Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 97 of 130
Found at i:19031204 original size:83 final size:86
Alignment explanation
Indices: 19031031--19031197 Score: 241
Period size: 83 Copynumber: 2.0 Consensus size: 86
19031021 TGATCAAAAT
** *
19031031 TCCTCTAAGCAGAGGCTCAATGACTTTGAAAAATATAAATAAATGCTCCTCTAATTAGAGGCTCA
1 TCCTCTAAGCAGAGGCTCAACAACTTTG-AAAATATAAATAAATGCTCCTCTAATCAGAGGCTCA
*
19031096 ACAACTTTGAACAATAAATGAC
65 ACAACTTTGAAAAATAAATGAC
* *
19031118 TCCTCTAATCAGAGGCTCAACAACTTTG-AAA-ATAAATAAA-GCTCCTCTAATCAGAGGCTTAA
1 TCCTCTAAGCAGAGGCTCAACAACTTTGAAAATATAAATAAATGCTCCTCTAATCAGAGGCTCAA
*
19031180 CGACTTTGAAAAATAAAT
66 CAACTTTGAAAAATAAAT
19031198 TGCTCCTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
83 36 0.49
84 9 0.12
85 3 0.04
87 25 0.34
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (86 bp):
TCCTCTAAGCAGAGGCTCAACAACTTTGAAAATATAAATAAATGCTCCTCTAATCAGAGGCTCAA
CAACTTTGAAAAATAAATGAC
Found at i:19032246 original size:12 final size:10
Alignment explanation
Indices: 19032224--19032261 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
19032214 AATTTTTTCA
19032224 TTTTATTTTT
1 TTTTATTTTT
*
19032234 TTTCATTTCTT
1 TTTTATTT-TT
19032245 TTTTA-TTTT
1 TTTTATTTTT
19032254 TTTTATTT
1 TTTTATTT
19032262 CAGGCATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 7 0.29
10 11 0.46
11 6 0.25
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:19032247 original size:20 final size:20
Alignment explanation
Indices: 19032219--19032262 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
19032209 CTTTCAATTT
19032219 TTTC-ATTTTATTTTTTTTCA
1 TTTCTATTTTATTTTTTTT-A
*
19032239 TTTCTTTTTTATTTTTTTTA
1 TTTCTATTTTATTTTTTTTA
19032259 TTTC
1 TTTC
19032263 AGGCATAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTCTATTTTATTTTTTTTA
Found at i:19032250 original size:21 final size:20
Alignment explanation
Indices: 19032224--19032262 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
19032214 AATTTTTTCA
19032224 TTTTATTTTTTTTCATTTCTT
1 TTTTATTTTTTTT-ATTTCTT
19032245 TTTTATTTTTTTTATTTC
1 TTTTATTTTTTTTATTTC
19032263 AGGCATAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTATTTTTTTTATTTCTT
Found at i:19042959 original size:59 final size:57
Alignment explanation
Indices: 19042659--19043038 Score: 353
Period size: 59 Copynumber: 6.6 Consensus size: 57
19042649 TGTTTTTGTG
* * * *
19042659 CAAGAAAAATTGATACTTTCAA-TTTTTCCCCAAAAATATTCTTTTGAAACTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTT-CTC-AAAATTTTTTTTTGAAAATTTAATTT
* * * * *
19042717 CGAGGAAAATTGATACTTTCAACTTTTTC-C-CATTTTTATTTTTGGAAACTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATTTT-TTTTT-GAAAATTTAATTT
* * * ***
19042774 CAAGAAAAATTAATACTTTCAACTTTTCCTCAAAA-ATCCCTTTGAAAATTT-ATCTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATTTTTTTTTGAAAATTTAAT-TT
* * *
19042830 TAA-AAAAATTGATACTTTCAACTTTTT-TCTAAAAATATTTTTTGAAAACTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTC-AAAATTTTTTTTTGAAAA-TTTAATTT
* *
19042887 CGAG-AAAATTGATACTTTCAACTTTTTCTCAAAATCTTTTTTTTTGAAAATTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAA--TTTTTTTTTGAAAATTTAATTT
* * * * * *
19042945 TAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTC-AAAATTTTTTTTTGAAA-ATTTAATTT
* *
19043004 CGAGAAAAATTGATACTTTCAACTTTTCCTCAAAA
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAA
19043039 AGAATTTTTT
Statistics
Matches: 264, Mismatches: 41, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
54 2 0.01
55 32 0.12
56 23 0.09
57 75 0.28
58 51 0.19
59 77 0.29
60 4 0.02
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.43
Consensus pattern (57 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATTTTTTTTTGAAAATTTAATTT
Found at i:19043039 original size:59 final size:58
Alignment explanation
Indices: 19042661--19043048 Score: 407
Period size: 57 Copynumber: 6.7 Consensus size: 58
19042651 TTTTTGTGCA
* *
19042661 AGAAAAATTGATACTTTCAATTTTTCCCCAAAAATATTCTTTT-GAAACTTTAATTTCG
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTGGAAACTTTAATTTCG
* **** *
19042719 AGGAAAATTGATACTTTCAACTTTTTCC-CATTTTTA-TTTTTGGAAACTTTAATTTCA
1 AGAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGGAAACTTTAATTTCG
* *** * *
19042776 AGAAAAATTAATACTTTCAACTTTTCCTCAAAAAT-CCCTTT-GAAAATTT-ATCTT-T
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAAT-TTCG
* * *
19042831 AAAAAAATTGATACTTTCAACTTTT-TTCTAAAAATATTTTTTGAAAACTTTAATTTCG
1 AGAAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTGGAAACTTTAATTTCG
* * * * * * **
19042889 AG-AAAATTGATACTTTCAACTTTTTCTCAAAATCTTTTTTTTTGAAAATTTATTTTTA
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTGGAAACTTTAATTTCG
*
19042947 AGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTAATTTCG
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAAC-TTTAATTTCG
*
19043006 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAAGAATTTTTT
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTT
19043049 TTAATTTTAT
Statistics
Matches: 268, Mismatches: 47, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
54 2 0.01
55 31 0.12
56 22 0.08
57 74 0.28
58 58 0.22
59 74 0.28
60 7 0.03
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (58 bp):
AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTTCG
Found at i:19043072 original size:9 final size:8
Alignment explanation
Indices: 19043060--19043135 Score: 55
Period size: 9 Copynumber: 8.8 Consensus size: 8
19043050 TAATTTTATT
19043060 TAAAGAAAA
1 TAAA-AAAA
*
19043069 TAAAATAA
1 TAAAAAAA
19043077 TAAAATAAA
1 TAAAA-AAA
19043086 TAAAATAAA
1 TAAAA-AAA
*
19043095 -ATAAAAA
1 TAAAAAAA
*
19043102 TGAACATAAA
1 T-AA-AAAAA
19043112 TAAAAAAA
1 TAAAAAAA
19043120 TAAATAAAAA
1 T-AA-AAAAA
19043130 TAAAAA
1 TAAAAA
19043136 TATTAAACAA
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
7 3 0.05
8 19 0.35
9 22 0.40
10 11 0.20
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (8 bp):
TAAAAAAA
Found at i:19043073 original size:5 final size:5
Alignment explanation
Indices: 19043065--19043134 Score: 55
Period size: 5 Copynumber: 14.8 Consensus size: 5
19043055 TTATTTAAAG
*
19043065 AAAAT AAAAT --AAT AAAAT -AAAT AAAAT AAAAT AAAAAT GAACAT -AAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT
19043113 -AAA- AAAAT -AAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT AAAA
19043135 ATATTAAACA
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 3 0.06
4 17 0.31
5 21 0.39
6 13 0.24
ACGTcount: A:0.79, C:0.01, G:0.01, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:19043086 original size:17 final size:17
Alignment explanation
Indices: 19043066--19043128 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 17
19043056 TATTTAAAGA
19043066 AAATAAAATAATAAAAT
1 AAATAAAATAATAAAAT
19043083 AAATAAAATAAAATAAAAAT
1 AAATAAAAT--AAT-AAAAT
*
19043103 GAACAT-AAATAAAAAAAT
1 -AA-ATAAAATAATAAAAT
19043121 AAATAAAA
1 AAATAAAA
19043129 ATAAAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
16 2 0.05
17 14 0.36
18 5 0.13
19 5 0.13
20 5 0.13
21 6 0.15
22 2 0.05
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (17 bp):
AAATAAAATAATAAAAT
Found at i:19043090 original size:22 final size:22
Alignment explanation
Indices: 19043060--19043134 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
19043050 TAATTTTATT
*
19043060 TAAAGAAAATAAAATAATAAAA
1 TAAATAAAATAAAATAATAAAA
19043082 TAAATAAAATAAAAT-A-AAAA
1 TAAATAAAATAAAATAATAAAA
*
19043102 TGAACAT-AAATAAAAAAATAAATA
1 T-AA-ATAAAATAAAATAATAAA-A
*
19043126 AAAATAAAA
1 TAAATAAAA
19043135 ATATTAAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
20 5 0.11
21 11 0.25
22 19 0.43
23 8 0.18
24 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (22 bp):
TAAATAAAATAAAATAATAAAA
Found at i:19044109 original size:22 final size:22
Alignment explanation
Indices: 19044036--19044123 Score: 94
Period size: 21 Copynumber: 4.1 Consensus size: 22
19044026 TAAAAAGAAA
19044036 ATAATCAGATAAATAATAATAT
1 ATAATCAGATAAATAATAATAT
* * *
19044058 -TAA-CAGATAACTAAAAATAA
1 ATAATCAGATAAATAATAATAT
* *
19044078 ATACT-AGATAAATTATAATAT
1 ATAATCAGATAAATAATAATAT
19044099 ATAATCAGATAAAT-ATAAATAT
1 ATAATCAGATAAATAAT-AATAT
19044121 ATA
1 ATA
19044124 TAAATATTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
20 14 0.26
21 23 0.43
22 16 0.30
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.31
Consensus pattern (22 bp):
ATAATCAGATAAATAATAATAT
Found at i:19044209 original size:17 final size:17
Alignment explanation
Indices: 19044187--19044263 Score: 65
Period size: 17 Copynumber: 4.6 Consensus size: 17
19044177 TATATATATT
*
19044187 AATAAATAGTAATAATA
1 AATAAATAATAATAATA
19044204 AATAAAT-A-AATACATA
1 AATAAATAATAATA-ATA
19044220 AGATAAA-AATAATAA-A
1 A-ATAAATAATAATAATA
* *
19044236 AAAATAATAACAATAATA
1 AATA-AATAATAATAATA
19044254 AATAAA-AATA
1 AATAAATAATA
19044264 TAAAATACAA
Statistics
Matches: 48, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
15 6 0.12
16 11 0.23
17 23 0.48
18 8 0.17
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (17 bp):
AATAAATAATAATAATA
Found at i:19044235 original size:26 final size:27
Alignment explanation
Indices: 19044196--19044263 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
19044186 TAATAAATAG
*
19044196 TAAT-AATAAATAAATAAATACATAA-GA
1 TAATAAAT-AATAAATAAATA-ATAACAA
*
19044223 TAA-AAATAATAAAAAAATAATAACAA
1 TAATAAATAATAAATAAATAATAACAA
19044249 TAATAAATAA-AAATA
1 TAATAAATAATAAATA
19044264 TAAAATACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
25 4 0.11
26 19 0.54
27 12 0.34
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (27 bp):
TAATAAATAATAAATAAATAATAACAA
Found at i:19044250 original size:20 final size:21
Alignment explanation
Indices: 19044186--19044268 Score: 66
Period size: 21 Copynumber: 4.0 Consensus size: 21
19044176 ATATATATAT
* *
19044186 TAATAAATAGTAATAATAAATA
1 TAATAAATA-AAATAATAAAAA
*
19044208 -AATAAATACATAA-GATAAAAA
1 TAATAAATA-A-AATAATAAAAA
*
19044229 TAATAAA-AAAATAATAACAA
1 TAATAAATAAAATAATAAAAA
19044249 TAATAAATAAAA-ATATAAAA
1 TAATAAATAAAATA-ATAAAA
19044269 TACAAAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
19 2 0.04
20 15 0.31
21 24 0.49
22 8 0.16
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
TAATAAATAAAATAATAAAAA
Found at i:19045287 original size:14 final size:14
Alignment explanation
Indices: 19045261--19045300 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
19045251 AAACGTGTAT
19045261 AAAA-AAATGAAAAC
1 AAAATAAAT-AAAAC
*
19045275 AAAATAAATAAAAT
1 AAAATAAATAAAAC
19045289 AAAATAAATAAA
1 AAAATAAATAAA
19045301 GTAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAATAAATAAAAC
Found at i:19045305 original size:14 final size:15
Alignment explanation
Indices: 19045275--19045311 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
19045265 AAATGAAAAC
19045275 AAAATAAATAAAAT-
1 AAAATAAATAAAATA
*
19045289 AAAATAAATAAAGTA
1 AAAATAAATAAAATA
19045304 AAAATAAA
1 AAAATAAA
19045312 AATCTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATAAATAAAATA
Found at i:19045937 original size:19 final size:20
Alignment explanation
Indices: 19045899--19045937 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
19045889 CTTCTTTCAC
*
19045899 TATATTCTTTCTTTGACAAA
1 TATATTCTTTCCTTGACAAA
*
19045919 TATATT-TTTCCTTGCCAAA
1 TATATTCTTTCCTTGACAAA
19045938 AATGGAGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (20 bp):
TATATTCTTTCCTTGACAAA
Found at i:19046984 original size:19 final size:17
Alignment explanation
Indices: 19046948--19046993 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 17
19046938 GCAACTGACC
19046948 TTTTG-ATTTTTTTTAT
1 TTTTGAATTTTTTTTAT
19046964 TTTTGAATTTTTTATTCAT
1 TTTTGAATTTTTT-TT-AT
19046983 TTTTGAATTTT
1 TTTTGAATTTT
19046994 GAATTATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.19
17 7 0.26
18 2 0.07
19 13 0.48
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (17 bp):
TTTTGAATTTTTTTTAT
Found at i:19052740 original size:2 final size:2
Alignment explanation
Indices: 19052733--19052764 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19052723 TGCTATCATT
19052733 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19052765 AATCGGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19053768 original size:21 final size:19
Alignment explanation
Indices: 19053743--19053810 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 19
19053733 ACTATTAATT
19053743 TTAATTTTATTATTACAATAA
1 TTAATTTTATT-TTAC-ATAA
* *
19053764 TTAATCTTATTTT-CACAA
1 TTAATTTTATTTTACATAA
19053782 TT-ATTTTAATTTTACGATAA
1 TTAATTTT-ATTTTAC-ATAA
19053802 TTAATTTTA
1 TTAATTTTA
19053811 CTGTCCATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 4 0.10
18 10 0.26
19 2 0.05
20 8 0.21
21 15 0.38
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.54
Consensus pattern (19 bp):
TTAATTTTATTTTACATAA
Found at i:19054079 original size:29 final size:31
Alignment explanation
Indices: 19054028--19054087 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
19054018 TTACATAAAT
19054028 AAATAAATATTTATATATAATTAATTACATA
1 AAATAAATATTTATATATAATTAATTACATA
*
19054059 AAAT-AAT-TTTATATATTATTAATTACATA
1 AAATAAATATTTATATATAATTAATTACATA
19054088 TACAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 21 0.75
30 3 0.11
31 4 0.14
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (31 bp):
AAATAAATATTTATATATAATTAATTACATA
Found at i:19055776 original size:17 final size:15
Alignment explanation
Indices: 19055726--19055777 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 15
19055716 TTTATAAACA
* *
19055726 TACAATTTTTTTTAT
1 TACAAATTTTTTTAC
19055741 TA-AAA-TTTTTTAC
1 TACAAATTTTTTTAC
19055754 TACAAATTTTTTTATC
1 TACAAATTTTTTTA-C
19055770 TATCAAAT
1 TA-CAAAT
19055778 AATATCTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 9 0.29
14 5 0.16
15 9 0.29
16 3 0.10
17 5 0.16
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.56
Consensus pattern (15 bp):
TACAAATTTTTTTAC
Found at i:19082327 original size:30 final size:30
Alignment explanation
Indices: 19082307--19082377 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
19082297 TAATTTTTGG
*
19082307 ATAATTTTATTCTTATATATTTAATTAATT
1 ATAATTTTATCCTTATATATTTAATTAATT
*
19082337 CTAATTTTATCCTTATATATTTAATTAATT
1 ATAATTTTATCCTTATATATTTAATTAATT
*
19082367 CTAATTATTAT
1 ATAATT-TTAT
19082378 GATTAATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 34 0.89
31 4 0.11
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (30 bp):
ATAATTTTATCCTTATATATTTAATTAATT
Found at i:19082552 original size:18 final size:16
Alignment explanation
Indices: 19082511--19082588 Score: 72
Period size: 16 Copynumber: 4.9 Consensus size: 16
19082501 TTAATATTTC
19082511 ATATTATTAATATTAAA
1 ATATTATTAA-ATTAAA
19082528 ATATTATTAAATTAAA
1 ATATTATTAAATTAAA
*
19082544 A-CTTATT--ATTAAA
1 ATATTATTAAATTAAA
* *
19082557 ATAATATACTATATTAAA
1 AT-AT-TATTAAATTAAA
*
19082575 ATCTTATTAAATTA
1 ATATTATTAAATTA
19082589 CATATTTAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
13 7 0.14
15 6 0.12
16 18 0.36
17 11 0.22
18 8 0.16
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATTATTAAATTAAA
Found at i:19082555 original size:29 final size:32
Alignment explanation
Indices: 19082521--19082583 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 32
19082511 ATATTATTAA
*
19082521 TATTAAAAT-AT-TATTAAATTAAAA-CTTAT
1 TATTAAAATAATATACTAAATTAAAATCTTAT
*
19082550 TATTAAAATAATATACTATATTAAAATCTTAT
1 TATTAAAATAATATACTAAATTAAAATCTTAT
19082582 TA
1 TA
19082584 AATTACATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 9 0.31
30 2 0.07
31 11 0.38
32 7 0.24
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (32 bp):
TATTAAAATAATATACTAAATTAAAATCTTAT
Found at i:19082571 original size:47 final size:49
Alignment explanation
Indices: 19082520--19082612 Score: 136
Period size: 47 Copynumber: 1.9 Consensus size: 49
19082510 CATATTATTA
*
19082520 ATATTAAAATATTATTAAATTA-AAACTTATTATT-AAAATAATATACT
1 ATATTAAAATATTATTAAATTACAAACTTAATATTAAAAATAATATACT
* * *
19082567 ATATTAAAATCTTATTAAATTACATATTTAATATTAAAAATAATAT
1 ATATTAAAATATTATTAAATTACAAACTTAATATTAAAAATAATAT
19082613 TTTAATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 21 0.52
48 9 0.22
49 10 0.25
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (49 bp):
ATATTAAAATATTATTAAATTACAAACTTAATATTAAAAATAATATACT
Found at i:19082730 original size:21 final size:20
Alignment explanation
Indices: 19082693--19082745 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
19082683 TAAATGGAAA
*
19082693 TAATATT-TAATAATATTTT
1 TAATATTATAATATTATTTT
*
19082712 CTAATTTTATAATATTATTTT
1 -TAATATTATAATATTATTTT
19082733 TAATATTA-AATAT
1 TAATATTATAATAT
19082746 ATTAAATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.17
20 13 0.45
21 11 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TAATATTATAATATTATTTT
Found at i:19082991 original size:12 final size:11
Alignment explanation
Indices: 19082945--19082988 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
19082935 TAATATATAA
19082945 TATTAAATTAT
1 TATTAAATTAT
**
19082956 TATTAAAAAAAT
1 TATT-AAATTAT
19082968 TATATAAATTAT
1 TAT-TAAATTAT
19082980 TATTAAATT
1 TATTAAATT
19082989 TATATTTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
11 10 0.37
12 16 0.59
13 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATTAAATTAT
Found at i:19083106 original size:17 final size:16
Alignment explanation
Indices: 19083077--19083108 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
19083067 ATATAATATT
19083077 TTAAATTAATATTAAA
1 TTAAATTAATATTAAA
19083093 TTAAATTGAATATTAA
1 TTAAATT-AATATTAA
19083109 CAAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TTAAATTAATATTAAA
Found at i:19083163 original size:57 final size:57
Alignment explanation
Indices: 19083060--19083186 Score: 134
Period size: 57 Copynumber: 2.2 Consensus size: 57
19083050 ATTTAAGTTG
*
19083060 AAAATTAATA-TAATATTTTAAATTAATATTAAATTAAATTGAATATTAACAAAATATT
1 AAAA-TAATATTAATATTTTAAATTAATATTAAATAAAATTGAATATT-ACAAAATATT
* ** **
19083118 AAAATAATATTAAGTA-TTTAAA-TATTATTAAATAAAATTTTATATTATTAAATATT
1 AAAATAATATTAA-TATTTTAAATTAATATTAAATAAAATTGAATATTACAAAATATT
* *
19083174 CAAATATTATTAA
1 AAAATAATATTAA
19083187 ATTAATATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
56 19 0.32
57 25 0.42
58 13 0.22
59 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (57 bp):
AAAATAATATTAATATTTTAAATTAATATTAAATAAAATTGAATATTACAAAATATT
Found at i:19083180 original size:8 final size:7
Alignment explanation
Indices: 19083111--19083277 Score: 55
Period size: 8 Copynumber: 23.0 Consensus size: 7
19083101 AATATTAACA
19083111 AAATATT
1 AAATATT
19083118 AAA-A-T
1 AAATATT
19083123 -AATATT
1 AAATATT
*
19083129 AAGTATTT
1 AAATA-TT
19083137 AAATATT
1 AAATATT
*
19083144 ATTAA-ATA
1 A--AATATT
*
19083152 AAATTTT
1 AAATATT
*
19083159 ATATTATT
1 A-AATATT
19083167 AAATATT
1 AAATATT
19083174 CAAATATT
1 -AAATATT
19083182 ATTAA-ATT
1 A--AATATT
19083190 -AATATT
1 AAATATT
* *
19083196 GAATGTT
1 AAATATT
19083203 AACATATTTT
1 AA-ATA--TT
*
19083213 AAAGA-T
1 AAATATT
19083219 -AATATT
1 AAATATT
19083225 AAATATT
1 AAATATT
19083232 CAAATATT
1 -AAATATT
*
19083240 ATTAA-ATA
1 A--AATATT
*
19083248 AAATTTT
1 AAATATT
19083255 AAAATATT
1 -AAATATT
19083263 AAATATTT
1 AAATA-TT
19083271 AAATATT
1 AAATATT
19083278 GTTAAATTAA
Statistics
Matches: 119, Mismatches: 17, Indels: 48
0.65 0.09 0.26
Matches are distributed among these distances:
4 2 0.02
5 7 0.06
6 11 0.09
7 38 0.32
8 49 0.41
9 8 0.07
10 4 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (7 bp):
AAATATT
Found at i:19083182 original size:18 final size:18
Alignment explanation
Indices: 19083111--19083381 Score: 85
Period size: 18 Copynumber: 14.2 Consensus size: 18
19083101 AATATTAACA
*
19083111 AAATATTAAAATAATATT
1 AAATATTAAAATATTATT
* *
19083129 AAGTATTTAAATATTATT
1 AAATATTAAAATATTATT
19083147 AAATA--AAATTTTATATTATT
1 AAATATTAAA----ATATTATT
*
19083167 AAATATTCAAATATTATT
1 AAATATTAAAATATTATT
* * *
19083185 -AA-ATTAATATTGAATGTT
1 AAATATTAA-AAT-ATTATT
*
19083203 AACATATTTTAAAGATAATATT
1 AA-ATA--TTAAA-ATATTATT
*
19083225 AAATATTCAAATATTATT
1 AAATATTAAAATATTATT
*
19083243 AAATAAAATTTTAAA-A-TATT
1 AAAT---A-TTAAAATATTATT
* *
19083263 AAATATTTAAATATTGTT
1 AAATATTAAAATATTATT
* *
19083281 -AA-ATTAATATTGAATATT
1 AAATATTAA-AAT-ATTATT
* *
19083299 GCACAAAATTAAAATAATATT
1 --A-AATATTAAAATATTATT
*
19083320 AAATATGGAAAATATTATT
1 AAATAT-TAAAATATTATT
19083339 -AA-ATTAAAATTTTTTATTATT
1 AAATATTAAAA-----TATTATT
*
19083360 AAATATTTAAATATTATT
1 AAATATTAAAATATTATT
19083378 AAAT
1 AAAT
19083382 TAATAATTAT
Statistics
Matches: 192, Mismatches: 26, Indels: 70
0.67 0.09 0.24
Matches are distributed among these distances:
16 20 0.10
17 12 0.06
18 66 0.34
19 16 0.08
20 22 0.11
21 19 0.10
22 21 0.11
23 16 0.08
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (18 bp):
AAATATTAAAATATTATT
Found at i:19083209 original size:29 final size:29
Alignment explanation
Indices: 19083163--19083269 Score: 112
Period size: 29 Copynumber: 3.7 Consensus size: 29
19083153 AATTTTATAT
19083163 TATTAAATATTCAAATATTATTAAATTAA
1 TATTAAATATTCAAATATTATTAAATTAA
* * *
19083192 TATTGAATGTT-AACATATT-TTAAAGATAA
1 TATTAAATATTCAA-ATATTATTAAA-TTAA
*
19083221 TATTAAATATTCAAATATTATTAAATAAAA
1 TATTAAATATTCAAATATTATTAAAT-TAA
*
19083251 TTTTAAAATATT-AAATATT
1 TATT-AAATATTCAAATATT
19083270 TAAATATTGT
Statistics
Matches: 64, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
28 7 0.11
29 31 0.48
30 19 0.30
31 7 0.11
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
TATTAAATATTCAAATATTATTAAATTAA
Found at i:19083221 original size:96 final size:94
Alignment explanation
Indices: 19083071--19083386 Score: 418
Period size: 96 Copynumber: 3.3 Consensus size: 94
19083061 AAATTAATAT
* *
19083071 AATATTTTAAATTAATATTAAATTAA-ATTGAATATTAACAAAATATTAAAATAATATTAAGTAT
1 AATA-TTTAAA-TATTATTAAATTAATATTGAATATTAAC--AATATTAAAATAATATTAAATAT
*
19083135 TTAAATATTATTAAATAAAATTTTATATTATTA
62 TAAAATATTATTAAATAAAATTTTATATTATTA
* * * *
19083168 AATATTCAAATATTATTAAATTAATATTGAATGTTAACATATTTTAAAGATAATATTAAATATTC
1 AATATTTAAATATTATTAAATTAATATTGAATATTAACA-ATATTAAA-ATAATATTAAATATTA
* *
19083233 AAATATTATTAAATAAAATTTTAAAATATTA
64 AAATATTATTAAATAAAATTTTATATTATTA
* * * *
19083264 AATATTTAAATATTGTTAAATTAATATTGAATATTGCACAAAATTAAAATAATATTAAATATGGA
1 AATATTTAAATATTATTAAATTAATATTGAATATT-AACAATATTAAAATAATATTAAATAT-TA
*
19083329 AAATATTATTAAATTAAAATTTTTTATTATTA
64 AAATATTATTAAA-TAAAATTTTATATTATTA
19083361 AATATTTAAATATTATTAAATTAATA
1 AATATTTAAATATTATTAAATTAATA
19083387 ATTATATAAT
Statistics
Matches: 193, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
94 1 0.01
95 34 0.18
96 111 0.58
97 47 0.24
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (94 bp):
AATATTTAAATATTATTAAATTAATATTGAATATTAACAATATTAAAATAATATTAAATATTAAA
ATATTATTAAATAAAATTTTATATTATTA
Found at i:19083266 original size:15 final size:15
Alignment explanation
Indices: 19083165--19083277 Score: 55
Period size: 15 Copynumber: 7.6 Consensus size: 15
19083155 TTTTATATTA
19083165 TTAAATATTCAAATAT
1 TTAAATATT-AAATAT
*
19083181 TATTAA-ATT-AATA-
1 T-TAAATATTAAATAT
* *
19083194 TTGAATGTTAACATATT
1 TTAAATATTAA-ATA-T
*
19083211 TTAAAGA-T-AATA-
1 TTAAATATTAAATAT
19083223 TTAAATATTCAAATATT
1 TTAAATATT-AAATA-T
19083240 ATTAAATA--AAAT-T
1 -TTAAATATTAAATAT
19083253 TTAAAATATTAAATAT
1 TT-AAATATTAAATAT
19083269 TTAAATATT
1 TTAAATATT
19083278 GTTAAATTAA
Statistics
Matches: 74, Mismatches: 7, Indels: 33
0.65 0.06 0.29
Matches are distributed among these distances:
12 11 0.15
13 10 0.14
14 8 0.11
15 23 0.31
16 8 0.11
17 7 0.09
18 7 0.09
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (15 bp):
TTAAATATTAAATAT
Found at i:19083347 original size:16 final size:16
Alignment explanation
Indices: 19083304--19083348 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 16
19083294 ATATTGCACA
19083304 AAATTAAAATAATATT
1 AAATTAAAATAATATT
*
19083320 AAATATGGAAAATATTATT
1 AAAT-T--AAAATAATATT
19083339 AAATTAAAAT
1 AAATTAAAAT
19083349 TTTTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 9 0.36
17 1 0.04
18 1 0.04
19 14 0.56
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (16 bp):
AAATTAAAATAATATT
Found at i:19083422 original size:39 final size:39
Alignment explanation
Indices: 19083303--19083423 Score: 129
Period size: 40 Copynumber: 3.1 Consensus size: 39
19083293 AATATTGCAC
*
19083303 AAAATTAAAATAATATTAAATATGGAAAATATTATTAAATT
1 AAAATT-ATATAATATTAAATAT-GAAAATATTATTAAATT
* * * **
19083344 AAAATTTTTTATTATTAAATATTTAAATATTATTAAATT
1 AAAATTATATAATATTAAATATGAAAATATTATTAAATT
*
19083383 AATAATTATATAATA-TAATATATGAAAATATT-TTTAATT
1 AA-AATTATATAATATTAA-ATATGAAAATATTATTAAATT
19083422 AA
1 AA
19083424 GATAAAATTT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
39 28 0.42
40 32 0.48
41 6 0.09
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (39 bp):
AAAATTATATAATATTAAATATGAAAATATTATTAAATT
Found at i:19083498 original size:11 final size:11
Alignment explanation
Indices: 19083484--19083600 Score: 80
Period size: 11 Copynumber: 11.0 Consensus size: 11
19083474 AATTAATGGT
19083484 TAATATTAAAA
1 TAATATTAAAA
*
19083495 TAATATGAAAA
1 TAATATTAAAA
* *
19083506 TAGTATTCAAA
1 TAATATTAAAA
*
19083517 TTATATTAAAA
1 TAATATTAAAA
*
19083528 TAATAAT-AAA
1 TAATATTAAAA
* *
19083538 TACTATTAAAC
1 TAATATTAAAA
*
19083549 TAATATT-TAA
1 TAATATTAAAA
* ***
19083559 TATTATTAGTT
1 TAATATTAAAA
19083570 TAATA-TAAAA
1 TAATATTAAAA
*
19083580 TATTATT-AAA
1 TAATATTAAAA
*
19083590 TAATGTTAAAA
1 TAATATTAAAA
19083601 ATTATTGAAT
Statistics
Matches: 76, Mismatches: 26, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
10 29 0.38
11 47 0.62
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:19083565 original size:21 final size:20
Alignment explanation
Indices: 19083520--19083686 Score: 95
Period size: 21 Copynumber: 8.2 Consensus size: 20
19083510 ATTCAAATTA
* * *
19083520 TATTAAAATAATAATAAATAC
1 TATT-AAATAATATTTAATAT
19083541 TATTAAACTAATATTTAATAT
1 TATTAAA-TAATATTTAATAT
** **
19083562 TATTAGTTTAATATAAAATAT
1 TATTA-AATAATATTTAATAT
* * *
19083583 TATTAAATAATGTTAAAAAT
1 TATTAAATAATATTTAATAT
* * *
19083603 TATTGAAT-TTTTTTAATAT
1 TATTAAATAATATTTAATAT
* *
19083622 T-TTAAAAAAATATTTAATAA
1 TATT-AAATAATATTTAATAT
* *
19083642 TATTAAATTAATATTGAATGT
1 TATTAAA-TAATATTTAATAT
* *
19083663 TATTAACTTAACATTTAATAT
1 TATTAA-ATAATATTTAATAT
19083684 TAT
1 TAT
19083687 AGAATTAATA
Statistics
Matches: 109, Mismatches: 30, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
18 2 0.02
19 10 0.09
20 32 0.29
21 65 0.60
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (20 bp):
TATTAAATAATATTTAATAT
Found at i:19083717 original size:7 final size:7
Alignment explanation
Indices: 19083698--19083751 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
19083688 GAATTAATAT
19083698 TATTTAA
1 TATTTAA
19083705 -ATTTTAA
1 TA-TTTAA
19083712 TATTTAA
1 TATTTAA
19083719 TA-TT-A
1 TATTTAA
19083724 TAATTTAA
1 T-ATTTAA
19083732 TA-TTAA
1 TATTTAA
19083738 TATTTAA
1 TATTTAA
*
19083745 TTTTTAA
1 TATTTAA
19083752 ATTAAATCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
5 2 0.05
6 10 0.25
7 25 0.62
8 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATTTAA
Found at i:19083754 original size:26 final size:26
Alignment explanation
Indices: 19083675--19083745 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
19083665 TTAACTTAAC
* *
19083675 ATTTAATATTATAGAATTAATATTAT-
1 ATTTAATATTA-ATATTTAATATTATA
* *
19083701 -TTAAATTTTAATATTTAATATTATA
1 ATTTAATATTAATATTTAATATTATA
19083726 ATTTAATATTAATATTTAAT
1 ATTTAATATTAATATTTAAT
19083746 TTTTAAATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
24 12 0.32
25 8 0.22
26 17 0.46
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (26 bp):
ATTTAATATTAATATTTAATATTATA
Found at i:19084215 original size:23 final size:23
Alignment explanation
Indices: 19084158--19084208 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
19084148 TTTTTTACCA
*
19084158 ATTAAAATATAATTTTATGTAAT
1 ATTAAAATATAATTTTATGCAAT
19084181 ATTAAAATATAATTTTATGCAAT
1 ATTAAAATATAATTTTATGCAAT
19084204 ATTAA
1 ATTAA
19084209 TAAATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (23 bp):
ATTAAAATATAATTTTATGCAAT
Found at i:19084451 original size:29 final size:28
Alignment explanation
Indices: 19084409--19084463 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
19084399 TTTGAATCAA
*
19084409 AATAAAAATAAAAAATTTAATTAATTGT
1 AATAAAAATAAAAAATTTAAATAATTGT
*
19084437 AATAAAATATTAAAAATTTAAATAATT
1 AATAAAA-ATAAAAAATTTAAATAATT
19084464 ATCAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (28 bp):
AATAAAAATAAAAAATTTAAATAATTGT
Found at i:19084776 original size:27 final size:27
Alignment explanation
Indices: 19084736--19084788 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
19084726 AGGAACCAAG
19084736 CCAGGGACCAGGGTTTCAGTGCCACAA
1 CCAGGGACCAGGGTTTCAGTGCCACAA
*
19084763 CCAGGGACCGGGGTTTCAGTGCCACA
1 CCAGGGACCAGGGTTTCAGTGCCACA
19084789 GTTGGACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.30, G:0.32, T:0.15
Consensus pattern (27 bp):
CCAGGGACCAGGGTTTCAGTGCCACAA
Found at i:19086730 original size:30 final size:31
Alignment explanation
Indices: 19086669--19086730 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
19086659 TATACAAAAT
* *
19086669 AAAATTATATTTGTTGAAACATAAATTATAG
1 AAAATTATATTTGTTCAAACATAAATAATAG
**
19086700 AAAA-TATATTTGTTCAAACATTGATAATAG
1 AAAATTATATTTGTTCAAACATAAATAATAG
19086730 A
1 A
19086731 TTTGGAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (31 bp):
AAAATTATATTTGTTCAAACATAAATAATAG
Found at i:19088258 original size:40 final size:40
Alignment explanation
Indices: 19088214--19088304 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
19088204 TAGCTTAGGT
* * *
19088214 CAAACATAATTATGTTCATGTGTGCAATTGAAAATGAATA
1 CAAACACAATTATGTTCACGTGTGCAATTGAAAATAAATA
*
19088254 CAAACACAATTATGTTCACGTGTGCAATTGAAGATAAATA
1 CAAACACAATTATGTTCACGTGTGCAATTGAAAATAAATA
*
19088294 CAAATACAATT
1 CAAACACAATT
19088305 CTCTTCATGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (40 bp):
CAAACACAATTATGTTCACGTGTGCAATTGAAAATAAATA
Found at i:19091461 original size:10 final size:9
Alignment explanation
Indices: 19091429--19091460 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
19091419 AAAAATTTTT
19091429 AAAATTAAA
1 AAAATTAAA
19091438 AAAATCTAAA
1 AAAAT-TAAA
19091448 AAAATTAAA
1 AAAATTAAA
19091457 AAAA
1 AAAA
19091461 ACTTGAGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAATTAAA
Found at i:19091524 original size:26 final size:25
Alignment explanation
Indices: 19091495--19091549 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
19091485 AAAAATGATG
* *
19091495 AAATGAAATATTT-TTAGAAATTATAA
1 AAATGAAAAATTTATTA-AAACT-TAA
*
19091521 AAATTAAAAATTTATTAAAACTTAA
1 AAATGAAAAATTTATTAAAACTTAA
19091546 AAAT
1 AAAT
19091550 TCAAAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 7 0.28
26 15 0.60
27 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (25 bp):
AAATGAAAAATTTATTAAAACTTAA
Found at i:19091540 original size:17 final size:18
Alignment explanation
Indices: 19091515--19091586 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
19091505 TTTTTAGAAA
19091515 TTATAAAAA-TTAAAAAT
1 TTATAAAAACTTAAAAAT
*
19091532 TTATTAAAACTTAAAAAT
1 TTATAAAAACTTAAAAAT
* ** *
19091550 TCA-AAAAATCTCCAAATT
1 TTATAAAAA-CTTAAAAAT
19091568 TTAATAAAAATCTTAAAAA
1 TT-ATAAAAA-CTTAAAAA
19091587 ATTCAAAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
17 12 0.29
18 17 0.41
19 1 0.02
20 11 0.27
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
TTATAAAAACTTAAAAAT
Found at i:19091613 original size:37 final size:37
Alignment explanation
Indices: 19091537--19091615 Score: 117
Period size: 37 Copynumber: 2.1 Consensus size: 37
19091527 AAAATTTATT
19091537 AAAA-CTTAAAAATTCAAAAAATCTCCAAATTTTAATA
1 AAAATCTTAAAAATTCAAAAAATCT-CAAATTTTAATA
*
19091574 AAAATCTTAAAAAATTCAAAAAATGT-AAATTTTAATA
1 AAAATCTT-AAAAATTCAAAAAATCTCAAATTTTAATA
19091611 AAAAT
1 AAAAT
19091616 AATTTTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
37 20 0.51
38 3 0.08
39 16 0.41
ACGTcount: A:0.59, C:0.09, G:0.01, T:0.30
Consensus pattern (37 bp):
AAAATCTTAAAAATTCAAAAAATCTCAAATTTTAATA
Found at i:19091664 original size:9 final size:10
Alignment explanation
Indices: 19091627--19091665 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
19091617 ATTTTTTTAC
19091627 AATT-AAAAA
1 AATTCAAAAA
19091636 AATTCAAAAA
1 AATTCAAAAA
19091646 AATTCAAAAA
1 AATTCAAAAA
*
19091656 AATTTAAAAA
1 AATTCAAAAA
19091666 TAAAAAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 4 0.14
10 24 0.86
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (10 bp):
AATTCAAAAA
Found at i:19091738 original size:21 final size:21
Alignment explanation
Indices: 19091714--19091769 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
19091704 AATAAAAATG
19091714 AAAATTTTTAAAAAAAT-TCTA
1 AAAATTTTTAAAAAAATCT-TA
* *
19091735 AAAATTTATAAAAAAATCTTT
1 AAAATTTTTAAAAAAATCTTA
*
19091756 AAAATTTTGAAAAA
1 AAAATTTTTAAAAA
19091770 TAAAAAACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAATTTTTAAAAAAATCTTA
Found at i:19091890 original size:24 final size:24
Alignment explanation
Indices: 19091837--19091891 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
19091827 ATAAACTATA
*
19091837 TAAAAAAATTAAAAATTGCAACAT
1 TAAAAAAATGAAAAATTGCAACAT
* * *
19091861 TGAAAAAATGAAAATTTTCATA-AT
1 TAAAAAAATGAAAAATTGCA-ACAT
19091885 TAAAAAA
1 TAAAAAA
19091892 TTTTACAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (24 bp):
TAAAAAAATGAAAAATTGCAACAT
Found at i:19091924 original size:19 final size:19
Alignment explanation
Indices: 19091884--19091922 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
19091874 ATTTTCATAA
*
19091884 TTAAAAAATTTTACAATTT
1 TTAAAAAATTTTAAAATTT
19091903 TTAAAAAA-TTTAAAATTT
1 TTAAAAAATTTTAAAATTT
19091921 TT
1 TT
19091923 TAGAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAAAATTTTAAAATTT
Found at i:19092089 original size:20 final size:19
Alignment explanation
Indices: 19092046--19092088 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
19092036 TTTTTTATAA
19092046 TTTTTAAAAATACTTCAAT
1 TTTTTAAAAATACTTCAAT
*
19092065 TTTTTAAAAA-ATTTACAAT
1 TTTTTAAAAATACTT-CAAT
19092084 TTTTT
1 TTTTT
19092089 TTAGTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTTAAAAATACTTCAAT
Found at i:19093415 original size:22 final size:21
Alignment explanation
Indices: 19093387--19093457 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
19093377 CAGTCTTTTT
**
19093387 TTTTTTTAATGTTTCAAAATTA
1 TTTTTTTAAAATTT-AAAATTA
*
19093409 TTTTTTTAACATTTAAAATT-
1 TTTTTTTAAAATTTAAAATTA
19093429 TTTATTTTAAAATTTTAAAATTA
1 TTT-TTTTAAAA-TTTAAAATTA
*
19093452 GTTTTT
1 TTTTTT
19093458 ATGAATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
20 3 0.07
21 13 0.31
22 24 0.57
23 2 0.05
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (21 bp):
TTTTTTTAAAATTTAAAATTA
Found at i:19093908 original size:33 final size:32
Alignment explanation
Indices: 19093867--19093931 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
19093857 TATAATACAT
19093867 AATTTTAATATAAAATATAATATAAATATATA
1 AATTTTAATATAAAATATAATATAAATATATA
*** *
19093899 AATTATTAATATTTTATATGATATAAATATATA
1 AATT-TTAATATAAAATATAATATAAATATATA
19093932 TTTAAATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (32 bp):
AATTTTAATATAAAATATAATATAAATATATA
Found at i:19094093 original size:23 final size:23
Alignment explanation
Indices: 19094066--19094116 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
19094056 TATCCATGCT
19094066 TTTTATTTTA-TTAATAAATATTA
1 TTTTATTTTATTTAA-AAATATTA
*
19094089 TTTTATTTTATTTAAAAATATTT
1 TTTTATTTTATTTAAAAATATTA
19094112 TTTTA
1 TTTTA
19094117 ATATTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTATTTTATTTAAAAATATTA
Found at i:19094125 original size:23 final size:23
Alignment explanation
Indices: 19094065--19094133 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
19094055 CTATCCATGC
*
19094065 TTTTTATTTTA-TTAATAAATATT
1 TTTTTATATTATTTAA-AAATATT
* *
19094088 ATTTTATTTTATTTAAAAATATT
1 TTTTTATATTATTTAAAAATATT
*
19094111 TTTTTAATATT-TTT-ATAATATT
1 TTTTT-ATATTATTTAAAAATATT
19094133 T
1 T
19094134 ATAAATTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 8 0.20
23 24 0.60
24 8 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTTATATTATTTAAAAATATT
Found at i:19094740 original size:12 final size:12
Alignment explanation
Indices: 19094711--19094769 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
19094701 ATAGATTTTT
*
19094711 AATTTTTATATA
1 AATTTTAATATA
*
19094723 TTATTTTAATATA
1 -AATTTTAATATA
19094736 AATTTTAATAT-
1 AATTTTAATATA
19094747 -A-TTTAA-ATA
1 AATTTTAATATA
*
19094756 AATGTTAATATA
1 AATTTTAATATA
19094768 AA
1 AA
19094770 ATTATTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
8 2 0.05
9 5 0.13
10 2 0.05
11 4 0.11
12 15 0.39
13 10 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (12 bp):
AATTTTAATATA
Found at i:19094758 original size:20 final size:21
Alignment explanation
Indices: 19094727--19094767 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
19094717 TATATATTAT
*
19094727 TTTAATATAAATTTTAATATA
1 TTTAATATAAATGTTAATATA
19094748 TTTAA-ATAAATGTTAATATA
1 TTTAATATAAATGTTAATATA
19094768 AAATTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAATATAAATGTTAATATA
Found at i:19094810 original size:19 final size:19
Alignment explanation
Indices: 19094786--19094828 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
19094776 ATTTTTATTT
* * *
19094786 TATAAAAATTTAAAATATA
1 TATAAAAACTAAAAAAATA
19094805 TATAAAAACTAAAAAAATA
1 TATAAAAACTAAAAAAATA
19094824 TATAA
1 TATAA
19094829 TTCAATTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
TATAAAAACTAAAAAAATA
Found at i:19095629 original size:12 final size:12
Alignment explanation
Indices: 19095612--19095637 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19095602 TAAACATTTG
19095612 ATAAATTAAAAA
1 ATAAATTAAAAA
19095624 ATAAATTAAAAA
1 ATAAATTAAAAA
19095636 AT
1 AT
19095638 CTTATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAAATTAAAAA
Found at i:19098441 original size:73 final size:73
Alignment explanation
Indices: 19098329--19098472 Score: 261
Period size: 73 Copynumber: 2.0 Consensus size: 73
19098319 TTACTTATTC
* *
19098329 TAAGATGAACAATTAGATGGCCTATTCCCTTGCAGCATTATCTAGCCACTTCTTTGCATGAATAA
1 TAAGATGAACAATTAGACGGCCTATTCCCTTGCAACATTATCTAGCCACTTCTTTGCATGAATAA
19098394 TTTACTTA
66 TTTACTTA
*
19098402 TAAGATGAACAATTAGACGGTCTATTCCCTTGCAACATTATCTAGCCACTTCTTTGCATGAATAA
1 TAAGATGAACAATTAGACGGCCTATTCCCTTGCAACATTATCTAGCCACTTCTTTGCATGAATAA
19098467 TTTACT
66 TTTACT
19098473 ATCATGCTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (73 bp):
TAAGATGAACAATTAGACGGCCTATTCCCTTGCAACATTATCTAGCCACTTCTTTGCATGAATAA
TTTACTTA
Found at i:19099938 original size:2 final size:2
Alignment explanation
Indices: 19099895--19099926 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19099885 TCAACTGCCA
19099895 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
19099927 TTACCCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19100911 original size:21 final size:21
Alignment explanation
Indices: 19100887--19100983 Score: 65
Period size: 21 Copynumber: 4.6 Consensus size: 21
19100877 ATGTTATAGC
19100887 AATTATTAT-TAAAAGTTTAAT
1 AATT-TTATATAAAAGTTTAAT
* *
19100908 AATTTTTTATAAAATTTTAAT
1 AATTTTATATAAAAGTTTAAT
* * * *
19100929 AACTTTA-ATACAATTTTAGT
1 AATTTTATATAAAAGTTTAAT
**
19100949 AATTTT-TAATATTAGTTTAAT
1 AATTTTAT-ATAAAAGTTTAAT
19100970 AATTTATAATATAA
1 AATTT-T-ATATAA
19100984 TTTTTTTAAC
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
20 19 0.33
21 34 0.59
22 1 0.02
23 3 0.05
24 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (21 bp):
AATTTTATATAAAAGTTTAAT
Found at i:19100945 original size:20 final size:20
Alignment explanation
Indices: 19100902--19100987 Score: 82
Period size: 21 Copynumber: 4.2 Consensus size: 20
19100892 TTATTAAAAG
* *
19100902 TTTAATAATTTTTTATAAAAT
1 TTTAATAA-TTTTAATATAAT
* *
19100923 TTTAATAACTTTAATACAAT
1 TTTAATAATTTTAATATAAT
* * *
19100943 TTTAGTAATTTTTAATATTAG
1 TTTAATAA-TTTTAATATAAT
19100964 TTTAATAATTTATAATATAAT
1 TTTAATAATTT-TAATATAAT
19100985 TTT
1 TTT
19100988 TTTAACCATT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
20 19 0.37
21 33 0.63
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTAATAATTTTAATATAAT
Found at i:19100966 original size:62 final size:64
Alignment explanation
Indices: 19100900--19101021 Score: 158
Period size: 62 Copynumber: 1.9 Consensus size: 64
19100890 TATTATTAAA
* * *
19100900 AGTTTAATAATTTTTTATAAAATTTTAATAA-CTTTAATACAATTTTAG-TAATTTTTAATATT
1 AGTTTAATAATTTATAATAAAATTTTAATAACCATTAATACAATTTTAGATAATTTTTAATATT
* ** * *
19100962 AGTTTAATAATTTATAATATAATTTTTTTAACCATTAATATAATTTTGGATAATTTTTAA
1 AGTTTAATAATTTATAATAAAATTTTAATAACCATTAATACAATTTTAGATAATTTTTAA
19101022 AAAACTTTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
62 26 0.52
63 14 0.28
64 10 0.20
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (64 bp):
AGTTTAATAATTTATAATAAAATTTTAATAACCATTAATACAATTTTAGATAATTTTTAATATT
Found at i:19101390 original size:22 final size:22
Alignment explanation
Indices: 19101358--19102004 Score: 166
Period size: 22 Copynumber: 29.3 Consensus size: 22
19101348 AATTATCAAT
* *
19101358 AATTATCAATGATTTATTATTA
1 AATTATTAATGATTTACTATTA
*
19101380 AGTTATTAATGATTTACTATTA
1 AATTATTAATGATTTACTATTA
* * * *
19101402 AATTATCATTAATTTACTACTA
1 AATTATTAATGATTTACTATTA
* *
19101424 ATTTATGAATGATTTACTATTA
1 AATTATTAATGATTTACTATTA
19101446 AACTT-TTAATGATTTA-TCATTA
1 AA-TTATTAATGATTTACT-ATTA
* * *
19101468 AATTACTAATAATTTATTA-TA
1 AATTATTAATGATTTACTATTA
*
19101489 AAGTTA-TAATTAATTTACTATTA
1 AA-TTATTAA-TGATTTACTATTA
* ** * *
19101512 ATTTATCGATAATTTACTA-CA
1 AATTATTAATGATTTACTATTA
*
19101533 AATGTATCAATGA-TTA--ATTA
1 AAT-TATTAATGATTTACTATTA
* * * * * *
19101553 ATTTACTATTAAATTA-TCACTA
1 AATTATTAATGATTTACT-ATTA
* * *
19101575 ATTTA-TAACTAAGTTATTAATGATTTA
1 AATTATTAA-T--GAT-TTACT-A-TTA
* * * * * *
19101602 CTACTATGTTATAATTTATTACTA
1 -AATTAT-TAATGATTTACTATTA
* * *
19101626 AATTATCAATAATTTATTATTA
1 AATTATTAATGATTTACTATTA
* *
19101648 TATTATT-ATGTATTTACTATTC
1 AATTATTAATG-ATTTACTATTA
* * * * *
19101670 TATTATCATTGATTTATTACCT-
1 AATTATTAATGATTTACTA-TTA
* * *
19101692 AGTT-TTCAATTATTTACTATAA
1 AATTATT-AATGATTTACTATTA
* * *
19101714 AATTA-TCATAGATTTATTACTA
1 AATTATTAAT-GATTTACTATTA
* * **
19101736 AATTATCAATGATTCACTACCA
1 AATTATTAATGATTTACTATTA
* *
19101758 AAATATTATTGATTTA-TATTA
1 AATTATTAATGATTTACTATTA
** *
19101779 AATTATCCATAATTTACTATTA
1 AATTATTAATGATTTACTATTA
* * * * *
19101801 AGTTATCACTGATTAACCATTA
1 AATTATTAATGATTTACTATTA
* * *
19101823 AGTTATTAATGTTTTACTATTG
1 AATTATTAATGATTTACTATTA
* * * *
19101845 AGTTA-TATTGATTTATTTTTA
1 AATTATTAATGATTTACTATTA
*
19101866 AATT-TTCAATGATTAACTATTA
1 AATTATT-AATGATTTACTATTA
* * * *
19101888 AATTATCATTGATTTATTACTA
1 AATTATTAATGATTTACTATTA
* *
19101910 AATTA-TATATGA-TAAGCTACTA
1 AATTATTA-ATGATTTA-CTATTA
* *
19101932 AATTTATTAATTAATTACTATTA
1 AA-TTATTAATGATTTACTATTA
*
19101955 AATTGA--AATTAATTTACTATTA
1 AATT-ATTAA-TGATTTACTATTA
* * *
19101977 AATTATCACTAATTTACTATTA
1 AATTATTAATGATTTACTATTA
*
19101999 AGTTAT
1 AATTAT
19102005 CATTGATATA
Statistics
Matches: 454, Mismatches: 128, Indels: 86
0.68 0.19 0.13
Matches are distributed among these distances:
19 6 0.01
20 6 0.01
21 58 0.13
22 328 0.72
23 32 0.07
24 6 0.01
25 4 0.01
26 6 0.01
27 3 0.01
28 2 0.00
29 1 0.00
30 2 0.00
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (22 bp):
AATTATTAATGATTTACTATTA
Found at i:19101408 original size:44 final size:44
Alignment explanation
Indices: 19101358--19102034 Score: 269
Period size: 44 Copynumber: 15.3 Consensus size: 44
19101348 AATTATCAAT
*
19101358 AATTATCAATGATTTATTATTAAGTTATTAATGATTTACTATTA
1 AATTATCAATGATTTATTATTAAATTATTAATGATTTACTATTA
* * * * * *
19101402 AATTATCATTAATTTACTACTAATTTATGAATGATTTACTATTA
1 AATTATCAATGATTTATTATTAAATTATTAATGATTTACTATTA
* * * * *
19101446 AACTT-TTAATGATTTATCATTAAATTACTAATAATTTATTA-TA
1 AA-TTATCAATGATTTATTATTAAATTATTAATGATTTACTATTA
* * * ** * *
19101489 AAGTTAT-AATTAATTTACTATTAATTTATCGATAATTTACTA-CA
1 AA-TTATCAA-TGATTTATTATTAAATTATTAATGATTTACTATTA
* * * *
19101533 AATGTATCAATGATTAATTAATTTACTATTAAATTATCACTAATTTA-TAACTA
1 AAT-TATCAATGA-T--TT-A--T--TATTAAATTATTAATGATTTACT-ATTA
* * * * * * * *
19101586 AGTTATTAATGATTTACTACT--A-TGTT-ATAATTTATTACTA
1 AATTATCAATGATTTATTATTAAATTATTAATGATTTACTATTA
* * *
19101626 AATTATCAATAATTTATTATTATATTATT-ATGTATTTACTATTC
1 AATTATCAATGATTTATTATTAAATTATTAATG-ATTTACTATTA
* * * * * *
19101670 TATTATCATTGATTTATTACCT-AGTT-TTCAATTATTTACTATAA
1 AATTATCAATGATTTATTA-TTAAATTATT-AATGATTTACTATTA
* * * **
19101714 AATTATC-ATAGATTTATTACTAAATTATCAATGATTCACTACCA
1 AATTATCAAT-GATTTATTATTAAATTATTAATGATTTACTATTA
* * * ** *
19101758 AAATATTATTGATTTA-TATTAAATTATCCATAATTTACTATTA
1 AATTATCAATGATTTATTATTAAATTATTAATGATTTACTATTA
* * * ** * * *
19101801 AGTTATCACTGATTAACCATTAAGTTATTAATGTTTTACTATTG
1 AATTATCAATGATTTATTATTAAATTATTAATGATTTACTATTA
* * * *
19101845 AGTTAT-ATTGATTTATTTTTAAATT-TTCAATGATTAACTATTA
1 AATTATCAATGATTTATTATTAAATTATT-AATGATTTACTATTA
* * * *
19101888 AATTATCATTGATTTATTACTAAATTA-TATATGA-TAAGCTACTA
1 AATTATCAATGATTTATTATTAAATTATTA-ATGATTTA-CTATTA
* * * * *
19101932 AATTTATTAATTAATTACTATTAAATTGA--AATTAATTTACTATTA
1 AA-TTATCAATGATTTATTATTAAATT-ATTAA-TGATTTACTATTA
* * * * * * * * *
19101977 AATTATCACTAATTTACTATTAAGTTATCATTGATATATTAATA
1 AATTATCAATGATTTATTATTAAATTATTAATGATTTACTATTA
*
19102021 AGTTATCAATGATT
1 AATTATCAATGATT
19102035 AACTACTAAG
Statistics
Matches: 471, Mismatches: 123, Indels: 78
0.70 0.18 0.12
Matches are distributed among these distances:
40 27 0.06
41 3 0.01
42 4 0.01
43 86 0.18
44 271 0.58
45 39 0.08
46 3 0.01
47 2 0.00
48 2 0.00
49 2 0.00
51 2 0.00
52 27 0.06
53 3 0.01
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (44 bp):
AATTATCAATGATTTATTATTAAATTATTAATGATTTACTATTA
Found at i:19101445 original size:66 final size:66
Alignment explanation
Indices: 19101358--19102046 Score: 252
Period size: 66 Copynumber: 10.4 Consensus size: 66
19101348 AATTATCAAT
*
19101358 AATTATCAATGATTTATTATTAAGTTATTAATGATTTACTATTAAATTATCATTAATTTACTACT
1 AATTATCAATGATTTACTATTAAGTTATTAATGATTTACTATTAAATTATCATTAATTTACTACT
19101423 A
66 A
* * * * *
19101424 ATTTATGAATGATTTACTATTAAACTT-TTAATGATTTA-TCATTAAATTA-CTAATAATTTATT
1 AATTATCAATGATTTACTATT-AAGTTATTAATGATTTACT-ATTAAATTATC-ATTAATTTACT
19101486 A-TA
63 ACTA
* * ** * * *
19101489 AAGTTAT-AATTAATTTACTATTAATTTATCGATAATTTACTACAAATGTATCAATGATTAATTA
1 AA-TTATCAA-TGATTTACTATTAAGTTATTAATGATTTACT----AT-TA--AATTA-TCATTA
*
19101553 ATTTACTATTA
56 ATTTACTACTA
* * * * *
19101564 AATTATCACTAATTTA-TAACTAAGTTATTAATGATTTACTACT--ATGT-T-A-TAATTTATTA
1 AATTATCAATGATTTACT-ATTAAGTTATTAATGATTTACTATTAAAT-TATCATTAATTTACTA
19101623 CTA
64 CTA
* * ** * *
19101626 AATTATCAATAATTTATTATTATA-TTATT-ATGTATTTACTATTCTATTATCATTGATTTATTA
1 AATTATCAATGATTTACTATTA-AGTTATTAATG-ATTTACTATTAAATTATCATTAATTTACTA
19101689 CCT-
64 -CTA
* * * * * * * * * * *
19101692 AGTTTTCAATTATTTACTATAAAATTA-TCATAGATTTATTACTAAATTATCAATGATTCACTAC
1 AATTATCAATGATTTACTATTAAGTTATTAAT-GATTTACTATTAAATTATCATTAATTTACTAC
*
19101756 CA
65 TA
* * * * ** * * * * * * *
19101758 AAATATTATTGATTTA-TATTAAATTATCCATAATTTACTATTAAGTTATCACTGATTAACCATT
1 AATTATCAATGATTTACTATTAAGTTATTAATGATTTACTATTAAATTATCATTAATTTACTACT
19101822 A
66 A
* * * * * * * * * * * *
19101823 AGTTATTAATGTTTTACTATTGAGTTA-TATTGATTTATTTTTAAATTTTCAATGATTAACTATT
1 AATTATCAATGATTTACTATTAAGTTATTAATGATTTACTATTAAATTATCATTAATTTACTACT
19101887 A
66 A
* * * * * * *
19101888 AATTATCATTGATTTATTACTAAATTA-TATATGA-TAAGCTACTAAATTTATTAATTAA-TTAC
1 AATTATCAATGATTTACTATTAAGTTATTA-ATGATTTA-CTATTAAA-TTA-TCATTAATTTAC
*
19101950 TATTA
62 TACTA
* * * * * * * * *
19101955 AATTGA--AATTAATTTACTATTAAATTATCACTAATTTACTATTAAGTTATCATTGATATATTA
1 AATT-ATCAA-TGATTTACTATTAAGTTATTAATGATTTACTATTAAATTATCATTAATTTACTA
*
19102018 ATA
64 CTA
* * *
19102021 AGTTATCAATGATTAACTACTAAGTT
1 AATTATCAATGATTTACTATTAAGTT
19102047 TTCAATTATT
Statistics
Matches: 463, Mismatches: 115, Indels: 90
0.69 0.17 0.13
Matches are distributed among these distances:
61 3 0.01
62 43 0.09
63 4 0.01
64 4 0.01
65 120 0.26
66 180 0.39
67 47 0.10
68 8 0.02
69 1 0.00
70 3 0.01
71 2 0.00
73 5 0.01
74 38 0.08
75 5 0.01
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (66 bp):
AATTATCAATGATTTACTATTAAGTTATTAATGATTTACTATTAAATTATCATTAATTTACTACT
A
Found at i:19101830 original size:65 final size:65
Alignment explanation
Indices: 19101703--19102011 Score: 180
Period size: 65 Copynumber: 4.7 Consensus size: 65
19101693 GTTTTCAATT
* * * * * ** *
19101703 ATTTACTATAAAATTATCA-TAGATTTATTACTAAATTATCAATGATTCACTACCAAAATATTAT
1 ATTTACTATTAAATTAT-ATTA-ATTTACTATTAAATTATCAATGATTAACCATTAAATTATTAT
19101767 TG
64 TG
* * * *
19101769 ATTTA-TATTAAATTATCCA-TAATTTACTATTAAGTTATCACTGATTAACCATTAAGTTATTAA
1 ATTTACTATTAAATTAT--ATTAATTTACTATTAAATTATCAATGATTAACCATTAAATTATTAT
19101832 TG
64 TG
* * * * * * * * *
19101834 TTTTACTATTGAGTTATATTGATTTATTTTTAAATTTTCAATGATTAACTATTAAATTATCATTG
1 ATTTACTATTAAATTATATTAATTTACTATTAAATTATCAATGATTAACCATTAAATTATTATTG
* * * * * * * *
19101899 ATTTATTACTAAATTATATATGA-TAAGCTACTAAATTTATTAATTAATT-ACTATTAAATTGA-
1 ATTTACTATTAAATTATAT-TAATTTA-CTATTAAA-TTATCAA-TGATTAACCATTAAATT-AT
* *
19101961 AATTA
61 TATTG
* * *
19101966 ATTTACTATTAAATTATCACTAATTTACTATTAAGTTATCATTGAT
1 ATTTACTATTAAATTAT-ATTAATTTACTATTAAATTATCAATGAT
19102012 ATATTAATAA
Statistics
Matches: 184, Mismatches: 49, Indels: 21
0.72 0.19 0.08
Matches are distributed among these distances:
64 1 0.01
65 102 0.55
66 31 0.17
67 42 0.23
68 8 0.04
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (65 bp):
ATTTACTATTAAATTATATTAATTTACTATTAAATTATCAATGATTAACCATTAAATTATTATTG
Found at i:19102044 original size:22 final size:22
Alignment explanation
Indices: 19101991--19102052 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
19101981 ATCACTAATT
* *
19101991 TACTATTAAGTTATCATTGATA
1 TACTAATAAGTTATCAATGATA
*
19102013 TATTAATAAGTTATCAATGAT-
1 TACTAATAAGTTATCAATGATA
* *
19102034 TAACTACTAAGTTTTCAAT
1 T-ACTAATAAGTTATCAAT
19102053 TATTTTTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.44
Consensus pattern (22 bp):
TACTAATAAGTTATCAATGATA
Found at i:19102740 original size:60 final size:60
Alignment explanation
Indices: 19102611--19102833 Score: 287
Period size: 59 Copynumber: 3.8 Consensus size: 60
19102601 TTGTGCAGGG
* * * **
19102611 AAAATTGATACTTTTAACTTTTTCCT-AAAAATATTCTTTTGAAATTTTAATTTCGAAG-
1 AAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTTTTAAGA
*
19102669 AAAATTGATACTTTCAAC-TTTTCCTCAAAAACCTTTTTTTTTGAAA-TTTAATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCCTCAAAAA--TATTTTTTTGAAACTTTAATTTTTAAGA
* * *
19102729 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTGGAAACTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTTTTAAGA
19102788 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATTGATTTTTTTGAAA
1 AAAATTGATACTTTCAACTTTTTCCTCAAAAA-T-ATTTTTTTGAAA
19102834 ATTGATTTTT
Statistics
Matches: 146, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
57 7 0.05
58 39 0.27
59 47 0.32
60 36 0.25
61 17 0.12
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTTTTAAGA
Found at i:19102842 original size:119 final size:117
Alignment explanation
Indices: 19102611--19102843 Score: 337
Period size: 119 Copynumber: 2.0 Consensus size: 117
19102601 TTGTGCAGGG
* * *
19102611 AAAATTGATACTTTTAACTTTTTCCTAAAAATATTCTTTTGAAATTTTAATTTCGAAGAAAATTG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTCTTTTGAAATTTGAATTTCGAAGAAAATTG
*
19102676 ATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTGAAATTTAATTTTTAAGA
66 ATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTTTGAAAATTAATTTTTAAGA
*
19102729 AAAATTGATACTTTCAACTTTTTCCCAAAAATATT-TTTTGGAAACTTTGATTTTC-AAGAAAAA
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTCTTTT-GAAA-TTTGAATTTCGAAG-AAAA
*
19102792 TTGATACTTTCAACTTTTCCTCAAAAA-TTGATTTTTTTGAAAATTGATTTTT
63 TTGATACTTTCAACTTTTCCTCAAAAACTT--TTTTTTTGAAAATTAATTTTT
19102844 TTTTTGGATT
Statistics
Matches: 104, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
117 6 0.06
118 40 0.38
119 58 0.56
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (117 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTCTTTTGAAATTTGAATTTCGAAGAAAATTG
ATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTGAAAATTAATTTTTAAGA
Found at i:19102846 original size:17 final size:16
Alignment explanation
Indices: 19102815--19102845 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19102805 CTTTTCCTCA
19102815 AAAATTGATTTTTTTG
1 AAAATTGATTTTTTTG
19102831 AAAATTGATTTTTTT
1 AAAATTGATTTTTTT
19102846 TTTGGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
AAAATTGATTTTTTTG
Found at i:19103842 original size:18 final size:18
Alignment explanation
Indices: 19103815--19103925 Score: 54
Period size: 21 Copynumber: 6.1 Consensus size: 18
19103805 AAAAAGAAAG
*
19103815 AAATCTGATAAATAAAAA
1 AAATCAGATAAATAAAAA
*
19103833 AAATCAGATAAACGAAAAA
1 AAATCAGATAAA-TAAAAA
*
19103852 AAA--A-A-GAA-AAAAA
1 AAATCAGATAAATAAAAA
* *
19103865 TAA-CAGATAATTAAAAATA
1 AAATCAGATAAAT-AAAA-A
*
19103884 ATAATAAGATAAATAAAAA
1 A-AATCAGATAAATAAAAA
*
19103903 ATATTACAAGATAAATAAAAA
1 A-AAT-C-AGATAAATAAAAA
19103924 AA
1 AA
19103926 TAATAAATAA
Statistics
Matches: 71, Mismatches: 11, Indels: 20
0.70 0.11 0.20
Matches are distributed among these distances:
13 7 0.10
14 1 0.01
15 3 0.04
16 2 0.03
17 1 0.01
18 15 0.21
19 14 0.20
20 7 0.10
21 21 0.30
ACGTcount: A:0.71, C:0.05, G:0.06, T:0.18
Consensus pattern (18 bp):
AAATCAGATAAATAAAAA
Found at i:19103852 original size:19 final size:18
Alignment explanation
Indices: 19103815--19103854 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19103805 AAAAAGAAAG
* *
19103815 AAATCTGATAAATAAAAA
1 AAATCAGATAAAGAAAAA
19103833 AAATCAGATAAACGAAAAA
1 AAATCAGATAAA-GAAAAA
19103852 AAA
1 AAA
19103855 AAGAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (18 bp):
AAATCAGATAAAGAAAAA
Found at i:19103895 original size:21 final size:20
Alignment explanation
Indices: 19103858--19103935 Score: 88
Period size: 21 Copynumber: 3.9 Consensus size: 20
19103848 AAAAAAAAAG
* *
19103858 AAAAAAATAA-CAGATAATT
1 AAAAAAATAATAAGATAAAT
19103877 AAAAATAATAATAAGATAAAT
1 AAAAA-AATAATAAGATAAAT
* *
19103898 AAAAAATATTACAAGATAAAT
1 AAAAAA-ATAATAAGATAAAT
19103919 AAAAAAATAATAA-ATAA
1 AAAAAAATAATAAGATAA
19103936 GTTATAATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
19 9 0.18
20 11 0.22
21 30 0.60
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.22
Consensus pattern (20 bp):
AAAAAAATAATAAGATAAAT
Found at i:19103895 original size:52 final size:47
Alignment explanation
Indices: 19103800--19103896 Score: 113
Period size: 47 Copynumber: 2.0 Consensus size: 47
19103790 CCAAAAAAAA
* * *
19103800 AAAAAAAAAAGAAAGAAATCTGATAAATAAAAAAAATCAGATAAACG
1 AAAAAAAAAAGAAAAAAATCAGATAAATAAAAAAAATAAGATAAACG
*
19103847 AAAAAAAAAAGAAAAAAATAACAGATAATTAAAAATAATAATAAGATAAA
1 AAAAAAAAAAGAAAAAAAT--CAGATAAAT-AAAA-AA-AATAAGATAAA
19103897 TAAAAAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
47 18 0.44
49 7 0.17
50 4 0.10
51 2 0.05
52 10 0.24
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.14
Consensus pattern (47 bp):
AAAAAAAAAAGAAAAAAATCAGATAAATAAAAAAAATAAGATAAACG
Found at i:19103983 original size:25 final size:24
Alignment explanation
Indices: 19103877--19103975 Score: 75
Period size: 22 Copynumber: 4.1 Consensus size: 24
19103867 ACAGATAATT
19103877 AAAAATA-ATAA-TAAGATAAAT-A
1 AAAAATATATAACT-AGATAAATAA
*
19103899 AAAAATAT-T-ACAAGATAAATAA
1 AAAAATATATAACTAGATAAATAA
*
19103921 AAAAATA-ATAAATAAGTTATAATATAA
1 AAAAATATATAACT-AG--ATAA-ATAA
19103948 TAATAAATATATAACTAGATAAATAA
1 -AA-AAATATATAACTAGATAAATAA
19103974 AA
1 AA
19103976 TACATATAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 21
0.71 0.05 0.24
Matches are distributed among these distances:
21 9 0.15
22 17 0.28
23 1 0.02
24 2 0.03
25 2 0.03
26 8 0.13
27 8 0.13
28 2 0.03
29 7 0.11
30 5 0.08
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (24 bp):
AAAAATATATAACTAGATAAATAA
Found at i:19104104 original size:22 final size:22
Alignment explanation
Indices: 19104074--19104121 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
19104064 ACAAAGGAAG
*
19104074 AAAAAAATATTAAATA-AAAAT
1 AAAAAAATATAAAATACAAAAT
19104095 AAAAATAATATAAAATACAAAAT
1 AAAAA-AATATAAAATACAAAAT
19104118 AAAA
1 AAAA
19104122 GCTAAATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.21
22 10 0.42
23 9 0.38
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAAAAATATAAAATACAAAAT
Found at i:19104109 original size:17 final size:17
Alignment explanation
Indices: 19104086--19104119 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19104076 AAAAATATTA
19104086 AATA-AAAATA-AAAAT
1 AATATAAAATACAAAAT
19104101 AATATAAAATACAAAAT
1 AATATAAAATACAAAAT
19104118 AA
1 AA
19104120 AAGCTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 6 0.35
17 7 0.41
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AATATAAAATACAAAAT
Found at i:19104290 original size:12 final size:13
Alignment explanation
Indices: 19104269--19104297 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
19104259 CAACTCGACA
19104269 TTTTTATTTTTTG
1 TTTTTATTTTTTG
19104282 TTTTT-TTTTTTG
1 TTTTTATTTTTTG
19104294 TTTT
1 TTTT
19104298 ACCAAAGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.03, C:0.00, G:0.07, T:0.90
Consensus pattern (13 bp):
TTTTTATTTTTTG
Found at i:19104404 original size:42 final size:42
Alignment explanation
Indices: 19104304--19104478 Score: 228
Period size: 41 Copynumber: 4.2 Consensus size: 42
19104294 TTTTACCAAA
* * *
19104304 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAATA
1 GCTCCTCTAAGCAGAGGCACAACGACTTTG-GAAAAATAAATT
* **
19104347 GCTCCTCTAATCAGAGGTTCAACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAGCAGAGGCACAACGACTTTGGAAAAATAAATT
* *
19104389 GCTCCTCTAAGCAGAGGCACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAGCAGAGGCACAACGACTTTGGAAAAATAAATT
* * *
19104430 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAGCAGAGGCACAACGACTTTGGAAAAATAAATT
19104471 GCTCCTCT
1 GCTCCTCT
19104479 GTTTGGAAAG
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
41 57 0.47
42 36 0.30
43 28 0.23
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAGCAGAGGCACAACGACTTTGGAAAAATAAATT
Found at i:19104457 original size:83 final size:84
Alignment explanation
Indices: 19104304--19104478 Score: 246
Period size: 83 Copynumber: 2.1 Consensus size: 84
19104294 TTTTACCAAA
* * **
19104304 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAATAGCTCCTCTAATCAGAGGTTCAA
1 GCTCCTCTAAGCAGAGGCACAACGACTTTGAGAAACATAAATAGCTCCTCTAAACAGAGGCACAA
19104369 CGACTTTGGAAAAATAAATT
66 CGACTTTGG-AAAATAAATT
* * * *
19104389 GCTCCTCTAAGCAGAGGCACCACGACTTTGA-AAA-GTAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAGCAGAGGCACAACGACTTTGAGAAACATAAATAGCTCCTCTAAACAGAGGCACAA
*
19104452 CGACTTTGGAAAGTAAATT
66 CGACTTTGGAAAATAAATT
19104471 GCTCCTCT
1 GCTCCTCT
19104479 GTTTGGAAAG
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
82 17 0.21
83 32 0.40
84 3 0.04
85 29 0.36
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (84 bp):
GCTCCTCTAAGCAGAGGCACAACGACTTTGAGAAACATAAATAGCTCCTCTAAACAGAGGCACAA
CGACTTTGGAAAATAAATT
Found at i:19104488 original size:24 final size:24
Alignment explanation
Indices: 19104456--19104502 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
19104446 GCACCACGAC
19104456 TTTGGAAAGTAAATTGCTCCTCTG
1 TTTGGAAAGTAAATTGCTCCTCTG
19104480 TTTGGAAAGTAAATTGCTCCTCT
1 TTTGGAAAGTAAATTGCTCCTCT
19104503 AAACAGAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (24 bp):
TTTGGAAAGTAAATTGCTCCTCTG
Found at i:19104524 original size:65 final size:65
Alignment explanation
Indices: 19104415--19104543 Score: 240
Period size: 65 Copynumber: 2.0 Consensus size: 65
19104405 GCACCACGAC
*
19104415 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTG
1 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTG
*
19104480 TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
1 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
19104544 AAACAGAGGC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (65 bp):
TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTG
Found at i:19104542 original size:41 final size:41
Alignment explanation
Indices: 19104480--19104706 Score: 359
Period size: 41 Copynumber: 5.5 Consensus size: 41
19104470 TGCTCCTCTG
*
19104480 TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
1 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
*
19104521 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGAC
1 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
* * *
19104562 TTTAAAAAGTAAATTGCTCCTTTAAACAGAGGCACCACAAC
1 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
19104603 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
1 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
*
19104644 TTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTA--ACGAAAC
1 TTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG--AC
19104686 TTTGAAAAGTAAATTGCTCCT
1 TTTGAAAAGTAAATTGCTCCT
19104707 TGACAATAAT
Statistics
Matches: 173, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
40 3 0.02
41 135 0.78
42 35 0.20
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (41 bp):
TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
Found at i:19104571 original size:106 final size:107
Alignment explanation
Indices: 19104373--19104582 Score: 368
Period size: 106 Copynumber: 2.0 Consensus size: 107
19104363 GTTCAACGAC
*
19104373 TTTGGAAAAATAAATTGCTCCTCTAAGCAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
1 TTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
**
19104438 AAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTG
66 AAACAGAGGCACCACGACTTTAAAAAGTAAATTGCTCCTCTG
*
19104480 TTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
1 TTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
*
19104544 AAACAGAGGCACCATGACTTTAAAAAGTAAATTGCTCCT
66 AAACAGAGGCACCACGACTTTAAAAAGTAAATTGCTCCT
19104583 TTAAACAGAG
Statistics
Matches: 98, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
106 93 0.95
107 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (107 bp):
TTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
AAACAGAGGCACCACGACTTTAAAAAGTAAATTGCTCCTCTG
Found at i:19104612 original size:147 final size:148
Alignment explanation
Indices: 19104341--19104625 Score: 455
Period size: 147 Copynumber: 1.9 Consensus size: 148
19104331 TTGAGAAACA
* ** *
19104341 TAAATAGCTCCTCTAATCAGAGGTTCAACGACTTTGGAAAAATAAATTGCTCCTCTAAGCAGAGG
1 TAAATAGCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGG
* * *
19104406 CACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
66 CACCACGACTTTAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
19104471 GCTCCTCTGTTTGGAAAG
131 GCTCCTCTGTTTGGAAAG
* * *
19104489 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG
1 TAAATAGCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGG
* *
19104553 CACCATGACTTTAAAAAGTAAATTGCTCCTTTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
66 CACCACGACTTTAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
19104618 GCTCCTCT
131 GCTCCTCT
19104626 AAACAGAGGC
Statistics
Matches: 125, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
147 95 0.76
148 30 0.24
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (148 bp):
TAAATAGCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGG
CACCACGACTTTAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
GCTCCTCTGTTTGGAAAG
Found at i:19105056 original size:43 final size:42
Alignment explanation
Indices: 19104996--19105077 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 42
19104986 TTTGGTAAAC
* *
19104996 TTGGAATTCATATCCAAAAA-TCTAAAGCTTTTCGTTTGAATT
1 TTGGAATTCACATCCAAAAATTC-AAAGCTTTTCATTTGAATT
19105038 TTGGAGATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
1 TTGGA-ATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
19105078 GTTCAAAGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 5 0.14
43 29 0.81
44 2 0.06
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (42 bp):
TTGGAATTCACATCCAAAAATTCAAAGCTTTTCATTTGAATT
Found at i:19106365 original size:8 final size:8
Alignment explanation
Indices: 19106362--19106421 Score: 54
Period size: 8 Copynumber: 7.8 Consensus size: 8
19106352 GGTTTTCTTT
19106362 TTTTTTCA
1 TTTTTTCA
19106370 TTTTTTCA
1 TTTTTTCA
*
19106378 TTTTCTCA
1 TTTTTTCA
19106386 TTTTTTTCA
1 -TTTTTTCA
**
19106395 TTCATTCA
1 TTTTTTCA
*
19106403 TTCTTT--
1 TTTTTTCA
19106409 TTTTTTC-
1 TTTTTTCA
19106416 TTTTTT
1 TTTTTT
19106422 TTTTCATCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
6 5 0.11
7 6 0.14
8 26 0.59
9 7 0.16
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTCA
Found at i:19106381 original size:17 final size:17
Alignment explanation
Indices: 19106362--19106410 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
19106352 GGTTTTCTTT
19106362 TTTTTTCA-TTTTTTCA
1 TTTTTTCATTTTTTTCA
*
19106378 TTTTCTCATTTTTTTCA
1 TTTTTTCATTTTTTTCA
**
19106395 TTCATTCATTCTTTTT
1 TTTTTTCATT-TTTTT
19106411 TTTTCTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 7 0.26
17 15 0.56
18 5 0.19
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTCATTTTTTTCA
Found at i:19106414 original size:25 final size:25
Alignment explanation
Indices: 19106354--19106414 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
19106344 CCCTTTCAGG
**
19106354 TTTTC-TTTTTTTTTCATTTTTTCA
1 TTTTCTTTTTTTTTTCATTCATTCA
**
19106378 TTTTCTCATTTTTTTCATTCATTCA
1 TTTTCTTTTTTTTTTCATTCATTCA
19106403 --TTCTTTTTTTTT
1 TTTTCTTTTTTTTT
19106415 CTTTTTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 10 0.33
24 5 0.17
25 15 0.50
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTCTTTTTTTTTTCATTCATTCA
Found at i:19106419 original size:29 final size:28
Alignment explanation
Indices: 19106387--19106458 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
19106377 ATTTTCTCAT
19106387 TTTTTTCATTCATTCATTCTTTTTTTTTC
1 TTTTTTCATTCATTCA-TCTTTTTTTTTC
**
19106416 TTTTTTTTTTCA-TCATCTTTTTTTTTC
1 TTTTTTCATTCATTCATCTTTTTTTTTC
*
19106443 TCATTTTTCATCCATT
1 T--TTTTTCATTCATT
19106459 GTTGATATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 13 0.37
28 3 0.09
29 18 0.51
30 1 0.03
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTTTTCATTCATTCATCTTTTTTTTTC
Found at i:19106449 original size:27 final size:29
Alignment explanation
Indices: 19106395--19106450 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
19106385 ATTTTTTTCA
**
19106395 TTCATTCATTCTTTTTTTTTCTTTTTTTT
1 TTCATTCATTCTTTTTTTTTCTCATTTTT
19106424 TTCA-TCA-TCTTTTTTTTTCTCATTTTT
1 TTCATTCATTCTTTTTTTTTCTCATTTTT
19106451 CATCCATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 18 0.72
28 3 0.12
29 4 0.16
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (29 bp):
TTCATTCATTCTTTTTTTTTCTCATTTTT
Found at i:19110930 original size:18 final size:18
Alignment explanation
Indices: 19110902--19110946 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
19110892 CGGATTATTT
* *
19110902 AAAGAAAAAAAATAAA-A
1 AAAGAATAAAAAGAAAGA
19110919 ATAAGAATAAAAAGAAAGA
1 A-AAGAATAAAAAGAAAGA
19110938 AAAGAATAA
1 AAAGAATAA
19110947 TTGTTCTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.88
19 2 0.08
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (18 bp):
AAAGAATAAAAAGAAAGA
Found at i:19111027 original size:58 final size:58
Alignment explanation
Indices: 19110963--19111127 Score: 226
Period size: 58 Copynumber: 2.8 Consensus size: 58
19110953 TTGTGCAGAA
* *
19110963 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTCTTTTGAAATTTTA-ATTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATT-TTTTGAAAATTTATATTTTAAGG
** *
19111021 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAAATTTATTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATATTTTAAGG
19111079 AAAATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-T-A-TTTTTTGAAAATT
19111128 GATTTTTTTT
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
57 12 0.13
58 69 0.73
59 1 0.01
61 13 0.14
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATATTTTAAGG
Found at i:19111139 original size:18 final size:16
Alignment explanation
Indices: 19111106--19111136 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19111096 CTTTTCCTCA
19111106 AAAATTGATTTTTTTG
1 AAAATTGATTTTTTTG
19111122 AAAATTGATTTTTTT
1 AAAATTGATTTTTTT
19111137 TTGGATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
AAAATTGATTTTTTTG
Found at i:19111199 original size:11 final size:11
Alignment explanation
Indices: 19111166--19111209 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
19111156 AATAAAATAA
19111166 TAAAATAAAAG
1 TAAAATAAAAG
*
19111177 TGAGAAAAAAAAG
1 T-A-AAATAAAAG
19111190 TAAAATAAAAG
1 TAAAATAAAAG
19111201 TAAAATAAA
1 TAAAATAAA
19111210 GATAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 18 0.62
12 2 0.07
13 9 0.31
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (11 bp):
TAAAATAAAAG
Found at i:19111204 original size:6 final size:5
Alignment explanation
Indices: 19111147--19111216 Score: 54
Period size: 5 Copynumber: 13.2 Consensus size: 5
19111137 TTGGATTTTT
* *
19111147 ATAAA AAAAA ATAAA AT--A ATAAA ATAAA AGTGAGAA AAAAA AGTAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A-T-A-AA ATAAA A-TAAA
19111194 ATAAA AGTAAA ATAAA GATAAA A
1 ATAAA A-TAAA ATAAA -ATAAA A
19111217 GAACATTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
3 3 0.06
5 30 0.57
6 16 0.30
7 1 0.02
8 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.16
Consensus pattern (5 bp):
ATAAA
Found at i:19111205 original size:17 final size:17
Alignment explanation
Indices: 19111185--19111217 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19111175 AGTGAGAAAA
19111185 AAAAGTAAA-ATAAAAGT
1 AAAA-TAAAGATAAAAGT
19111202 AAAATAAAGATAAAAG
1 AAAATAAAGATAAAAG
19111218 AACATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATAAAGATAAAAGT
Found at i:19112113 original size:19 final size:19
Alignment explanation
Indices: 19112084--19112130 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
19112074 AAAAAAAGAA
*
19112084 AAAAAAGAAATCTGATAAAC
1 AAAAAA-AAATCAGATAAAC
19112104 AAAAAAAAATCAGATAAAC
1 AAAAAAAAATCAGATAAAC
19112123 AAAAAAAA
1 AAAAAAAA
19112131 GAAGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.11
Consensus pattern (19 bp):
AAAAAAAAATCAGATAAAC
Found at i:19112139 original size:31 final size:30
Alignment explanation
Indices: 19112104--19112176 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
19112094 TCTGATAAAC
19112104 AAAAAAAAATCAGATAAACAAAAAAAAGAAG
1 AAAAAAAAA-CAGATAAACAAAAAAAAGAAG
** *
19112135 AAAAAAATAACAGATAATTAAAAAAAATAAG
1 AAAAAAA-AACAGATAAACAAAAAAAAGAAG
19112166 ATAAATAAAAA
1 A-AAA-AAAAA
19112177 ATATTACAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
31 26 0.72
32 7 0.19
33 3 0.08
ACGTcount: A:0.77, C:0.04, G:0.07, T:0.12
Consensus pattern (30 bp):
AAAAAAAAACAGATAAACAAAAAAAAGAAG
Found at i:19112151 original size:50 final size:49
Alignment explanation
Indices: 19112073--19112177 Score: 124
Period size: 49 Copynumber: 2.1 Consensus size: 49
19112063 TCAACCCAAA
* *
19112073 AAAAAAAAGAAAAAAAAGAAATCTGATAAACAAAAAAAAATCAGATAAAC
1 AAAAAAAAGAAAAAAAAGAAATCAGAT-AACAAAAAAAAATAAGATAAAC
** *
19112123 AAAAAAAAGAAGAAAAAA-ATAA-CAGATAATTAAAAAAAATAAGATAAAT
1 AAAAAAAAGAA-AAAAAAGA-AATCAGATAACAAAAAAAAATAAGATAAAC
19112172 AAAAAA
1 AAAAAA
19112178 TATTACAAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
49 24 0.50
50 16 0.33
51 8 0.17
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (49 bp):
AAAAAAAAGAAAAAAAAGAAATCAGATAACAAAAAAAAATAAGATAAAC
Found at i:19112161 original size:21 final size:20
Alignment explanation
Indices: 19112135--19112199 Score: 80
Period size: 18 Copynumber: 3.3 Consensus size: 20
19112125 AAAAAAGAAG
*
19112135 AAAAAAATAACAGATAATTA
1 AAAAAAATAACAGATAAATA
19112155 AAAAAAAT-A-AGATAAATA
1 AAAAAAATAACAGATAAATA
* *
19112173 AAAAATATTACAAGATAAATA
1 AAAAAAATAAC-AGATAAATA
19112194 AAAAAA
1 AAAAAA
19112200 TAATAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.38
19 2 0.05
20 8 0.21
21 14 0.36
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAAAAATAACAGATAAATA
Found at i:19112173 original size:4 final size:4
Alignment explanation
Indices: 19112159--19112340 Score: 61
Period size: 4 Copynumber: 43.5 Consensus size: 4
19112149 TAATTAAAAA
* * *
19112159 AAAT AAGAT AAAT AAA- AAAT ATTAC AAGAT AAAT AAAA AAAT -AAT AAAT
1 AAAT AA-AT AAAT AAAT AAAT A-AAT AA-AT AAAT AAAT AAAT AAAT AAAT
* * * *
19112208 AAATT ATAAT ATAAT -AAT AAAT ATAT GACT AGAT AAAT AAAAT ACATAT
1 AAA-T A-AAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A-A-AT
* * * * * * *
19112257 AAAT ATTAAT AGAA- AAAA AAAT AAAT AAAG ATAT ACAT ATAT TAAT ACAT
1 AAAT A--AAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
19112307 AGTAAT -AAT AAAT AAAT AAAT -AAT AAAT ACAT AA
1 A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
19112341 GATACAAAGG
Statistics
Matches: 132, Mismatches: 28, Indels: 36
0.67 0.14 0.18
Matches are distributed among these distances:
3 17 0.13
4 79 0.60
5 25 0.19
6 11 0.08
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:19112178 original size:36 final size:35
Alignment explanation
Indices: 19112136--19112210 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 35
19112126 AAAAAGAAGA
*
19112136 AAAAAATA-AC-AGATAATTAAAAAAAATAAGATAAAT
1 AAAAAATATACAAGATAAAT-AAAAAAAT-A-ATAAAT
19112172 AAAAAATATTACAAGATAAATAAAAAAATAATAAAT
1 AAAAAATA-TACAAGATAAATAAAAAAATAATAAAT
19112208 AAA
1 AAA
19112211 TTATAATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 17 0.49
37 1 0.03
38 10 0.29
39 7 0.20
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (35 bp):
AAAAAATATACAAGATAAATAAAAAAATAATAAAT
Found at i:19112209 original size:19 final size:19
Alignment explanation
Indices: 19112135--19112230 Score: 72
Period size: 19 Copynumber: 5.1 Consensus size: 19
19112125 AAAAAAGAAG
* *
19112135 AAAAAAATAACAGAT-AAT
1 AAAAAAATAATAAATAAAT
*
19112153 TAAAAAA-AATAAGATAAAT
1 AAAAAAATAATAA-ATAAAT
* *
19112172 AAAAAATATTACAAGATAAAT
1 AAAAAA-ATAATAA-ATAAAT
19112193 AAAAAAATAATAAATAAAT
1 AAAAAAATAATAAATAAAT
* * *
19112212 TATAATATAAT-AATAAAT
1 AAAAAAATAATAAATAAAT
19112230 A
1 A
19112231 TATGACTAGA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
17 3 0.05
18 15 0.24
19 22 0.35
20 6 0.10
21 16 0.26
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAAAAATAATAAATAAAT
Found at i:19112361 original size:41 final size:40
Alignment explanation
Indices: 19112271--19112375 Score: 95
Period size: 41 Copynumber: 2.5 Consensus size: 40
19112261 ATTAATAGAA
* * * * *
19112271 AAAAAAATAAATAAAGATATACATATATTAATACATAGTAA-
1 AAAAAAATAAATAAA-A-ATAAATACATAAATACAAAGGAAG
* *
19112312 TAATAAATAAATAAATAATAAATACATAAGATACAAAGGAAG
1 AAAAAAATAAATAAA-AATAAATACATAA-ATACAAAGGAAG
19112354 AAAAAATATAAATAAAAATAAA
1 AAAAAA-ATAAATAAAAATAAA
19112376 AATAAAAATA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
40 9 0.18
41 23 0.45
42 10 0.20
43 9 0.18
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.23
Consensus pattern (40 bp):
AAAAAAATAAATAAAAATAAATACATAAATACAAAGGAAG
Found at i:19112372 original size:6 final size:6
Alignment explanation
Indices: 19112355--19112405 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
19112345 CAAAGGAAGA
* *
19112355 AAAAAT ATAAAT AAAAAT AAAAAT AAAAAT -AATAT -AAAAT ACAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT
19112402 AAAA
1 AAAA
19112406 GTCAAATTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 8 0.21
6 25 0.64
7 6 0.15
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:19112391 original size:17 final size:17
Alignment explanation
Indices: 19112355--19112405 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
19112345 CAAAGGAAGA
*
19112355 AAAAATATAAATAAAAAT
1 AAAAATAAAAAT-AAAAT
*
19112373 AAAAATAAAAATAATAT
1 AAAAATAAAAATAAAAT
19112390 -AAAATACAAAATAAAA
1 AAAAATA-AAAATAAAA
19112406 GTCAAATTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 6 0.21
17 12 0.41
18 11 0.38
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAATAAAAATAAAAT
Found at i:19112391 original size:23 final size:24
Alignment explanation
Indices: 19112355--19112405 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
19112345 CAAAGGAAGA
19112355 AAAAATATAAATAAAAATA-AAAAT
1 AAAAATATAAAT-AAAATACAAAAT
*
19112379 AAAAATA-ATATAAAATACAAAAT
1 AAAAATATAAATAAAATACAAAAT
19112402 AAAA
1 AAAA
19112406 GTCAAATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 12 0.48
24 7 0.28
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (24 bp):
AAAAATATAAATAAAATACAAAAT
Found at i:19112593 original size:50 final size:50
Alignment explanation
Indices: 19112538--19112639 Score: 172
Period size: 50 Copynumber: 2.0 Consensus size: 50
19112528 TCAAATTTAG
19112538 AATTTTTTTGTTAAATTTTTTATTGAAA-AGGTTTA-TGGTAAGTTTATTCT
1 AATTTTTTTGTTAAATTTTTTATT-AAATAGG-TTAGTGGTAAGTTTATTCT
19112588 AATTTTTTTGTTAAATTTTTTATTAAATAGGTTAGTGGTAAGTTTATTCT
1 AATTTTTTTGTTAAATTTTTTATTAAATAGGTTAGTGGTAAGTTTATTCT
19112638 AA
1 AA
19112640 CCCCTAAGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
49 6 0.12
50 44 0.88
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.55
Consensus pattern (50 bp):
AATTTTTTTGTTAAATTTTTTATTAAATAGGTTAGTGGTAAGTTTATTCT
Found at i:19112847 original size:22 final size:22
Alignment explanation
Indices: 19112788--19112847 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
19112778 CTAAACTTTC
* *
19112788 AATGATTTACCATTAAGTTATG
1 AATGATTTACTATTAAGCTATG
*
19112810 AATGATTTTCTATTAAGCTATG
1 AATGATTTACTATTAAGCTATG
* *
19112832 AATTATTTACTTTTAA
1 AATGATTTACTATTAA
19112848 ATTATTGATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (22 bp):
AATGATTTACTATTAAGCTATG
Found at i:19112861 original size:22 final size:22
Alignment explanation
Indices: 19112836--19112928 Score: 98
Period size: 22 Copynumber: 4.2 Consensus size: 22
19112826 GCTATGAATT
*
19112836 ATTTACTTTTAAATTATTGATA
1 ATTTACTATTAAATTATTGATA
* *
19112858 ATTTGCTACTAAATTATTGATA
1 ATTTACTATTAAATTATTGATA
* * * *
19112880 ATATATTATGAAATTA-TAACTA
1 ATTTACTATTAAATTATTGA-TA
*
19112902 ATTTACTATTAATTTATTGATA
1 ATTTACTATTAAATTATTGATA
19112924 ATTTA
1 ATTTA
19112929 TCACAAAATT
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
21 2 0.04
22 51 0.93
23 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAATTATTGATA
Found at i:19112938 original size:44 final size:44
Alignment explanation
Indices: 19112846--19112953 Score: 110
Period size: 44 Copynumber: 2.5 Consensus size: 44
19112836 ATTTACTTTT
** * * **
19112846 AAATTATTGATAATTTGCTACTAAATTATTGATAATATATTATG
1 AAATTATCAATAATTTACTACTAAATTATTGATAATATATCACA
* * *
19112890 AAATTAT-AACTAATTTACTATTAATTTATTGATAATTTATCACA
1 AAATTATCAA-TAATTTACTACTAAATTATTGATAATATATCACA
*
19112934 AAATTATCAATAATTAACTA
1 AAATTATCAATAATTTACTA
19112954 ATGTACTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
43 1 0.02
44 50 0.94
45 2 0.04
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (44 bp):
AAATTATCAATAATTTACTACTAAATTATTGATAATATATCACA
Found at i:19112940 original size:22 final size:23
Alignment explanation
Indices: 19112845--19112940 Score: 78
Period size: 22 Copynumber: 4.3 Consensus size: 23
19112835 TATTTACTTT
*
19112845 TAAATTATTGATAATTT-GCTAC
1 TAAATTATTGATAATTTATCTAC
*
19112867 TAAATTATTGATAATATAT-TA-
1 TAAATTATTGATAATTTATCTAC
* *
19112888 TGAAATTA-TAACTAATTTA-CTAT
1 T-AAATTATTGA-TAATTTATCTAC
*
19112911 TAATTTATTGATAATTTATC-AC
1 TAAATTATTGATAATTTATCTAC
*
19112933 AAAATTAT
1 TAAATTAT
19112941 CAATAATTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
21 3 0.05
22 51 0.88
23 4 0.07
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (23 bp):
TAAATTATTGATAATTTATCTAC
Found at i:19113012 original size:21 final size:21
Alignment explanation
Indices: 19112974--19113013 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19112964 AAATTATCCA
*
19112974 TAATTTACAATTAAGTTATAG
1 TAATTTACAACTAAGTTATAG
* *
19112995 TAATTTACTACTACGTTAT
1 TAATTTACAACTAAGTTAT
19113014 TACTGATTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
TAATTTACAACTAAGTTATAG
Done.