGCTACTAAAGTACGTGTCTTTAGA
1 GGCGTTTGTATTAAAAACGCCACTAAAGTACGAGTCTATAGC
* * * *
57925 GTCGTTTGCATTCAAAACGCCACTAAAGTA-GAGTTTATAGC
1 GGCGTTTGTATTAAAAACGCCACTAAAGTACGAGTCTATAGC
57966 GGCGTTT
1 GGCGTTT
57973 TTGGATACAA
Statistics
Matches: 285, Mismatches: 49, Indels: 12
0.82 0.14 0.03
Matches are distributed among these distances:
40 1 0.00
41 114 0.40
42 160 0.56
43 10 0.04
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (42 bp):
GGCGTTTGTATTAAAAACGCCACTAAAGTACGAGTCTATAGC
Found at i:57766 original size:83 final size:85
Alignment explanation
Indices: 57606--57972 Score: 430
Period size: 83 Copynumber: 4.4 Consensus size: 85
57596 TTGTAAATAC
* * *
57606 AAACGCCACTAAAGTACGAGTC-ATTAGCAGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTC
1 AAACGCCACTAAAGTACGAGTCTA-TAGCGGCGTTTGTATTAAAAACGCCACTAAAGTAAGAGTC
57670 TATAGC-GACGTTTGCATTAA
65 TATAGCAGACGTTTGCATTAA
*
57690 AAATGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTA-TAAAAACGCCACTAAAGTAAGAGTC-
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTAAAAACGCCACTAAAGTAAGAGTCT
* *
57753 ATTAGCAG-CGTTTGTATTCA
66 A-TAGCAGACGTTTGCATTAA
* * *
57773 AAACGCCACAAAAGTACGAGTCTATAGCGGCGTTTGCATTCAAAACGCCACTAAAGTAAGAGTCT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTAAAAACGCCACTAAAGTAAGAGTCT
* * * *
57838 ATAAC-GGCATTTGTA-TAA
66 ATAGCAGACGTTTGCATTAA
* * * * * * *
57856 AAACGCCACTAAAGTACTAGTTTATAGCGGCGTTTATA-TAAAAATGCTACTAAAGTACGTGTCT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTAAAAACGCCACTAAAGTAAGAGTCT
* * *
57920 TTAG-AGTCGTTTGCATTCA
66 ATAGCAGACGTTTGCATTAA
*
57939 AAACGCCACTAAAGTA-GAGTTTATAGCGGCGTTT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTT
57973 TTGGATACAA
Statistics
Matches: 245, Mismatches: 30, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
82 48 0.20
83 126 0.51
84 69 0.28
85 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (85 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTAAAAACGCCACTAAAGTAAGAGTCT
ATAGCAGACGTTTGCATTAA
Found at i:57986 original size:125 final size:124
Alignment explanation
Indices: 57591--57972 Score: 525
Period size: 125 Copynumber: 3.1 Consensus size: 124
57581 GTAAAATTGT
*
57591 GGCGTTTGTAAATACAAACGCCACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCAAAACGCCA
1 GGCGTTTGT--ATAAAAACGCCACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCAAAACGCCA
* *
57656 CTAAAGTACGAGTCTATAGCGACGTTTGCATTAAAAATGCCACTAAAGTACGAGTCTATAGC
64 CTAAAGTACGAGTCTATAGCGACGTTTGCATTCAAAACGCCACTAAAGTA-GAGTCTATAGC
* *
57718 GGCGTTTGTATAAAAACGCCACTAAAGTAAGAGTCATTAGCAGCGTTTGTATTCAAAACGCCACA
1 GGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCAAAACGCCACT
* *
57783 AAAGTACGAGTCTATAGCGGCGTTTGCATTCAAAACGCCACTAAAGTAAGAGTCTATAAC
66 AAAGTACGAGTCTATAGCGACGTTTGCATTCAAAACGCCACTAAAGT-AGAGTCTATAGC
* * * * * * * *
57843 GGCATTTGTATAAAAACGCCACTAAAGTACTAGT-TTATAGCGGCGTTTATA-TAAAAATGCTAC
1 GGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCAT-TAGCAGCGTTTGTATTCAAAACGCCAC
* * * * *
57906 TAAAGTACGTGTCTTTAGAGTCGTTTGCATTCAAAACGCCACTAAAGTAGAGTTTATAGC
65 TAAAGTACGAGTCTATAGCGACGTTTGCATTCAAAACGCCACTAAAGTAGAGTCTATAGC
57966 GGCGTTT
1 GGCGTTT
57973 TTGGATACAA
Statistics
Matches: 229, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
123 16 0.07
124 53 0.23
125 150 0.66
126 1 0.00
127 9 0.04
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (124 bp):
GGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCAAAACGCCACT
AAAGTACGAGTCTATAGCGACGTTTGCATTCAAAACGCCACTAAAGTAGAGTCTATAGC
Found at i:58011 original size:166 final size:166
Alignment explanation
Indices: 57606--57972 Score: 488
Period size: 166 Copynumber: 2.2 Consensus size: 166
57596 TTGTAAATAC
* * * * *
57606 AAACGCCACTAAAGTACGAGTC-ATTAGCAGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTC
1 AAACGCCACAAAAGTACGAGTCTA-TAGCGGCGTTTGCATACAAAACGCCACTAAAGTAAGAGTC
* * * * * *
57670 TATAGCGACGTTTGCATTAAAAATGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAAC
65 TATAACGGCATTTGTA-TAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTATATAAAAAC
*
57735 GCCACTAAAGTAAGAGTCATTAGCAGCGTTTGTATTCA
129 GCCACTAAAGTAAGAGTCATTAGCAGCGTTTGCATTCA
*
57773 AAACGCCACAAAAGTACGAGTCTATAGCGGCGTTTGCATTCAAAACGCCACTAAAGTAAGAGTCT
1 AAACGCCACAAAAGTACGAGTCTATAGCGGCGTTTGCATACAAAACGCCACTAAAGTAAGAGTCT
* * *
57838 ATAACGGCATTTGTATAAAAACGCCACTAAAGTACTAGTTTATAGCGGCGTTTATATAAAAATGC
66 ATAACGGCATTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTATATAAAAACGC
* * * *
57903 TACTAAAGTACGTGTCTTTAG-AGTCGTTTGCATTCA
131 CACTAAAGTAAGAGTCATTAGCAG-CGTTTGCATTCA
* *
57939 AAACGCCACTAAAGTA-GAGTTTATAGCGGCGTTT
1 AAACGCCACAAAAGTACGAGTCTATAGCGGCGTTT
57973 TTGGATACAA
Statistics
Matches: 178, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
165 19 0.11
166 88 0.49
167 70 0.39
168 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (166 bp):
AAACGCCACAAAAGTACGAGTCTATAGCGGCGTTTGCATACAAAACGCCACTAAAGTAAGAGTCT
ATAACGGCATTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTATATAAAAACGC
CACTAAAGTAAGAGTCATTAGCAGCGTTTGCATTCA
Found at i:58592 original size:41 final size:41
Alignment explanation
Indices: 58539--58742 Score: 202
Period size: 41 Copynumber: 5.0 Consensus size: 41
58529 GCGTTTATAC
* * *
58539 AAAAAAATGCCACTATTGATT-ACATTATTGTGGCGTTTGTT
1 AAAAAAACGCCACTATTGATTAACACTATTGCGGCGTTT-TT
*
58580 AAAAAAACGCCACTATTGATTAAAACTATTGCGGCGTTTTT
1 AAAAAAACGCCACTATTGATTAACACTATTGCGGCGTTTTT
** *
58621 GTAAAAACGCCACTATTGATTAACACTATTGCGGCGTTTAT
1 AAAAAAACGCCACTATTGATTAACACTATTGCGGCGTTTTT
** * *
58662 CTAAAAACGCCACTATTTATTATA-AATATTGCGGCG-TTTT
1 AAAAAAACGCCACTATTGATTA-ACACTATTGCGGCGTTTTT
* *
58702 AAGAATAAATGCCACTATATG-TGTAA-TCTATTGCGGCGTTT
1 AA-AA-AAACGCCACTAT-TGAT-TAACACTATTGCGGCGTTT
58743 ATGGTATAAA
Statistics
Matches: 138, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
40 3 0.02
41 92 0.67
42 38 0.28
43 5 0.04
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (41 bp):
AAAAAAACGCCACTATTGATTAACACTATTGCGGCGTTTTT
Found at i:58659 original size:83 final size:81
Alignment explanation
Indices: 58541--58744 Score: 229
Period size: 82 Copynumber: 2.5 Consensus size: 81
58531 GTTTATACAA
* * * *
58541 AAAAATGCCACTATTGATTACATTATTGTGGCGTTTGT-TAAAAAAACGCCACTATTGATTA-AA
1 AAAAACGCCACTATTGATTACACTATTGCGGCGTTTATCT--AAAAACGCCACTATTGATTATAA
58604 ACTATTGCGGCGTTTTTGT
64 A-TATTGCGGCGTTTTTGT
*
58623 AAAAACGCCACTATTGATTAACACTATTGCGGCGTTTATCTAAAAACGCCACTATTTATTATAAA
1 AAAAACGCCACTATTGATT-ACACTATTGCGGCGTTTATCTAAAAACGCCACTATTGATTATAAA
*
58688 TATTGCGGCGTTTTAAG-
65 TATTGCGGCGTTTT-TGT
*
58705 AATAAATGCCACTATATG-TGTA-ATCTATTGCGGCGTTTAT
1 AA-AAACGCCACTAT-TGAT-TACA-CTATTGCGGCGTTTAT
58745 GGTATAAACG
Statistics
Matches: 107, Mismatches: 7, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
82 54 0.50
83 49 0.46
84 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (81 bp):
AAAAACGCCACTATTGATTACACTATTGCGGCGTTTATCTAAAAACGCCACTATTGATTATAAAT
ATTGCGGCGTTTTTGT
Found at i:58669 original size:82 final size:82
Alignment explanation
Indices: 58582--58908 Score: 276
Period size: 82 Copynumber: 3.9 Consensus size: 82
58572 CGTTTGTTAA
*
58582 AAAAACGCCACTATTGATTA-AAACTATTGCGGCGTTTTTGTAAAAACGCCACTAT-TGATTAAC
1 AAAAACGCCACTAAT--TTACAAACTATTGCGGCGTTTTTGTAAAAACGCCACTATATG-TTAAC
*
58645 ACTATTGCGGCGTTTAT-CT
63 ACTATTGCGGCGTTTATGGT
* * * *
58664 AAAAACGCCACT-ATTTATTATAAATATTGCGGCGTTTTAAG-AATAAATGCCACTATATGTGTA
1 AAAAACGCCACTAATTTA-CA-AACTATTGCGGCGTTTT-TGTAA-AAACGCCACTATATGT-TA
*
58727 A-TCTATTGCGGCGTTTATGGT
61 ACACTATTGCGGCGTTTATGGT
* * * ** * *
58748 ATAAACGCCGCTAATTTACCGATTTATTGCGGCGTTTTGGCT-AAAACGCCACTATATGTTAATA
1 AAAAACGCCACTAATTTA-CAAACTATTGCGGCGTTTTTG-TAAAAACGCCACTATATGTTAACA
*
58812 -TATTGCGGCGTTTGTGGT
64 CTATTGCGGCGTTTATGGT
* * * * *
58830 ATAAACGCCGCTAATTTAC-CACTTTATTGCGGCGTTTGTTGTAAAAACGCCGCTATATGTCAAC
1 AAAAACGCCACTAATTTACAAAC--TATTGCGGCGTTT-TTGTAAAAACGCCACTATATGTTAAC
* *
58894 TCTATTGCAGCGTTT
63 ACTATTGCGGCGTTT
58909 TTACAACAAA
Statistics
Matches: 202, Mismatches: 26, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
79 3 0.01
81 3 0.01
82 82 0.41
83 65 0.32
84 44 0.22
85 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (82 bp):
AAAAACGCCACTAATTTACAAACTATTGCGGCGTTTTTGTAAAAACGCCACTATATGTTAACACT
ATTGCGGCGTTTATGGT
Found at i:58836 original size:41 final size:40
Alignment explanation
Indices: 58582--58909 Score: 224
Period size: 42 Copynumber: 7.9 Consensus size: 40
58572 CGTTTGTTAA
* *
58582 AAAAACGCCACTAT-TGATTAAAACTATTGCGGCGTTTTTGT
1 AAAAACGCCACTATATG-TTAATA-TATTGCGGCGTTTTGGT
* *
58623 AAAAACGCCACTAT-TGATTAACACTATTGCGGCGTTTAT-CT
1 AAAAACGCCACTATATG-TTAATA-TATTGCGGCGTTT-TGGT
* * * *
58664 AAAAACGCCACTATTTATTATAAATATTGCGGCGTTTTAAG-
1 AAAAACGCCACTATATGTTA-ATATATTGCGGCGTTTT-GGT
* *
58705 AATAAATGCCACTATATGTGTAATCTATTGCGGCGTTTATGGT
1 AA-AAACGCCACTATATGT-TAATATATTGCGGCGTTT-TGGT
* * *
58748 ATAAACGCCGCTA-AT-TTACCGATTTATTGCGGCGTTTTGGCT
1 AAAAACGCCACTATATGTTA---ATATATTGCGGCGTTTTGG-T
58790 -AAAACGCCACTATATGTTAATATATTGCGGCGTTTGTGGT
1 AAAAACGCCACTATATGTTAATATATTGCGGCGTTT-TGGT
* * * *
58830 ATAAACGCCGCTA-AT-TTACCACTTTATTGCGGCGTTTGTTGT
1 AAAAACGCCACTATATGTTA--A-TATATTGCGGCGTTT-TGGT
* * * *
58872 AAAAACGCCGCTATATGTCAACTCTATTGCAGCGTTTT
1 AAAAACGCCACTATATGTTAA-TATATTGCGGCGTTTT
58910 TACAACAAAC
Statistics
Matches: 239, Mismatches: 26, Indels: 44
0.77 0.08 0.14
Matches are distributed among these distances:
39 5 0.02
40 20 0.08
41 99 0.41
42 104 0.44
43 9 0.04
44 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (40 bp):
AAAAACGCCACTATATGTTAATATATTGCGGCGTTTTGGT
Found at i:58888 original size:166 final size:165
Alignment explanation
Indices: 58606--58908 Score: 350
Period size: 166 Copynumber: 1.8 Consensus size: 165
58596 TGATTAAAAC
*
58606 TATTGCGGCGTTTTTGTAAAAACGCCACTATTGATTAACACTATTGCGGCGTTTATCTAAAAACG
1 TATTGCGGCGTTTTGGTAAAAACGCCACTATTGATTAACACTATTGCGGCGTTTATCTAAAAACG
** * *
58671 CCACTATTTATTATAAATATTGCGGCGTTTTAAGAATAAATGCCACTATATGTGTAA-TCTATTG
66 CCACTATTTACCAT-AATATTGCGGCGTTTTAAGAATAAACGCCACTATATGT-CAACTCTATTG
*
58735 CGGCGTTTATGGTATAAACGCCGCTAATTTACCGATT
129 CAGCGTTTATGGTATAAACGCCGCTAATTTACCGATT
* * * *
58772 TATTGCGGCGTTTTGGCT-AAAACGCCACTATATG-TTAATA-TATTGCGGCGTTTGTGGTATAA
1 TATTGCGGCGTTTTGG-TAAAAACGCCACTAT-TGATTAACACTATTGCGGCGTTTAT-CTAAAA
* * * *
58834 ACGCCGCTAATTTACCACT-TTATTGCGGCGTTTGT-TGTAA-AAACGCCGCTATATGTCAACTC
63 ACGCCACT-ATTTACCA-TAATATTGCGGCGTTT-TAAG-AATAAACGCCACTATATGTCAACTC
58896 TATTGCAGCGTTT
124 TATTGCAGCGTTT
58909 TTACAACAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
165 16 0.14
166 86 0.75
167 12 0.10
168 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (165 bp):
TATTGCGGCGTTTTGGTAAAAACGCCACTATTGATTAACACTATTGCGGCGTTTATCTAAAAACG
CCACTATTTACCATAATATTGCGGCGTTTTAAGAATAAACGCCACTATATGTCAACTCTATTGCA
GCGTTTATGGTATAAACGCCGCTAATTTACCGATT
Found at i:64512 original size:25 final size:26
Alignment explanation
Indices: 64483--64532 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
64473 TTATATATTT
64483 TAAATATTT-TTTATAATTTTTTTAC
1 TAAATATTTATTTATAATTTTTTTAC
* *
64508 TAAATATTTATTTTTTATTTTTTTA
1 TAAATATTTATTTATAATTTTTTTA
64533 AAATTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (26 bp):
TAAATATTTATTTATAATTTTTTTAC
Found at i:66052 original size:3 final size:3
Alignment explanation
Indices: 66044--66076 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
66034 TGAATCACAA
66044 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
66077 GTTTTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:74625 original size:18 final size:18
Alignment explanation
Indices: 74447--74656 Score: 312
Period size: 18 Copynumber: 11.7 Consensus size: 18
74437 AGCCAAAGAC
*
74447 GGGTGCCCAGCCAGGAAT
1 GGGTGCCCAGCCAGGGAT
*
74465 GGGTGCCCAGCCAGGAAT
1 GGGTGCCCAGCCAGGGAT
74483 GGGTGCCCAGCCAGGGAT
1 GGGTGCCCAGCCAGGGAT
*
74501 GGGTGCCCAGCCAGGAAT
1 GGGTGCCCAGCCAGGGAT
74519 GGGTGCCCAGCCAGGGAT
1 GGGTGCCCAGCCAGGGAT
*
74537 GGGTGCCCAGCCAGGAAT
1 GGGTGCCCAGCCAGGGAT
*
74555 GGGTGCTCAGCCAGGGAT
1 GGGTGCCCAGCCAGGGAT
*
74573 GGGTGCTCAGCCAGGGAT
1 GGGTGCCCAGCCAGGGAT
*
74591 GGGTGCTCAGCCAGGGAT
1 GGGTGCCCAGCCAGGGAT
*
74609 GGGTGCCCAGCCTGGGAT
1 GGGTGCCCAGCCAGGGAT
* *
74627 GAGTGCTCAGCCAGGGAT
1 GGGTGCCCAGCCAGGGAT
* *
74645 AGGTGCACAGCC
1 GGGTGCCCAGCC
74657 GATTACTCAC
Statistics
Matches: 178, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 178 1.00
ACGTcount: A:0.19, C:0.26, G:0.41, T:0.13
Consensus pattern (18 bp):
GGGTGCCCAGCCAGGGAT
Done.