Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005556.1 Hibiscus syriacus cultivar Beakdansim tig00012882_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: 127369
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:2345 original size:23 final size:23
Alignment explanation
Indices: 2303--2364 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2293 ATAGGGCAGA
* *
2303 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
*
2325 GGTAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
2348 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
2365 AGGGGAATCG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.21
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:2370 original size:19 final size:19
Alignment explanation
Indices: 2323--2387 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
2313 ACCCCCTTGA
*
2323 AGGGTAACCGATTCCCCCTTT
1 AGGGGAACCGATTCCCCC--T
2344 GAAGGGGAACCGATTCCCCCT
1 --AGGGGAACCGATTCCCCCT
* *
2365 AGGGGAATCGATACCCCCT
1 AGGGGAACCGATTCCCCCT
2384 -GGGG
1 AGGGG
2388 TTCTGGTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
18 4 0.10
19 17 0.44
21 1 0.03
23 17 0.44
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.18
Consensus pattern (19 bp):
AGGGGAACCGATTCCCCCT
Found at i:8406 original size:3 final size:3
Alignment explanation
Indices: 8398--8432 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8388 AATGAATAAT
8398 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8433 TTTAATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8988 original size:14 final size:14
Alignment explanation
Indices: 8969--8995 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8959 GACATCAAAC
8969 ATCAAATTAAAAAT
1 ATCAAATTAAAAAT
8983 ATCAAATTAAAAA
1 ATCAAATTAAAAA
8996 CTTTAATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (14 bp):
ATCAAATTAAAAAT
Found at i:9883 original size:50 final size:51
Alignment explanation
Indices: 9807--9906 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 51
9797 ATCCAAACCG
*
9807 AAACTAAAGATAATATTTTAATTCTATCCTAATTCCTAA-AAAATAATAAT
1 AAACTAAAGATAATATTTTAACTCTATCCTAATTCCTAATAAAATAATAAT
* * *
9857 AAACTGAAGATAATGTTTTAACTCTATCTTAATTCCTAATAAAATAATAA
1 AAACTAAAGATAATATTTTAACTCTATCCTAATTCCTAATAAAATAATAA
9907 ATATAATTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 35 0.78
51 10 0.22
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.36
Consensus pattern (51 bp):
AAACTAAAGATAATATTTTAACTCTATCCTAATTCCTAATAAAATAATAAT
Found at i:16753 original size:75 final size:75
Alignment explanation
Indices: 16630--16781 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
16620 AAGCTAGTCT
16630 AAGACTAAACATTATAAGTATGCCATTATAAATTAAGGATTAAAGAAAATGACTAAATAAATAAT
1 AAGACTAAACATTATAAGTATGCCATTATAAATTAAGGATTAAAGAAAATGACTAAATAAATAAT
16695 CCATAATAAA
66 CCATAATAAA
16705 AAGACTAAACATTATAAGTATGCCATTATAAATTAAGGATTAAAGAAAATGACTAAATAAATAAT
1 AAGACTAAACATTATAAGTATGCCATTATAAATTAAGGATTAAAGAAAATGACTAAATAAATAAT
16770 CCATAATAAA
66 CCATAATAAA
16780 AA
1 AA
16782 TGATATAACC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.26
Consensus pattern (75 bp):
AAGACTAAACATTATAAGTATGCCATTATAAATTAAGGATTAAAGAAAATGACTAAATAAATAAT
CCATAATAAA
Found at i:17669 original size:51 final size:51
Alignment explanation
Indices: 17535--17773 Score: 300
Period size: 51 Copynumber: 4.6 Consensus size: 51
17525 TACATCAATA
* * * *
17535 TAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTTTATTTACTTACACTGTTG
1 TAAGTATGTGTTAAGTGTTACAC----TT-TTTTATTTTATTCACTTACACCGGTG
* * ***
17591 TAAATTTGTGTTAAGTGTTACACTTTTTTATTTTATTCACTTACACATATG
1 TAAGTATGTGTTAAGTGTTACACTTTTTTATTTTATTCACTTACACCGGTG
*
17642 T-AGTATGTGTTAAGTGTTACACTTTTTTGTTTTATTCACTTACACCGGTG
1 TAAGTATGTGTTAAGTGTTACACTTTTTTATTTTATTCACTTACACCGGTG
* *
17692 TAAGTACGTGTTAAGTGTTACACTTGTTTATTTTATTCACTTACACCGGTG
1 TAAGTATGTGTTAAGTGTTACACTTTTTTATTTTATTCACTTACACCGGTG
* *
17743 TAAGTATGTGTTAAGTGCTACATTTTTTTAT
1 TAAGTATGTGTTAAGTGTTACACTTTTTTAT
17774 AGTATGAATT
Statistics
Matches: 162, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
50 44 0.27
51 96 0.59
52 2 0.01
56 20 0.12
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.49
Consensus pattern (51 bp):
TAAGTATGTGTTAAGTGTTACACTTTTTTATTTTATTCACTTACACCGGTG
Found at i:17711 original size:101 final size:102
Alignment explanation
Indices: 17522--17773 Score: 310
Period size: 101 Copynumber: 2.4 Consensus size: 102
17512 AGATGTACAT
* *
17522 ACTTACATCA-ATATAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTTTATTTACTTACAC
1 ACTTACA-CAGATGTAAGTATGTGTTAAGTGCTACAC----TT-TTTTATTTTATTCACTTACAC
* * ** *
17586 TGTTGTAAATTTGTGTTAAGTGTTACACTTTTTTATTTTATTC
60 CGGTGTAAATACGTGTTAAGTGTTACACTTGTTTATTTTATTC
* * *
17629 ACTTACACATATGT-AGTATGTGTTAAGTGTTACACTTTTTTGTTTTATTCACTTACACCGGTGT
1 ACTTACACAGATGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCGGTGT
*
17693 AAGTACGTGTTAAGTGTTACACTTGTTTATTTTATTC
66 AAATACGTGTTAAGTGTTACACTTGTTTATTTTATTC
* * *
17730 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACATTTTTTTAT
1 ACTTACACAGATGTAAGTATGTGTTAAGTGCTACACTTTTTTAT
17774 AGTATGAATT
Statistics
Matches: 127, Mismatches: 16, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
101 67 0.53
102 28 0.22
106 22 0.17
107 10 0.08
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.48
Consensus pattern (102 bp):
ACTTACACAGATGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCGGTGT
AAATACGTGTTAAGTGTTACACTTGTTTATTTTATTC
Found at i:18993 original size:35 final size:35
Alignment explanation
Indices: 18943--19014 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
18933 TTGATATTAT
18943 TTATAATAAATCATGTCACTTGATGAATAAATTTA
1 TTATAATAAATCATGTCACTTGATGAATAAATTTA
* * * *
18978 TTATGATAAGTCATGTCACTTGGTGAATGAATTTA
1 TTATAATAAATCATGTCACTTGATGAATAAATTTA
19013 TT
1 TT
19015 TTTTAGTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (35 bp):
TTATAATAAATCATGTCACTTGATGAATAAATTTA
Found at i:19659 original size:24 final size:24
Alignment explanation
Indices: 19632--19704 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
19622 CGTTCATTTA
19632 CGTTC-GTGAACGTTCGATTATGTT
1 CGTTCGGT-AACGTTCGATTATGTT
* * *
19656 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGATTATGTT
* * *
19680 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGATTATGTT
19704 C
1 C
19705 ATTCATTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 43 0.96
25 2 0.04
ACGTcount: A:0.11, C:0.15, G:0.25, T:0.49
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGATTATGTT
Found at i:19661 original size:14 final size:14
Alignment explanation
Indices: 19642--19697 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
19632 CGTTCGTGAA
*
19642 CGTTCGATTATGTT
1 CGTTCGGTTATGTT
19656 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
19670 CG-T---TTATGTT
1 CGTTCGGTTATGTT
19680 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
19694 CGTT
1 CGTT
19698 TATGTTCATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.09, C:0.14, G:0.25, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:19717 original size:24 final size:24
Alignment explanation
Indices: 19643--19704 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
19633 GTTCGTGAAC
*
19643 GTTCGATTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
19667 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
19691 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
19705 ATTCATTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.10, C:0.13, G:0.24, T:0.53
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGGTTAT
Found at i:20765 original size:16 final size:16
Alignment explanation
Indices: 20740--20796 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
20730 CTAACGTTTA
* *
20740 TGTTCGTTTATATTCG
1 TGTTCATTTATGTTCG
20756 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
*
20772 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
20788 T-TT-ATTTAT
1 TGTTCATTTAT
20797 TAAATGAACG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
14 5 0.14
15 2 0.05
16 30 0.81
ACGTcount: A:0.12, C:0.11, G:0.18, T:0.60
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:26225 original size:23 final size:23
Alignment explanation
Indices: 26199--26259 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
26189 CTCGTATAAA
*
26199 TGTACCTAAGTGCCACGTAGAAT
1 TGTACCAAAGTGCCACGTAGAAT
*
26222 TGTACCAAAGTGTCACGTAGAAT
1 TGTACCAAAGTGCCACGTAGAAT
* *
26245 TGCACCGAAGTGCCA
1 TGTACCAAAGTGCCA
26260 TATAAAATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (23 bp):
TGTACCAAAGTGCCACGTAGAAT
Found at i:29695 original size:23 final size:23
Alignment explanation
Indices: 29664--29718 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
29654 CATATAAATG
*
29664 CACCTAAGTACCACAAAGAATTA
1 CACCGAAGTACCACAAAGAATTA
* ** *
29687 CACCGAAGTACCGCGTAGAATTG
1 CACCGAAGTACCACAAAGAATTA
29710 CACCGAAGT
1 CACCGAAGT
29719 GCCATATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.16
Consensus pattern (23 bp):
CACCGAAGTACCACAAAGAATTA
Found at i:31316 original size:24 final size:23
Alignment explanation
Indices: 31252--31340 Score: 114
Period size: 24 Copynumber: 4.0 Consensus size: 23
31242 TTTCAATTTC
31252 CCCTTAA-AGTGCATCGATGCAT
1 CCCTTAACAGTGCATCGATGCAT
* *
31274 -TC-T-ACAGTGTATCGATGCAT
1 CCCTTAACAGTGCATCGATGCAT
31294 CCCTTAACATGTGCATCGATGCAT
1 CCCTTAACA-GTGCATCGATGCAT
31318 CCCTTAACATGTGCATCGATGCA
1 CCCTTAACA-GTGCATCGATGCA
31341 CTCTTTATAC
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.02
20 15 0.26
21 2 0.03
22 1 0.02
23 3 0.05
24 36 0.62
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (23 bp):
CCCTTAACAGTGCATCGATGCAT
Found at i:33519 original size:89 final size:88
Alignment explanation
Indices: 33351--33628 Score: 387
Period size: 89 Copynumber: 3.1 Consensus size: 88
33341 AAGAACTGCG
* * * *
33351 TCCGTAGGGCTTACCCTAAGCACACAACAAAAGGGATCCAACCTAAGGATATTCCTTAGGGCCTA
1 TCCGTAGGG-TTACCCTAAGCACATAAC-AAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTA
*
33416 TGGCCTACCCAAGGGTATCCTTAGG
64 TGGCCTACCCAAGGGTATCCTTAGA
* *
33441 TCTGTAGGGTTACCCTAAGGACATAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATA
1 TCCGTAGGGTTACCCTAAGCACATAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT-
33506 GGCCTACCCAAGGGTATCCTTAGA
65 GGCCTACCCAAGGGTATCCTTAGA
* * * * *
33530 TCCGTAGGGTTACCTTAAGCACATAGCAAAGGAAACCAACCTAAGAATATGTCTTGGGGCCTATG
1 TCCGTAGGGTTACCCTAAGCACATAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT-
*
33595 GGCCTACCCAAGGATAT-CTTAGA
65 GGCCTACCCAAGGGTATCCTTAGA
*
33618 TCCGTATGGTT
1 TCCGTAGGGTT
33629 TTACCAGCTA
Statistics
Matches: 170, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
88 50 0.29
89 112 0.66
90 8 0.05
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (88 bp):
TCCGTAGGGTTACCCTAAGCACATAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATG
GCCTACCCAAGGGTATCCTTAGA
Found at i:35255 original size:88 final size:88
Alignment explanation
Indices: 35106--35286 Score: 362
Period size: 88 Copynumber: 2.1 Consensus size: 88
35096 AATCCAAGAT
35106 ATTTACTTAGTCTAGGACATAAGGGTATTTTGGTTATTTTGGTGCTCAGTTTTATTCCAATCATT
1 ATTTACTTAGTCTAGGACATAAGGGTATTTTGGTTATTTTGGTGCTCAGTTTTATTCCAATCATT
35171 TCATAGCTTGATGGTATCCAATC
66 TCATAGCTTGATGGTATCCAATC
35194 ATTTACTTAGTCTAGGACATAAGGGTATTTTGGTTATTTTGGTGCTCAGTTTTATTCCAATCATT
1 ATTTACTTAGTCTAGGACATAAGGGTATTTTGGTTATTTTGGTGCTCAGTTTTATTCCAATCATT
35259 TCATAGCTTGATGGTATCCAATC
66 TCATAGCTTGATGGTATCCAATC
35282 ATTTA
1 ATTTA
35287 TGTGCTTGGT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 93 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (88 bp):
ATTTACTTAGTCTAGGACATAAGGGTATTTTGGTTATTTTGGTGCTCAGTTTTATTCCAATCATT
TCATAGCTTGATGGTATCCAATC
Found at i:36300 original size:11 final size:11
Alignment explanation
Indices: 36263--36310 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 11
36253 AATCAACTCC
*
36263 CGGTCAAC-GC
1 CGGTCAACGGT
*
36273 CGGTCAAAGGTT
1 CGGTCAACGG-T
36285 CGGTCAACGGT
1 CGGTCAACGGT
36296 CGGTCAACGGGT
1 CGGTCAAC-GGT
36308 CGG
1 CGG
36311 GTCAGGTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 7 0.22
11 10 0.31
12 15 0.47
ACGTcount: A:0.19, C:0.27, G:0.38, T:0.17
Consensus pattern (11 bp):
CGGTCAACGGT
Found at i:36310 original size:23 final size:22
Alignment explanation
Indices: 36263--36310 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
36253 AATCAACTCC
*
36263 CGGTCAACGCCGGTCAAAGGTT
1 CGGTCAACGCCGGTCAAAGGGT
* *
36285 CGGTCAACGGTCGGTCAACGGGT
1 CGGTCAAC-GCCGGTCAAAGGGT
36308 CGG
1 CGG
36311 GTCAGGTCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.19, C:0.27, G:0.38, T:0.17
Consensus pattern (22 bp):
CGGTCAACGCCGGTCAAAGGGT
Found at i:41069 original size:30 final size:31
Alignment explanation
Indices: 41029--41092 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
41019 CAAATTGATT
*
41029 ACTAATATTATCGATTTCTAAC-AAATGGTC
1 ACTAAAATTATCGATTTCTAACAAAATGGTC
*
41059 ACTAAAATTATCGATTTGTAACAAAATGGTC
1 ACTAAAATTATCGATTTCTAACAAAATGGTC
41090 ACT
1 ACT
41093 TTACTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (31 bp):
ACTAAAATTATCGATTTCTAACAAAATGGTC
Found at i:45278 original size:29 final size:29
Alignment explanation
Indices: 45257--45318 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
45247 TTTGTTATTT
45257 TTTTACTTTCT-TTTGTTATTTTCTTTTTC
1 TTTT-CTTTCTCTTTGTTATTTTCTTTTTC
* * *
45286 TTTTCTTTTTCTTTGTTATATTATTTTCTC
1 TTTTCTTTCTCTTTGTTATTTTCTTTT-TC
45316 TTT
1 TTT
45319 ATTCTATCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.18
29 18 0.64
30 5 0.18
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (29 bp):
TTTTCTTTCTCTTTGTTATTTTCTTTTTC
Found at i:45289 original size:11 final size:11
Alignment explanation
Indices: 45275--45299 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45265 TCTTTTGTTA
45275 TTTTCTTTTTC
1 TTTTCTTTTTC
45286 TTTTCTTTTTC
1 TTTTCTTTTTC
45297 TTT
1 TTT
45300 GTTATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:46274 original size:12 final size:12
Alignment explanation
Indices: 46257--46281 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46247 ATCTTCATTG
46257 TTTTTCTTTTAT
1 TTTTTCTTTTAT
46269 TTTTTCTTTTAT
1 TTTTTCTTTTAT
46281 T
1 T
46282 ATTATTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTCTTTTAT
Found at i:47836 original size:12 final size:12
Alignment explanation
Indices: 47816--47848 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
47806 CATGTTTTAT
*
47816 TCTTATTTCTCA
1 TCTTGTTTCTCA
47828 TCTTGTTTCTCA
1 TCTTGTTTCTCA
47840 TCTTGTTTC
1 TCTTGTTTC
47849 GTTCATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.24, G:0.06, T:0.61
Consensus pattern (12 bp):
TCTTGTTTCTCA
Found at i:48048 original size:29 final size:29
Alignment explanation
Indices: 48005--48128 Score: 162
Period size: 29 Copynumber: 4.3 Consensus size: 29
47995 AAGTCCTTCA
* *
48005 ACTATTCAAAATTACAAAACGATCACTTG
1 ACTATTCAAAATTACAAAATGATCACTCG
48034 ACTATT-AAAAGTTACAAAATGATCACTCG
1 ACTATTCAAAA-TTACAAAATGATCACTCG
* *
48063 ACTATTCAGAATTACAAAATGATCACTAG
1 ACTATTCAAAATTACAAAATGATCACTCG
* *
48092 ACTATT-AAAAGGTGCAAAATGATCACTCG
1 ACTATTCAAAA-TTACAAAATGATCACTCG
48121 ACTATTCA
1 ACTATTCA
48129 TTATGTTCCA
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
28 7 0.08
29 72 0.87
30 4 0.05
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (29 bp):
ACTATTCAAAATTACAAAATGATCACTCG
Found at i:48095 original size:58 final size:58
Alignment explanation
Indices: 48005--48128 Score: 203
Period size: 58 Copynumber: 2.1 Consensus size: 58
47995 AAGTCCTTCA
* *
48005 ACTATTCAAAATTACAAAACGATCACTTGACTATTAAAAGTTACAAAATGATCACTCG
1 ACTATTCAAAATTACAAAACGATCACTAGACTATTAAAAGGTACAAAATGATCACTCG
* * *
48063 ACTATTCAGAATTACAAAATGATCACTAGACTATTAAAAGGTGCAAAATGATCACTCG
1 ACTATTCAAAATTACAAAACGATCACTAGACTATTAAAAGGTACAAAATGATCACTCG
48121 ACTATTCA
1 ACTATTCA
48129 TTATGTTCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (58 bp):
ACTATTCAAAATTACAAAACGATCACTAGACTATTAAAAGGTACAAAATGATCACTCG
Found at i:50964 original size:2 final size:2
Alignment explanation
Indices: 50957--50990 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
50947 TGTTTCTTAA
50957 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
50991 TAGTTCTTTG
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:53325 original size:66 final size:65
Alignment explanation
Indices: 53169--53374 Score: 272
Period size: 65 Copynumber: 3.2 Consensus size: 65
53159 ATCACTTATA
* * *
53169 TGACTCATGTACCTTTATGGTGCAT-AAGGTGAAGTGATAATTGAATACTGTACA-AATCACACA
1 TGACTCATGTACCTTTATGGTGCATGAA-GTGGAGTGATAATTGAATACCGTACATAA-CACTCA
*
53232 TA
64 TG
* *
53234 TGACTCATGTACCTTTGTGGTGCATGAAATGGAGTGATAATTGAATACCGTACATAACACTCATT
1 TGACTCATGTACCTTTATGGTGCATGAAGTGGAGTGATAATTGAATACCGTACATAACACTCA-T
53299 G
65 G
* * * * *
53300 TGACTCATGTACTTTTATGGTGCATGAGGTGGAGTGATAATTGAATATCGTACATATCACTTATG
1 TGACTCATGTACCTTTATGGTGCATGAAGTGGAGTGATAATTGAATACCGTACATAACACTCATG
53365 TGACTCATGT
1 TGACTCATGT
53375 GACTTATGTA
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
65 64 0.51
66 61 0.49
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (65 bp):
TGACTCATGTACCTTTATGGTGCATGAAGTGGAGTGATAATTGAATACCGTACATAACACTCATG
Found at i:54336 original size:65 final size:65
Alignment explanation
Indices: 54248--54504 Score: 291
Period size: 65 Copynumber: 3.9 Consensus size: 65
54238 GAGTAATTGC
** * * *
54248 TGAATATAATACAGATCACTCATATGACTCATGTACTTTTGTGGTGCATGAGGTGGAGTTATAAT
1 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
* **
54313 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGCGCATGAAATGGAGTGATAAT
1 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
** * * * *
54378 TGAATACCGTACAAAACACTCATGTGACTCATGTACCTTTATGGTGCATGAGGTGGACTGATAAT
1 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
**** ** * *
54443 TGAATATTGTTTTGATCACTCA-ATGAGACTTGTGTATCTTTGTGGTGCATAAGGTGGAGTGA
1 TGAATATTGTACAAATCACTCATAT--GACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGA
54505 CTATATGATG
Statistics
Matches: 159, Mismatches: 31, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
64 1 0.01
65 128 0.81
66 30 0.19
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (65 bp):
TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
Found at i:55490 original size:65 final size:65
Alignment explanation
Indices: 55274--55478 Score: 275
Period size: 65 Copynumber: 3.2 Consensus size: 65
55264 GAGTAATTGC
** * * *
55274 TGAATATAATACAGATCACTCATATGACTCATGTACTTTTGTGGTGCATGAGGTGGAGTTATAAT
1 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
* * **
55339 TGAATATTGCACAAATCACTCATATGACTCATGTACCTTTGTGGCGCATGAAATGGAGTGATAAT
1 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
** * * * *
55404 TGAATACCGTACAAAACACTCATGTGACTCATGTACCTTTATGGTGCATGAGGTGGACTGATAAT
1 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
55469 TGAATATTGT
1 TGAATATTGT
55479 TTTGATCACT
Statistics
Matches: 119, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 119 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (65 bp):
TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
Found at i:56392 original size:65 final size:65
Alignment explanation
Indices: 56302--56558 Score: 291
Period size: 65 Copynumber: 3.9 Consensus size: 65
56292 GAGTAATTGC
** * *
56302 TGAATATAATACAGATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTTATAAT
1 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
* **
56367 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGCGCATGAAATGGAGTGATAAT
1 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
** * * * * *
56432 TGAATACCGTACAAAACACTCATGTGACTCATGTACCTTTATGATGCATGAGGTGGACTGATAAT
1 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
**** ** * *
56497 TGAATATTGTTTTGATCACTCA-ATGAGACTTGTGTATCTTTGTGGTGCATAAGGTGGAGTGA
1 TGAATATTGTACAAATCACTCATAT--GACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGA
56559 CTATATGATG
Statistics
Matches: 158, Mismatches: 32, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
64 1 0.01
65 128 0.81
66 29 0.18
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (65 bp):
TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
Found at i:57545 original size:65 final size:65
Alignment explanation
Indices: 57329--57533 Score: 284
Period size: 65 Copynumber: 3.2 Consensus size: 65
57319 GAGTAATTGC
** * *
57329 TGAATATAATACAGATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTTATAAT
1 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
* **
57394 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGCGCATGAAATGGAGTGATAAT
1 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
** * * * * *
57459 TGAATACCGTACAAAACACTCATGTGACTCATGTACCTTTATGATGCATGAGGTGGACTGATAAT
1 TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
57524 TGAATATTGT
1 TGAATATTGT
57534 TTTGATCACT
Statistics
Matches: 121, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 121 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (65 bp):
TGAATATTGTACAAATCACTCATATGACTCATGTACCTTTGTGGTGCATGAGGTGGAGTGATAAT
Found at i:57821 original size:23 final size:22
Alignment explanation
Indices: 57770--57823 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
57760 ACAATATAAG
* *
57770 ATATAAAACAATATAAGAGAAA
1 ATATAAGACAAGATAAGAGAAA
57792 ATAATAAGACAAGA-AAGAGAAACA
1 AT-ATAAGACAAGATAAGAG-AA-A
57816 ATATAAGA
1 ATATAAGA
57824 AAAGGAACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 7 0.26
23 17 0.63
24 3 0.11
ACGTcount: A:0.67, C:0.06, G:0.13, T:0.15
Consensus pattern (22 bp):
ATATAAGACAAGATAAGAGAAA
Found at i:63379 original size:8 final size:8
Alignment explanation
Indices: 63366--63399 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
63356 GAATGAGAAT
63366 GAGAATAA
1 GAGAATAA
63374 GAGAATAA
1 GAGAATAA
63382 GAGAATAA
1 GAGAATAA
*
63390 GAGAAAAA
1 GAGAATAA
63398 GA
1 GA
63400 TACCCACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (8 bp):
GAGAATAA
Found at i:64954 original size:30 final size:30
Alignment explanation
Indices: 64918--64977 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
64908 CCACCACCTA
64918 CACTAAGTATCATTGCACACTATAGTGTTG
1 CACTAAGTATCATTGCACACTATAGTGTTG
* *
64948 CACTAAGTGTCCTTGCACACTATAGTGTTG
1 CACTAAGTATCATTGCACACTATAGTGTTG
64978 AAACCTGCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (30 bp):
CACTAAGTATCATTGCACACTATAGTGTTG
Found at i:67627 original size:30 final size:30
Alignment explanation
Indices: 67591--67657 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
67581 CAAAACACCT
* * *
67591 AACTTTTGGAAATTGCACTTTTGGTCCCCA
1 AACTTTTGAAAATTACACTTTTGGTACCCA
* *
67621 AACTTTTGAAAATTACCCTTTTGGTACCTA
1 AACTTTTGAAAATTACACTTTTGGTACCCA
67651 AACTTTT
1 AACTTTT
67658 CCAAACTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (30 bp):
AACTTTTGAAAATTACACTTTTGGTACCCA
Found at i:68618 original size:23 final size:23
Alignment explanation
Indices: 68588--68651 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
68578 TACTTAGATG
*
68588 CTGAATCATTCAGCACTGTTTTA
1 CTGAATCAGTCAGCACTGTTTTA
* *
68611 CTGAATCAGTCAACACTGTTTTG
1 CTGAATCAGTCAGCACTGTTTTA
68634 CTGAATCAGTCAGCACTG
1 CTGAATCAGTCAGCACTG
68652 AATCATTCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (23 bp):
CTGAATCAGTCAGCACTGTTTTA
Found at i:69704 original size:2 final size:2
Alignment explanation
Indices: 69697--69723 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
69687 AAGTTTTGAC
69697 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
69724 CATAGATCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:76978 original size:27 final size:25
Alignment explanation
Indices: 76924--76986 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
76914 CGAGATATAA
*
76924 TTATATATAATATATTTAAAATATT
1 TTATATATAATATATTTAAAATAGT
*
76949 TTATATATAATATGATTTAAATTAAGT
1 TTATATATAATAT-ATTTAAAAT-AGT
*
76976 TTATCTATAAT
1 TTATATATAAT
76987 TTAAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 13 0.39
26 8 0.24
27 12 0.36
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (25 bp):
TTATATATAATATATTTAAAATAGT
Found at i:77791 original size:21 final size:22
Alignment explanation
Indices: 77751--77791 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
77741 AGCAATGGCC
* *
77751 ATATTTGTTTGGGTATAAATTT
1 ATATTAGTTTGCGTATAAATTT
77773 ATATTAGTTTGCG-ATAAAT
1 ATATTAGTTTGCGTATAAAT
77792 ATGATCTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (22 bp):
ATATTAGTTTGCGTATAAATTT
Found at i:78448 original size:20 final size:20
Alignment explanation
Indices: 78423--78471 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
78413 GGTTACCTGT
78423 GCTGCATTCTCTAGCACATA
1 GCTGCATTCTCTAGCACATA
78443 GCTGCATTCTCTAGCACATA
1 GCTGCATTCTCTAGCACATA
*
78463 GCTTCATTC
1 GCTGCATTC
78472 ACAAGGTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (20 bp):
GCTGCATTCTCTAGCACATA
Found at i:85466 original size:2 final size:2
Alignment explanation
Indices: 85459--85493 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
85449 TAAATATCAT
85459 TA 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 TA T
85494 GAATCCACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95621 original size:15 final size:16
Alignment explanation
Indices: 95600--95642 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
95590 CTGGAAGTTT
95600 CGGGTACCCGGAAAT-
1 CGGGTACCCGGAAATC
* *
95615 TGGGTACCCGTAAATC
1 CGGGTACCCGGAAATC
95631 CGGGTACCCGGA
1 CGGGTACCCGGA
95643 TTTGCACACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.23, C:0.28, G:0.33, T:0.16
Consensus pattern (16 bp):
CGGGTACCCGGAAATC
Found at i:95825 original size:18 final size:19
Alignment explanation
Indices: 95790--95826 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
95780 CACGGAATGT
95790 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
95810 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
95827 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:98073 original size:20 final size:20
Alignment explanation
Indices: 98037--98074 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
98027 TACTGAGTTT
*
98037 GTATATAAATAATTTTTTGA
1 GTATATAAATAAATTTTTGA
98057 GTATAT-AATGAAATTTTT
1 GTATATAAAT-AAATTTTT
98075 TACATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (20 bp):
GTATATAAATAAATTTTTGA
Found at i:99220 original size:19 final size:19
Alignment explanation
Indices: 99198--99234 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
99188 CAAGTATTGA
99198 TACTTTCTAGAGGTTTCAG
1 TACTTTCTAGAGGTTTCAG
*
99217 TACTTTCTAGGGGTTTCA
1 TACTTTCTAGAGGTTTCA
99235 AAATTATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (19 bp):
TACTTTCTAGAGGTTTCAG
Found at i:104072 original size:23 final size:23
Alignment explanation
Indices: 104028--104072 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
104018 AACATATTAG
**
104028 GTAGCGCTTATATAATGTAATAA
1 GTAGCGCTTATATAATAAAATAA
*
104051 GTAGTGCTTATATAATAAAATA
1 GTAGCGCTTATATAATAAAATA
104073 TGCATTTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.36
Consensus pattern (23 bp):
GTAGCGCTTATATAATAAAATAA
Found at i:104134 original size:87 final size:86
Alignment explanation
Indices: 103984--104150 Score: 298
Period size: 87 Copynumber: 1.9 Consensus size: 86
103974 AGGTTATGTT
103984 ATATCATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAAT
1 ATATCATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAAT
*
104049 AAGTAGTGCTTATATAATAAA
66 AAGTAGCGCTTATATAATAAA
*
104070 ATATGCATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAA
1 ATAT-CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAA
*
104135 TAGGTAGCGCTTATAT
65 TAAGTAGCGCTTATAT
104151 TGACATATTT
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
86 4 0.05
87 73 0.95
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (86 bp):
ATATCATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAAT
AAGTAGCGCTTATATAATAAA
Found at i:104845 original size:182 final size:181
Alignment explanation
Indices: 104533--105208 Score: 975
Period size: 182 Copynumber: 3.7 Consensus size: 181
104523 TGTTGACATA
* * * *
104533 TTTTCTCATATTTTTAGCTTTTATATTGTTATCGATCGATACATTTTCATAAAGTGTCGACACTT
1 TTTT-TCATATTTTTAGCTGTAATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
* * *
104598 TTTAGACGCTATAACTTCTTCTCTTTTAAGTTTAGAAAGTGTCGATACTTATATTAAATTATCGA
65 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* * *
104663 CACTTTCAACATATCTGGTAGCCTTTTATCGGTTTTGTCATTTTGAGACCGG
130 CACTTGCAACATATCTGGTAGCATTTTACCGGTTTTGTCATTTTGAGACCGG
* * *
104715 TTTTATCATATTTTTA-CATGTTATATTGTTATGGATCGATACATTTT-TTAAAAATATCGACAC
1 TTTT-TCATATTTTTAGC-TGTAATATTGTTATGGATCGATACATTTTCAT-AAAGTATCGACAC
* *
104778 TTTTTAGGCGCTATAACTTATTCTCTTTTAAATTCAGAAATTGTCGATACTTATATTAAATTATC
63 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATC
*
104843 GACACTTGCAACATATCTGGTAGCATTTTACCGGTTTTGTCATTTTGAGACCAG
128 GACACTTGCAACATATCTGGTAGCATTTTACCGGTTTTGTCATTTTGAGACCGG
* * *
104897 TTTTGTCATATTTTTACCTATAATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACTT
1 TTTT-TCATATTTTTAGCTGTAATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
* **
104962 TTTAGGCGCTATAACTTCTTTTCTTTTAAATTCAGAAAGCATCGATACTTATATTAAATTATCGA
65 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* * * *
105027 CACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGAGACAGG
130 CACTTGCAACATATCTGGTAGCATTTTACCGGTTTTGTCATTTTGAGACCGG
* * **
105079 TTTTTCATTTTTTTATCTGTAATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTT
1 TTTTTCATATTTTTAGCTGTAATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTT
* * *
105144 TTAGGCGCTATAACTTCTTCTCTTTTTATTTC---AAGTGTCGATACTTATATTAAAGTATCGAC
66 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGAC
105206 ACT
131 ACT
105209 GTTAATTTAC
Statistics
Matches: 447, Mismatches: 43, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
178 30 0.07
181 86 0.19
182 329 0.74
183 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (181 bp):
TTTTTCATATTTTTAGCTGTAATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTT
TTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGAC
ACTTGCAACATATCTGGTAGCATTTTACCGGTTTTGTCATTTTGAGACCGG
Found at i:108709 original size:21 final size:22
Alignment explanation
Indices: 108675--108716 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
108665 AAACACGCGT
*
108675 AATTTGAAAAAGTGTTGACACG
1 AATTTGAAAAAGTGTCGACACG
*
108697 AATTT-AACAAGTGTCGACAC
1 AATTTGAAAAAGTGTCGACAC
108717 ATTATGTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (22 bp):
AATTTGAAAAAGTGTCGACACG
Found at i:109171 original size:201 final size:198
Alignment explanation
Indices: 108705--109247 Score: 653
Period size: 201 Copynumber: 2.7 Consensus size: 198
108695 CGAATTTAAC
* * * * ** *
108705 AAGTGTCGACACATTATGTTGACCTATTTTCT-ATTTACACCTATAAATTTAAACAGGTTACATT
1 AAGTGTCGATACATTATGTAGACCTATTTTCTCA-TAAAACCGGTAAATTTAAACCGGTTACATT
*
108769 GTAAATTAACCTATTACATTATAA-TTTCTGGTCT-TGATGTATTTGGGGTCGATACTTTTTATA
65 GTAAATTAACCTATTACATTATAATTTTC-GGTATCT-ATGTATTTGGGGTCGATAC-TTTTATA
* * ** * * *
108832 AATGTATCGAAACTTTATGCGTGGACATCGGTTGGCATTAATTATGGACATAAGTATCGACACAA
127 AATGTATCGAAACTTTAAGCGTGCACATAAGTTGGAATTAATTATGGAAAAAAGTATCGACACAA
*
108897 ATGTAAA
192 ATGAAAA
* * * * *
108904 AAGTATCGATATATTATGTAGACCTATTTGCTCGTAAAACCGGTAAATTTAAACCGGGTACATTG
1 AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTG
* * *
108969 TAAAGTGACCTATTACATTATAATTTTCGATATCTATGTATTTGGGGTCGATACTTTTAATAAAT
66 TAAATTAACCTATTACATTATAATTTTCGGTATCTATGTATTTGGGGTCGATACTTTT-ATAAAT
* * *
109034 GTATCGACACTTTAAGCGTGCACATAATTTGGGAATTCATTATGGATAAAAAGTATCGACACAAA
130 GTATCGAAACTTTAAGCGTGCACATAAGTT-GGAATTAATTATGGA-AAAAAGTATCGACACAAA
109099 T-AAATA
193 TGAAA-A
109105 AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTG
1 AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTG
* * * * * * * * *
109170 TAAATTTACATATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAAT
66 TAAATTAACCTATTACATTATAATTTTCGGTATCTATGTATTTGGGGTCGATACTT-TTATAAAT
109235 GTATCGAAACTTT
130 GTATCGAAACTTT
109248 GTTGTGCACT
Statistics
Matches: 292, Mismatches: 44, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
198 4 0.01
199 125 0.43
200 20 0.07
201 141 0.48
202 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (198 bp):
AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTG
TAAATTAACCTATTACATTATAATTTTCGGTATCTATGTATTTGGGGTCGATACTTTTATAAATG
TATCGAAACTTTAAGCGTGCACATAAGTTGGAATTAATTATGGAAAAAAGTATCGACACAAATGA
AAA
Found at i:109409 original size:200 final size:197
Alignment explanation
Indices: 108751--110090 Score: 1243
Period size: 200 Copynumber: 6.7 Consensus size: 197
108741 ACACCTATAA
* * * * * *
108751 ATTTAAACAGGTTACATTGTAAATTAACCTATTACATTATAATTTCTGG-TCTT-GATGTATTTG
1 ATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAA-TTATGGAT-TTCGATGTTTTTG
* * * * * * * * * * *
108814 GGGTCGATACTTTTTATAAATGTATCGAAACTTTATGCGTGGACATCGG-TTGGCATTA-ATTAT
64 GGATCGACACTTCTTATAAATGTATCGACACTTT-T-TGTGCAC-TTGGTTTTGAAATACATTCT
* *** * * *** * * * *
108877 GGACATAAGTATCGACACAAATGTAAAAAGTATCGATA-TATTATGTAGACCTATTTGCTCGTAA
126 GGACAAAAGTATCGACACTTGTTTGATTTGTGTCGATACT-TTATGTACACCTATTTTCTCAT-A
*
108941 AACCGGTAA
189 AACCGGTAT
* * * * * * * * * *
108950 ATTTAAACCGGGTACATTGTAAAGTGACCTATTACATTATAATTTTCGATATCTATGTATTTGGG
1 ATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGATTTCGATGTTTTTGGG
* * ** * ** * * * *
109015 GTCGATACTT-TTAATAAATGTATCGACACTTTAAGCGTGCACATAATTTGGGAATTCATTATGG
66 ATCGACACTTCTT-ATAAATGTATCGACACTTT--TTGTGCACTTGGTTTTGAAATACATTCTGG
* *** ** ** * *
109079 ATAAAAAGTATCGACAC-AAATAAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAA
128 A-CAAAAGTATCGACACTTGTTTGAT-TTGTGTCGATACTTTATGTACACCTATTTTCTCAT-AA
*
109143 ACCGGTAA
190 ACCGGTAT
* * * *
109151 ATTTAAACCGGTTACATTGTAAATTTACATATTACATTATAATTATGGGTTTCGATGTTTTTGGG
1 ATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGATTTCGATGTTTTTGGG
* * * *
109216 ATCGACACTTGTTATAAATGTATCGAAACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGA
66 ATCGACACTTCTTATAAATGTATCGACACTTT-TTGTGCACTTGG-TTTTGAAATACATTCTGGA
* * * * *
109281 CAAAACGTATCGACACTTGTTAGATCTGTGTCGATACTTTATGTATACATGTTTTCTCATAAACC
129 CAAAA-GTATCGACACTTGTTTGATTTGTGTCGATACTTTATGTACACCTATTTTCTCATAAACC
109346 GGTAT
193 GGTAT
* *
109351 ATTTAGACCGGTTACATTGTTAATTTACCTATTACATTAT-ATCTATGTATTTCGATGTTTTTAG
1 ATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAAT-TATGGATTTCGATGTTTTTGG
* * * *
109415 TATCAACACTTCTTATAAATGTATCGACACGTTTTAGTGCAATTGGTTTTGAAATACATTCTGGA
65 GATCGACACTTCTTATAAATGTATCGACAC-TTTTTGTGCACTTGGTTTTGAAATACATTCTGGA
* * *
109480 CCAAAAGTATCGACTCTTGTTTTATTTGTGTCGATACTTT-TTTACACCTATTTTCTCATAAACC
129 -CAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTATGTACACCTATTTTCTCATAAACC
109544 GGTAT
193 GGTAT
* *
109549 ATTTAGACCGGTTACATTGTTAATTTACCTATTATATTATAATT-TGGGTTTCGATGTTTTTGGG
1 ATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGATTTCGATGTTTTTGGG
* * *
109613 ATCGACACTTCTTATAAATGTATCGACACGTTTAGTGCAATTGGTTTTGAAATACATTCTGGACC
66 ATCGACACTTCTTATAAATGTATCGACACTTTTTGTGCACTTGGTTTTGAAATACATTCTGGA-C
* * * * **
109678 AAAAGTATCGACACTTGTTTTATTTGTGTCGATA-TTTTTGTACACCTGTTTTCTCAAAAATTGG
130 AAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTATGTACACCTATTTTCTCATAAACCGG
109742 TAT
195 TAT
* * * *
109745 ATTTAGAACAGTTAAATTGTTAATTTACTTATTAC-TTCATAATTATGGATTTCGATGTTTTTGG
1 ATTTAGACCGGTTACATTGTTAATTTACCTATTACATT-ATAATTATGGATTTCGATGTTTTTGG
* * **
109809 GATC-ACCACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACGCTG
65 GATCGA-CACTTCTTATAAATGTATCGACACTTT-TTGTGCACTTGG-TTTTGAAATACATTCTG
* * * *
109873 GACAAAAAGTATCGACACTT-ATTGTATTTGTGTCGATACTTTATGTATACCTATTTTCTTAAAA
127 GAC-AAAAGTATCGACACTTGTTTG-ATTTGTGTCGATACTTTATGTACACCTATTTTCTCATAA
109937 ACCGGTAT
190 ACCGGTAT
* * * * *
109945 ATTTAGGCCGGTTACATTGTTATTTTACCTATTACATTAT-ATCTATGTATTTTGATGTTTTTAG
1 ATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAAT-TATGGATTTCGATGTTTTTGG
* * * *
110009 TATCGACACTTCTTATAAATGTATCGACAATTTTTTCGTGCACTTGGTTTGGAAATACATTATGG
65 GATCGACACTTCTTATAAATGTATCGAC-ACTTTTT-GTGCACTTGGTTTTGAAATACATTCTGG
*
110074 ACAACATGTATCGACAC
128 ACAA-AAGTATCGACAC
110091 GAATGAATAA
Statistics
Matches: 970, Mismatches: 139, Indels: 63
0.83 0.12 0.05
Matches are distributed among these distances:
195 5 0.01
196 129 0.13
197 91 0.09
198 85 0.09
199 190 0.20
200 257 0.26
201 207 0.21
202 6 0.01
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (197 bp):
ATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGATTTCGATGTTTTTGGG
ATCGACACTTCTTATAAATGTATCGACACTTTTTGTGCACTTGGTTTTGAAATACATTCTGGACA
AAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTATGTACACCTATTTTCTCATAAACCGGT
AT
Found at i:109697 original size:196 final size:197
Alignment explanation
Indices: 108920--110090 Score: 1244
Period size: 200 Copynumber: 5.9 Consensus size: 197
108910 CGATATATTA
* * * * * * * * *
108920 TGTAGACCTATTTGCTCGTAAAACCGGTAAATTTAAACCGGGTACATTGTAAAGTGACCTATTAC
1 TGTACACCTATTTTCTCAT-AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAC
* * * * * * * *
108985 ATTATAATTTTCGATATCTATGTATTTGGGGTCGATACTT-TTAATAAATGTATCGACACTTTAA
65 ATTATAATTATGGATTTCGATGTTTTTGGGATCGACACTTCTT-ATAAATGTATCGACACTTTTA
* ** * * * * ** *** ** **
109049 GCGTGCACATAATTTGGGAATTCATTATGGATAAAAAGTATCGACAC-AAATAAATAAAGTGTCG
129 --GTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTAT-TTGTGTCG
*
109113 ATACATTA
191 ATAC-TTT
* * * * *
109121 TGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAATTTACATATTAC
1 TGTACACCTATTTTCTCAT-AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAC
* * * *
109186 ATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAACTTTGTT
65 ATTATAATTATGGATTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTT-TA
* * ** *
109251 GTGCACTTGGTTTTTAAAATACACTCTGGA-CAAAACGTATCGACACTTGTTAGATCTGTGTCGA
129 GTGCACTTGG-TTTTGAAATACATTCTGGACCAAAA-GTATCGACACTTGTTTTATTTGTGTCGA
109315 TACTTT
192 TACTTT
* * *
109321 ATGTATACATGTTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAC
1 -TGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAC
* * * *
109386 ATTAT-ATCTATGTATTTCGATGTTTTTAGTATCAACACTTCTTATAAATGTATCGACACGTTTT
65 ATTATAAT-TATGGATTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACAC-TTTT
* *
109450 AGTGCAATTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACTCTTGTTTTATTTGTGTCGAT
128 AGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGAT
109515 ACTTT
193 ACTTT
* *
109520 TTTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTATA
1 TGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACA
* *
109585 TTATAATT-TGGGTTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACGTTTAGT
66 TTATAATTATGGATTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTAGT
* *
109649 GCAATTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATATT
131 GCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACT
109714 TT
196 TT
* * ** * * * *
109716 TGTACACCTGTTTTCTCAAAAATTGGTATATTTAGAACAGTTAAATTGTTAATTTACTTATTAC-
1 TGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACA
*
109780 TTCATAATTATGGATTTCGATGTTTTTGGGATC-ACCACTTGTTATAAATGTATCGACACTTTGT
66 TT-ATAATTATGGATTTCGATGTTTTTGGGATCGA-CACTTCTTATAAATGTATCGACACTTT-T
* * ** * * *
109844 TGTGCACTTGGTTTTTAAAATACACGCTGGACAAAAAGTATCGACACTTATTGTATTTGTGTCGA
128 AGTGCACTTGG-TTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGA
109909 TACTTT
192 TACTTT
* * * * *
109915 ATGTATACCTATTTTCTTAAAAACCGGTATATTTAGGCCGGTTACATTGTTATTTTACCTATTAC
1 -TGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAC
* * * * *
109980 ATTAT-ATCTATGTATTTTGATGTTTTTAGTATCGACACTTCTTATAAATGTATCGACAATTTTT
65 ATTATAAT-TATGGATTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGAC-A-CTTT
* * * *
110044 TCGTGCACTTGGTTTGGAAATACATTATGGA-CAACATGTATCGACAC
127 TAGTGCACTTGGTTTTGAAATACATTCTGGACCAA-AAGTATCGACAC
110091 GAATGAATAA
Statistics
Matches: 832, Mismatches: 116, Indels: 45
0.84 0.12 0.05
Matches are distributed among these distances:
195 2 0.00
196 132 0.16
197 91 0.11
198 75 0.09
199 107 0.13
200 240 0.29
201 176 0.21
202 9 0.01
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (197 bp):
TGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACA
TTATAATTATGGATTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTAGT
GCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACT
TT
Found at i:110302 original size:24 final size:24
Alignment explanation
Indices: 110275--110321 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
110265 ATTTACATTT
110275 AAATTTAAACTCAAACTCAAATTG
1 AAATTTAAACTCAAACTCAAATTG
* *
110299 AAATTTAAATTCAAACTCTAATT
1 AAATTTAAACTCAAACTCAAATT
110322 ATAAATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (24 bp):
AAATTTAAACTCAAACTCAAATTG
Found at i:112762 original size:15 final size:15
Alignment explanation
Indices: 112744--112787 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
112734 AGAAGGTTGT
112744 GGTTGAGAAGAGCTG
1 GGTTGAGAAGAGCTG
* *
112759 GGTTGGGAAGAGGTG
1 GGTTGAGAAGAGCTG
112774 GGTTGAGAAGAGCT
1 GGTTGAGAAGAGCT
112788 TTGAGAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.05, G:0.50, T:0.20
Consensus pattern (15 bp):
GGTTGAGAAGAGCTG
Found at i:113561 original size:199 final size:199
Alignment explanation
Indices: 113132--114627 Score: 2187
Period size: 199 Copynumber: 7.5 Consensus size: 199
113122 TTTTCAAATT
* * * * *
113132 AAACCGGTATTTTTATACTGG-TACATTGTTAATTTACCTATTACGTTATAATTATGGGTTTTGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * * *
113196 TGTTTCTGGGATCGACACTTCTTATAAATGTATCGAAACTTTATT-GTGCATTTGGTTTTTAAAA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTT-TTAGTGCACTTGG-TTTTGAAA
* ** * *
113260 TACACTATGG-CCAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATGTT
129 TACATTATGGACC-AAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTT
*
113324 TTCTCAT
193 TTCTCAA
* * * *
113331 AAATCGGTATATTTAGACTGGCTACATTGTTAATTTACCTATTACATTATAATTATAGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
*
113396 TGTTTTTAGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* *
113461 CATTTTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACACGTTTTC
131 CATTATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
113526 TCAA
196 TCAA
* * *
113530 AAATCGGTATATTTAGACCAGTTAAATTGTTAATTTACCTATTAC-TTCATAATTATGGGTTTCG
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATT-ATAATTATGGGTTTCG
* * * **
113594 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGCCCTTGGTTAAG-AAT
65 ATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAAT
* * * *
113658 ACATTATGGACCAAAAGTATCGACACTTGTTTTAGTTGTTTCGATACTTTTTGTACACCTGATTT
130 ACATTATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTT
*
113723 CTTAA
195 CTCAA
* * * * *
113728 AAACCGGTATAATTAGACCGGTTATATTGCTAATTTACCTATTACAATATAATTATGGGTTTCAA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
*
113793 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGTACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * * *
113858 CATTCTAGACCAAAAGTATCGACAATTGGTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
131 CATTATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
113923 TCAA
196 TCAA
* *
113927 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAAATTATAATAATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
113992 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
114057 CATTCTGGACCAAAAGTATCGACACTTATTTTATTTGTGTCGATACTTTTTGTACACTTGTTTTC
131 CATTATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
114122 TCAA
196 TCAA
* * * *
114126 AAACTGGTATACTTAGACCGGTTAAATTGTTAATTTACCTATTACATAATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * * **
114191 TGTTTCTGGGATCGACACTTGCTT-TAAATGTATCGACACTTTTTCGTGCCCTTGGTTAAGAAAT
66 TGTTTTTGGGATCGACACTT-CTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAAT
* * * * * *
114255 ACATTTTGGACCAAAAGTATCGACACTGGTTTTAGTTGTTTCGATACTTTTTGTAC-CTTTTTTT
130 ACATTATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTT
*
114319 CTCTCA
195 CTC-AA
* * *
114325 AAATCGGTATATTTAGACTGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* *
114390 TGTTTTTGTGATCGAAACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* *
114455 CATTATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTAAACCTGTTTTC
131 CATTATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
114520 TCAA
196 TCAA
* * *
114524 AAACCAGTATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATAATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
**
114589 TGTTTTTTTGATCGACACTTCTTATAAATGTATCGACAC
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACAC
114628 ATAAGTTTAC
Statistics
Matches: 1167, Mismatches: 120, Indels: 20
0.89 0.09 0.02
Matches are distributed among these distances:
198 191 0.16
199 874 0.75
200 102 0.09
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (199 bp):
AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
CATTATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
TCAA
Found at i:116534 original size:21 final size:18
Alignment explanation
Indices: 116496--116534 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
116486 TTCTCCCCAT
116496 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
116514 TTCCTCCATCTTCTCTTC
1 TTCCTCCATCTTTTCTTC
116532 TTC
1 TTC
116535 AAATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.41, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:117183 original size:22 final size:21
Alignment explanation
Indices: 117155--117210 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
117145 AACCTGCATT
*
117155 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
117177 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
117201 TATAA-AAAAC
1 TATAATAAAAC
117211 AAAAACATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 2 0.07
21 1 0.03
22 8 0.27
23 2 0.07
24 16 0.53
25 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:118951 original size:20 final size:21
Alignment explanation
Indices: 118923--118961 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
118913 GTAGCGCTTT
118923 ACCGATTTTATCAT-TTTTAG
1 ACCGATTTTATCATATTTTAG
* *
118943 ACCGGTTTTGTCATATTTT
1 ACCGATTTTATCATATTTT
118962 TACCTGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (21 bp):
ACCGATTTTATCATATTTTAG
Found at i:119215 original size:162 final size:162
Alignment explanation
Indices: 118943--119742 Score: 976
Period size: 162 Copynumber: 4.9 Consensus size: 162
118933 TCATTTTTAG
* *
118943 ACCGGTTTTGTCATATTTTTACCTGTTATATTACTATGGATCGATACATTTTTTAAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGCTATATTACTACGGATCGATACATTTTTTAAAAGTATCGA
* * *
119008 CATTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATT
66 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATT
*
119073 ATCGACACTTTCAACATATCCGGTATCTTTTT
131 ATCGACACTTTCAACATATCCGGTATCGTTTT
* ** *
119105 ACCGATTTTGTCATATTTTTACCTGCTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGCTATATTACTACGGATCGATACATTTTTTAAAAGTATCGA
*
119170 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCTATACTTATATTAAATT
66 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATT
*
119235 ATCGACACTTTCAACATATCTGGTATCGTTTT
131 ATCGACACTTTCAACATATCCGGTATCGTTTT
* * * * * * * * *
119267 ACCGGTTTTGTCAT-TTTTAGACATG-T-TTTGTCCTAC--CT-GTTATA-TTGTT-ATAG-ATC
1 ACCGGTTTTGTCATATTTT-TACCTGCTATAT-TACTACGGATCGATACATTTTTTAAAAGTATC
* * * * *
119323 GACACTTTGTAGGTGTTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATATTTATATTTAA
64 GACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAA
* *
119388 TTATCGACACTTTCAACATATCCGTTATCTTTTT
129 TTATCGACACTTTCAACATATCCGGTATCGTTTT
* ** *
119422 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGCTATATTACTACGGATCGATACATTTTTTAAAAGTATCGA
119487 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATT
66 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATT
*
119552 ATCGACACTTTCTACATATCCGGTATCGTTTT
131 ATCGACACTTTCAACATATCCGGTATCGTTTT
* * * * *** * * *
119584 ACCGGTTTTGTCAT-TTTTAGACATG-T-TTTGTCCTATTTTTACCTGTTATATTGTTATGGATC
1 ACCGGTTTTGTCATATTTT-TACCTGCTATAT-TACTA--CGGATC-GATACATT-TT-T---T-
*
119646 GATAAAGTATCGATACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATA
55 -A-AAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATA
*
119711 CTTATATTAAAGTATCGACACTTTCAACATAT
118 CTTATATTAAATTATCGACACTTTCAACATAT
119743 ATGGTAGTTA
Statistics
Matches: 549, Mismatches: 65, Indels: 38
0.84 0.10 0.06
Matches are distributed among these distances:
155 111 0.20
156 12 0.02
157 6 0.01
158 5 0.01
159 5 0.01
160 8 0.01
161 20 0.04
162 279 0.51
163 2 0.00
164 6 0.01
165 2 0.00
166 1 0.00
169 1 0.00
172 91 0.17
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (162 bp):
ACCGGTTTTGTCATATTTTTACCTGCTATATTACTACGGATCGATACATTTTTTAAAAGTATCGA
CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATT
ATCGACACTTTCAACATATCCGGTATCGTTTT
Found at i:119579 original size:317 final size:323
Alignment explanation
Indices: 118999--120484 Score: 1429
Period size: 317 Copynumber: 4.4 Consensus size: 323
118989 CATTTTTTAA
*
118999 AAGTATCGACATTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
1 AAGTATCGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
*
119064 TATTAAATTATCGACACTTTCAACATATCCGGTATCTTTTTACCGATTTTGTCATATTTTTACCT
66 TATTAAATTATCGACACTTTCAACATATCCGTTATCTTTTTACCGATTTTGTCATATTTTTACCT
*
119129 GCTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCT
131 GTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCT
* *
119194 TCTCTTTTAAATTCCAAAAGTGTCTATACTTATATTAAATTATCGACACTTTCAACATATCTGGT
196 TCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGT
119259 ATCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTCC-TACCTGTTATATTG-T-T-AT
261 ATCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTCCTTACCTGTTATATTGTTGTCAT
* *
119318 -AG-ATCGACACTTTGTAGGTGTTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATATTTA
1 AAGTATCGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* *
119381 TATTTAATTATCGACACTTTCAACATATCCGTTATCTTTTTACCGGTTTTGTCATATTTTTACCT
66 TATTAAATTATCGACACTTTCAACATATCCGTTATCTTTTTACCGATTTTGTCATATTTTTACCT
119446 GTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCT
131 GTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCT
*
119511 TCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCTACATATCCGGT
196 TCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGT
119576 ATCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTCCTATTTTTACCTGTTATATTGTTAT
261 ATCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTCC-----TTACCTGTTATATTG-T-T
119641 GGATCGAT
319 -G-TC-AT
* * *
119649 AAAGTATCGATACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTT
1 -AAGTATCGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTT
* * * *
119714 ATATTAAAGTATCGACACTTTCAACATATATGGTAGTTATTTACCTGTTTTGTCATTTTGAGACT
65 ATATTAAATTATCGACACTTTCAAC---------A--TA--T-CC-G--TTATC-TTTT--TACC
** * *** *
119779 GATTTTGTCATA-TTTTAGGTTGTTATATTGTTATGGATCGATACATTTGCATAAAGTGTCGACA
110 GATTTTGTCATATTTTTA-CCTGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACA
* *
119843 CGTTCTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAATTA
174 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAATTA
* * *
119907 TCGACACTTTCAACATATTCGATATCGTTTTACCGGTTTTGTCATTTTTAGA-AT-TTTT-ACCT
238 TCGACACTTTCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTCC-
** * * **
119969 GTTATATAGTTATGAATCAATACATTTTTTT
302 -TTACCT-GTTAT--AT---T--GTTGTCAT
* * * *
120000 AAAATATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATAAT
1 -AAGTATCGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACT
*
120064 TATATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTACATGTTTTATCATTTTGAGAC
64 TATATTAAATTATCGACACTTTCAACATATCC----GTTA--T-C--------T--TTTT---AC
* * ** ** *
120129 CGGTTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTTTCGACA
109 CGATTTTGTCATATTTTTACCTGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACA
* * *
120194 CTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATAATTATATTAAAGTA
174 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAATTA
* * * * **
120258 TCGACACTTTCAACATATCC-G-ATAGTTATTTACCTGTTTTTTCATTTTGAGACCGGTTTTGTC
238 TCGACACTTTCAACATATCCGGTATCG-T-TTTACCGGTTTTGTCATTTTTAGACATGTTTTGTC
* * *
120321 ATATTTTTAGCTGTTATATTATTATGGATCGAT
301 -----CTTACCTGTTATATT-GT-T-G-TC-AT
* * *
120354 ACATTTTCATAAAATTTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAG
1 A-A-----GT---A--TCGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCA-AAAG
* * * * * * *
120418 TGTCGATACTTATATTAAACTATTGACACTTTCAACTTATCCGGTAGCGTTTTACCGGTTTTGTC
54 TGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGTTATCTTTTTACCGATTTTGTC
120483 AT
119 AT
120485 TTTGAGACCG
Statistics
Matches: 993, Mismatches: 82, Indels: 159
0.80 0.07 0.13
Matches are distributed among these distances:
317 287 0.29
318 2 0.00
323 14 0.01
326 1 0.00
329 1 0.00
331 2 0.00
333 2 0.00
334 78 0.08
337 2 0.00
338 3 0.00
340 4 0.00
341 1 0.00
342 1 0.00
343 1 0.00
344 14 0.01
345 2 0.00
347 5 0.01
348 9 0.01
349 9 0.01
350 7 0.01
351 250 0.25
352 14 0.01
353 15 0.02
354 167 0.17
355 1 0.00
356 5 0.01
357 5 0.01
359 2 0.00
360 3 0.00
362 1 0.00
364 85 0.09
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (323 bp):
AAGTATCGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
TATTAAATTATCGACACTTTCAACATATCCGTTATCTTTTTACCGATTTTGTCATATTTTTACCT
GTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCT
TCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGT
ATCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTCCTTACCTGTTATATTGTTGTCAT
Found at i:119647 original size:182 final size:184
Alignment explanation
Indices: 119422--120542 Score: 1463
Period size: 182 Copynumber: 6.3 Consensus size: 184
119412 TTATCTTTTT
* **
119422 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGA
*
119487 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAAT
66 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAAG
* *
119551 TATCGACACTTTCTACATATCCGGTATCG-T-TTTACCGGTTTTGTCATTTTTAG
130 TATCGACACTTTCAACATATCCGGTATCGTTATTTACCGGTTTTGTCATTTTGAG
** *
119604 ACATGTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCG----------ATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGA
*
119659 TACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAAG
66 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAAG
** *
119723 TATCGACACTTTCAACATATATGGTA--GTTATTTACCTGTTTTGTCATTTTGAG
130 TATCGACACTTTCAACATATCCGGTATCGTTATTTACCGGTTTTGTCATTTTGAG
* * ** * *
119776 ACTGATTTTGTCATA-TTTTAGGTTGTTATATTGTTATGGATCGATACATTTGCATAAAGTGTCG
1 ACCGGTTTTGTCATATTTTTA-CCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCG
* * *
119840 ACACGTTCTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAT
65 ACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAG
* *
119905 TATCGACACTTTCAACATATTCGATATCG-T-TTTACCGGTTTTGTCA--TT---
130 TATCGACACTTTCAACATATCCGGTATCGTTATTTACCGGTTTTGTCATTTTGAG
* * * * ** *
119953 -----TTTAG--A-ATTTTTACCTGTTATATAGTTATGAATCAATACATTTTTTTAAAATATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGA
*
120010 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATAATTATATTAAAGT
66 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAGT
** *
120075 ATCGACACTTTCAACATATCCGGTA--GTTATTTACATGTTTTATCATTTTGAG
131 ATCGACACTTTCAACATATCCGGTATCGTTATTTACCGGTTTTGTCATTTTGAG
* * *
120127 ACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTTTCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGA
* *
120192 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATAATTATATTAAAGT
66 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAGT
* * *
120257 ATCGACACTTTCAACATATCC-G-ATAGTTATTTACCTGTTTTTTCATTTTGAG
131 ATCGACACTTTCAACATATCCGGTATCGTTATTTACCGGTTTTGTCATTTTGAG
* * * *
120309 ACCGGTTTTGTCATATTTTTAGCTGTTATATTATTATGGATCGATACATTTTCATAAAATTTCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGA
* *
120374 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAACT
66 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAGT
* * *
120439 ATTGACACTTTCAACTTATCCGGTAGCG-T-TTTACCGGTTTTGTCATTTTGAG
131 ATCGACACTTTCAACATATCCGGTATCGTTATTTACCGGTTTTGTCATTTTGAG
* *
120491 ACCGGTTTTGTCATATATTTACCTGTTATATTGTTATAGATCGATACATTTT
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT
120543 TCATTTGTAT
Statistics
Matches: 828, Mismatches: 75, Indels: 72
0.85 0.08 0.07
Matches are distributed among these distances:
167 1 0.00
168 1 0.00
169 132 0.16
170 7 0.01
171 8 0.01
172 152 0.18
179 4 0.00
180 3 0.00
181 4 0.00
182 510 0.62
183 3 0.00
184 3 0.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (184 bp):
ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGA
CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAGT
ATCGACACTTTCAACATATCCGGTATCGTTATTTACCGGTTTTGTCATTTTGAG
Found at i:120162 original size:351 final size:352
Alignment explanation
Indices: 119422--120542 Score: 1449
Period size: 351 Copynumber: 3.1 Consensus size: 352
119412 TTATCTTTTT
** **
119422 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGA
119487 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAAT
66 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAAT
* * *
119551 TATCGACACTTTCTACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTC
130 TATCGACACTTTCAACATATCCGATATCGTTTTACCGGTTTTGTCATTTTTAGACAT-TTTT-AC
* * ** * ** * *
119616 CTATT-TTTACCTGTTAT--AT-TGT-TATGGATCGATAAAGTATCGATACTTTATAGGCGCTAT
193 CTGTTATATA---GTTATGAATCAATACAT-TTTC-ATAAAATATCGACACTTTATAGGCGCTAT
119676 AACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACA
253 AACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACA
**
119740 TATATGGTAGTTATTTACCTGTTTTGTCATTTTGAG
317 TATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAG
* * ** * * *
119776 ACTGATTTTGTCATA-TTTTAGGTTGTTATATTGTTATGGATCGATACATTTGCATAAAGTGTCG
1 ACCGGTTTTGTCATATTTTTA-CCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCG
* *
119840 ACACGTTCTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAT
65 ACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAT
*
119905 TATCGACACTTTCAACATATTCGATATCGTTTTACCGGTTTTGTCATTTTTAGA-ATTTTTACCT
130 TATCGACACTTTCAACATATCCGATATCGTTTTACCGGTTTTGTCATTTTTAGACATTTTTACCT
**
119969 GTTATATAGTTATGAATCAATACATTTTTTTAAAATATCGACACTTTATAGGCGCTATAACTTCT
195 GTTATATAGTTATGAATCAATACATTTTCATAAAATATCGACACTTTATAGGCGCTATAACTTCT
*
120034 TCTCTTTTAAATTCAGAAAGTGTCGATAATTATATTAAAGTATCGACACTTTCAACATATCCGGT
260 TCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACATATCCGGT
* *
120099 AGTTATTTACATGTTTTATCATTTTGAG
325 AGTTATTTACCTGTTTTGTCATTTTGAG
* *
120127 ACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTTTCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGA
* * *
120192 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATAATTATATTAAAGT
66 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATT
* * *
120257 ATCGACACTTTCAACATATCCGATA--GTTATTTACCTGTTTTTTCATTTTGAGACCGGTTTTGT
131 ATCGACACTTTCAACATATCCGATATCG-T-TTTACCGGTTTTGTCATTTTTAGA----------
* * * * *
120320 CATATTTTTAGCTGTTATATTA-TTATGGATCGATACATTTTCATAAAATTTCGACACTTTTTAG
184 C--ATTTTTACCTGTTATA-TAGTTATGAATCAATACATTTTCATAAAATATCGACACTTTATAG
* *
120384 GCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAACTATTGACACTT
246 GCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAGTATCGACACTT
* * *
120449 TCAACTTATCCGGTAGCGT-TTTACCGGTTTTGTCATTTTGAG
311 TCAACATATCCGGTAG-TTATTTACCTGTTTTGTCATTTTGAG
*
120491 ACCGGTTTTGTCATATATTTACCTGTTATATTGTTATAGATCGATACATTTT
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTT
120543 TCATTTGTAT
Statistics
Matches: 679, Mismatches: 62, Indels: 42
0.87 0.08 0.05
Matches are distributed among these distances:
349 6 0.01
350 3 0.00
351 284 0.42
352 14 0.02
353 11 0.02
354 160 0.24
364 198 0.29
365 3 0.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (352 bp):
ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGA
CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATT
ATCGACACTTTCAACATATCCGATATCGTTTTACCGGTTTTGTCATTTTTAGACATTTTTACCTG
TTATATAGTTATGAATCAATACATTTTCATAAAATATCGACACTTTATAGGCGCTATAACTTCTT
CTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACATATCCGGTA
GTTATTTACCTGTTTTGTCATTTTGAG
Found at i:120432 original size:533 final size:519
Alignment explanation
Indices: 119321--120487 Score: 1668
Period size: 533 Copynumber: 2.2 Consensus size: 519
119311 TTGTTATAGA
* * * *
119321 TCGACACTTTGTAGGTGTTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATATTTATATT
1 TCGACACTTTCTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATT
* * *
119385 TAATTATCGACACTTTCAACATATCCGTTATCTTTTTACCGGTTTTGTCA----TATTTTTACCT
65 AAATTATCGACACTTTCAACATATCCGATATCGTTTTACCGGTTTTGTCATTTTTATTTTTACCT
* * * *
119446 GTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCT
130 GTTATATAGTTACGAATCAATACATTTTTTTAAAATATCGACACTTTATAGGCGCTATAACTTCT
* * *
119511 TCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCTACATATCCGGT
195 TCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAGTATCGACACTTTCAACATATCCGGT
* * * * *
119576 ATCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTCCTATTTTTACCTGTTATATTGTTAT
260 ATC-TTTTACAGGTTTTATCATTTTGAGACAGGTTTTGTCATATTTTTACCTGTTATATTGTTAT
* *
119641 GGATCGATAAAGTATCGATACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGT
324 GGATCCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGT
* * *
119706 CGATACTTATATTAAAGTATCGACACTTTCAACATATATGGTAGTTATTTACCTGTTTTGTCATT
389 CGATAATTATATTAAAGTATCGACACTTTCAACATATACGATAGTTATTTACCTGTTTTGTCATT
* * * *
119771 TTGAGACTGATTTTGTCATATTTTAGGTTGTTATATTGTTATGGATCGATACATTTGCATAAAGT
454 TTGAGACCGATTTTGTCATATTTTAGGCTGTTATATTATTATGGATCGATACATTTGCATAAAAT
119836 G
519 G
*
119837 TCGACACGTTCTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTA
1 TCGACACTTTCTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTA
*
119902 AATTATCGACACTTTCAACATATTCGATATCGTTTTACCGGTTTTGTCATTTTTAGAATTTTTAC
66 AATTATCGACACTTTCAACATATCCGATATCGTTTTACCGGTTTTGTCATTTTT---ATTTTTAC
*
119967 CTGTTATATAGTTATGAATCAATACATTTTTTTAAAATATCGACACTTTATAGGCGCTATAACTT
128 CTGTTATATAGTTACGAATCAATACATTTTTTTAAAATATCGACACTTTATAGGCGCTATAACTT
120032 CTTCTCTTTTAAATT-CAGAAAGTGTCGATAATTATATTAAAGTATCGACACTTTCAACATATCC
193 CTTCTCTTTTAAATTCCA-AAAGTGTCGATAATTATATTAAAGTATCGACACTTTCAACATATCC
* * *
120096 GGTAGT-TATTTACATGTTTTATCATTTTGAGACCGGTTTTGTCATATTTTTAGCTGTTATATTG
257 GGTA-TCT-TTTACAGGTTTTATCATTTTGAGACAGGTTTTGTCATATTTTTACCTGTTATATTG
* *
120160 TTATAGATCGATACATTTTCATAAAGTTTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTA
320 TTAT-G---GAT-C-----CATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTA
*
120225 AATT-CAGAAAGTGTCGATAATTATATTAAAGTATCGACACTTTCAACATATCCGATAGTTATTT
375 AATTCCA-AAAGTGTCGATAATTATATTAAAGTATCGACACTTTCAACATATACGATAGTTATTT
* *
120289 ACCTGTTTTTTCATTTTGAGACCGGTTTTGTCATATTTTTA-GCTGTTATATTATTATGGATCGA
439 ACCTGTTTTGTCATTTTGAGACCGATTTTGTCATA-TTTTAGGCTGTTATATTATTATGGATCGA
* *
120353 TACATTTTCATAAAATT
503 TACATTTGCATAAAATG
*
120370 TCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTA
1 TCGACACTTTCTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTA
* * * * *
120435 AACTATTGACACTTTCAACTTATCCGGTAGCGTTTTACCGGTTTTGTCATTTT
66 AATTATCGACACTTTCAACATATCCGATATCGTTTTACCGGTTTTGTCATTTT
120488 GAGACCGGTT
Statistics
Matches: 579, Mismatches: 49, Indels: 29
0.88 0.07 0.04
Matches are distributed among these distances:
515 2 0.00
516 102 0.18
520 1 0.00
522 3 0.01
523 182 0.31
524 2 0.00
527 3 0.01
528 1 0.00
532 2 0.00
533 276 0.48
534 5 0.01
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (519 bp):
TCGACACTTTCTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTA
AATTATCGACACTTTCAACATATCCGATATCGTTTTACCGGTTTTGTCATTTTTATTTTTACCTG
TTATATAGTTACGAATCAATACATTTTTTTAAAATATCGACACTTTATAGGCGCTATAACTTCTT
CTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAGTATCGACACTTTCAACATATCCGGTA
TCTTTTACAGGTTTTATCATTTTGAGACAGGTTTTGTCATATTTTTACCTGTTATATTGTTATGG
ATCCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCG
ATAATTATATTAAAGTATCGACACTTTCAACATATACGATAGTTATTTACCTGTTTTGTCATTTT
GAGACCGATTTTGTCATATTTTAGGCTGTTATATTATTATGGATCGATACATTTGCATAAAATG
Done.