Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_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: 3533819
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 18
Found at i:11404 original size:27 final size:25
Alignment explanation
Indices: 11374--11423 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
11364 TTATAAAAAT
11374 ATTTAAATAATATAAATTATAATCTAG
1 ATTTAAATAATAT-AA-TATAATCTAG
*
11401 ATTTAATTAATATAATATAATCT
1 ATTTAAATAATATAATATAATCT
11424 GTCCATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.36
26 2 0.09
27 12 0.55
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (25 bp):
ATTTAAATAATATAATATAATCTAG
Found at i:12704 original size:22 final size:22
Alignment explanation
Indices: 12670--12711 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12660 TTTAAGTATG
* *
12670 TTTTTATAATTTTATAATTTAA
1 TTTTAATAATTTTAAAATTTAA
*
12692 TTTTAATATTTTTAAAATTT
1 TTTTAATAATTTTAAAATTT
12712 TATACTACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTAATAATTTTAAAATTTAA
Found at i:12791 original size:3 final size:3
Alignment explanation
Indices: 12783--12817 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
12773 GTGTATATAG
* *
12783 TAT TAT TAT TAT TAT TGT TAT TAT TGT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
12818 AAATAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14196 original size:18 final size:18
Alignment explanation
Indices: 14173--14236 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
14163 TGTCACAAAC
*
14173 GATAATCGTGCTTCCAAT
1 GATAATCGTGCTTCCTAT
* * *
14191 GATAATCATGCTTCTTAC
1 GATAATCGTGCTTCCTAT
*
14209 GATAATCGGGCTTCCTAT
1 GATAATCGTGCTTCCTAT
14227 GATAATCGTG
1 GATAATCGTG
14237 TTTCTTATAG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (18 bp):
GATAATCGTGCTTCCTAT
Found at i:14222 original size:36 final size:36
Alignment explanation
Indices: 14171--14243 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
14161 TGTGTCACAA
*
14171 ACGATAATCGTGCTTCCAATGATAATCATGCTTCTT
1 ACGATAATCGGGCTTCCAATGATAATCATGCTTCTT
* * *
14207 ACGATAATCGGGCTTCCTATGATAATCGTGTTTCTT
1 ACGATAATCGGGCTTCCAATGATAATCATGCTTCTT
14243 A
1 A
14244 TAGGAGTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (36 bp):
ACGATAATCGGGCTTCCAATGATAATCATGCTTCTT
Found at i:27141 original size:17 final size:17
Alignment explanation
Indices: 27119--27151 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27109 ATAAAAAATA
27119 TTTTTAATTA-ATTATTG
1 TTTTT-ATTATATTATTG
27136 TTTTTATTATATTATT
1 TTTTTATTATATTATT
27152 TAACAATCAA
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:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTTATTATATTATTG
Found at i:34302 original size:17 final size:17
Alignment explanation
Indices: 34280--34323 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
34270 TTCATAAATC
34280 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
34297 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
34314 -AAATATCCAA
1 CAAA-ATCCAA
34324 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:34315 original size:9 final size:8
Alignment explanation
Indices: 34275--34325 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
34265 CACCATTCAT
34275 AAATCC-A
1 AAATCCAA
34282 AAATCCAA
1 AAATCCAA
*
34290 CAATCCACA
1 AAATCCA-A
34299 AAAT-CAA
1 AAATCCAA
34306 ACAATCCAA
1 A-AATCCAA
34315 AATATCCAA
1 AA-ATCCAA
34324 AA
1 AA
34326 TGTTGAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 8 0.22
8 13 0.35
9 16 0.43
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATCCAA
Found at i:44756 original size:20 final size:20
Alignment explanation
Indices: 44723--44781 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
44713 TTTAATTAAA
* *
44723 AAATAATTTACAATTAATTT
1 AAATAATATCCAATTAATTT
44743 AAATAATATCCAATT-A--T
1 AAATAATATCCAATTAATTT
*
44760 AAATAATATCTAATTAATTT
1 AAATAATATCCAATTAATTT
44780 AA
1 AA
44782 TTCAAACATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 15 0.45
18 1 0.03
19 1 0.03
20 16 0.48
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATAATATCCAATTAATTT
Found at i:44764 original size:17 final size:17
Alignment explanation
Indices: 44738--44775 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
44728 ATTTACAATT
44738 AATT-TAAATAATATCC
1 AATTATAAATAATATCC
*
44754 AATTATAAATAATATCT
1 AATTATAAATAATATCC
44771 AATTA
1 AATTA
44776 ATTTAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTATAAATAATATCC
Found at i:47594 original size:698 final size:697
Alignment explanation
Indices: 45908--47996 Score: 4102
Period size: 698 Copynumber: 3.0 Consensus size: 697
45898 CCTTAATCCT
45908 TTACGTGTCTCCAATTATATAAACATTTCTTTTATATTTATTTGTCATAAACCAATTTAATTTAT
1 TTACGTGTCTCCAATTATATAAACATTTCTTTTATATTTATTTGTCATAAACCAATTTAATTTAT
45973 ATTGAATACTGGAGATATTAAATATGGACCATCCCAACTCAATTGTTTGCATTCATAATATTACT
66 ATTGAATACTGGAGATATTAAATATGGACCATCCCAACTCAATTGTTTGCATTCATAATATTACT
46038 ATTCGAACTTACTTAACAAATTTAATGCCTCATTTCACTAAATCAAATGTATGCGCCACTTTCTC
131 ATTCGAACTTACTTAACAAATTTAATGCCTCATTTCACTAAATCAAATGTATGCGCCACTTTCTC
46103 -ATTTTGCAAGCCATAATAGCAACAAGATTGAAAGGCACA-AAAGATGATCCAATGACAGAGACT
196 AATTTTGCAAGCCATAATAGCAACAAGATTGAAAGGCACACAAAGATGATCCAATGACAGAGACT
46166 GCCTGTAGGTTGGTATTGTCTAAATATTGTTGTGACTCTCTCTTCAACAAGAAAGCTCGATATGT
261 GCCTGTAGGTTGGTATTGTCTAAATATTGTTGTGACTCTCTCTTCAACAAGAAAGCTCGATATGT
46231 GGTATTGTATGCAACAGTGATGGAGAATGGCTCATTTGTTTTTAAAAGAACATTGGGTTTGCTTC
326 GGTATTGTATGCAACAGTGATGGAGAATGGCTCATTTGTTTTTAAAAGAACATTGGGTTTGCTTC
46296 AGTGCTACTCGCAGAGCTTTGAGGATTCTTTGAAGGCCTTCAGCTTGTTTGGCCATACGAGTTAG
391 AGTGCTACTCGCAGAGCTTTGAGGATTCTTTGAAGGCCTTCAGCTTGTTTGGCCATACGAGTTAG
46361 AGCTTCACCTAATACAAATTGAAAATGATGAAGTTGTGTATCTTCTTTAGGATCCCTATGTTTAG
456 AGCTTCACCTAATACAAATTGAAAATGATGAAGTTGTGTATCTTCTTTAGGATCCCTATGTTTAG
46426 GGATGATCATAGGTTGGACAAAATC-GGTTCTTAGTCC-CTAAAACTTGATCTAAAAGTTAAATC
521 GGATGATCATAGGTTGGACAAAATCGGGTTCTTAGTCCACTAAAACTTGATCTAAAAGTTAAATC
46489 TCTCTATTTGTATCTGATCTAATTTAAATTTAGGAGTATCCTATTGTTGGGACCATCAGTACATC
586 TCTCTATTTGTATCTGATCTAATTTAAATTTAGGAGTATCCTATTGTTGGGACCATCAGTACATC
46554 TCAGGACAATTAATTAGTTAATTAATGACATC---AATTAAGAAATA
651 TCAGGACAATTAATTAGTTAATTAATGACATCATTAATTAAGAAATA
46598 TTACGTGTCTCCAATTATATAAACATTTCTTTTATATTTATTTGTCATAAACCAATTTAATTTAT
1 TTACGTGTCTCCAATTATATAAACATTTCTTTTATATTTATTTGTCATAAACCAATTTAATTTAT
46663 ATTGAATACTGGAGATATTAAATATGGACCATCCCAACTCAATTGTTTGCATTCATAATATTACT
66 ATTGAATACTGGAGATATTAAATATGGACCATCCCAACTCAATTGTTTGCATTCATAATATTACT
46728 ATTCGAACTTACTTAACAAATTTAATGCCTCATTTCACTAAATCAAATGTATGCGCCACTTTCTC
131 ATTCGAACTTACTTAACAAATTTAATGCCTCATTTCACTAAATCAAATGTATGCGCCACTTTCTC
46793 AATTTTGCAAGCCATAATAGCAACAAGATTGAAAGGCACACAAAGATGATCCAATGACAGAGACT
196 AATTTTGCAAGCCATAATAGCAACAAGATTGAAAGGCACACAAAGATGATCCAATGACAGAGACT
46858 GCCTGTAGGTTGGTATTGTCTAAATATTGTTGTGACTCTCTCTTCAACAAGAAAGCTCGATATGT
261 GCCTGTAGGTTGGTATTGTCTAAATATTGTTGTGACTCTCTCTTCAACAAGAAAGCTCGATATGT
46923 GGTATTGTATGCAACAGTGATGGAGAATGGCTCATTTGTTTTTAAAAGAACATTGGGTTTGCTTC
326 GGTATTGTATGCAACAGTGATGGAGAATGGCTCATTTGTTTTTAAAAGAACATTGGGTTTGCTTC
46988 AGTGCTACTCGCAGAGCTTTGAGGATTCTTTGAAGGCCTTCAGCTTGTTTGGCCATACGAGTTAG
391 AGTGCTACTCGCAGAGCTTTGAGGATTCTTTGAAGGCCTTCAGCTTGTTTGGCCATACGAGTTAG
47053 AGCTTCACCTAATACAAATTGAAAATGATGAAGTTGTGTATCTTCTTTAGGATCCCTATGTTTAG
456 AGCTTCACCTAATACAAATTGAAAATGATGAAGTTGTGTATCTTCTTTAGGATCCCTATGTTTAG
47118 GGATGATCATAGGTTGGACAAAATCGGGTTCTTAGTCCACTAAAACTTGATCTAAAAGTTAAATC
521 GGATGATCATAGGTTGGACAAAATCGGGTTCTTAGTCCACTAAAACTTGATCTAAAAGTTAAATC
47183 TCTCTATTTGTATCTGATCTAATTTAAATTTAGGAGTATCCTATTGTTGGGACCATCAGTACATC
586 TCTCTATTTGTATCTGATCTAATTTAAATTTAGGAGTATCCTATTGTTGGGACCATCAGTACATC
47248 TCAGGACAATTAATTAGTTAATTAATGACATCAATTAATTAAGAAATA
651 TCAGGACAATTAATTAGTTAATTAATGACATC-ATTAATTAAGAAATA
47296 TTACGTGTCTCCAATTATATAAACATTTCTTTTATATTTATTTGTCATAAACCAATTTAATTTAT
1 TTACGTGTCTCCAATTATATAAACATTTCTTTTATATTTATTTGTCATAAACCAATTTAATTTAT
47361 ATTGAATACTGGAGATATTAAATATGGACCATCCCAACTCAATTGTTTGCATTCATAATATTACT
66 ATTGAATACTGGAGATATTAAATATGGACCATCCCAACTCAATTGTTTGCATTCATAATATTACT
47426 ATTCGAACTTACTTAACAAATTTAATGCCTCATTTCACTAAATCAAATGTATGCGCCACTTTCTC
131 ATTCGAACTTACTTAACAAATTTAATGCCTCATTTCACTAAATCAAATGTATGCGCCACTTTCTC
47491 AATTTTGCAAGCCATAATAGCAACAAGATTGAAAGGCACACAAAGATGATCCAATGACAGAGACT
196 AATTTTGCAAGCCATAATAGCAACAAGATTGAAAGGCACACAAAGATGATCCAATGACAGAGACT
47556 GCCTGTAGGTTGGTATTGTCTAAATATTGTTGTGACTCTCTCTTCAACAAGAAAGCTCGATATGT
261 GCCTGTAGGTTGGTATTGTCTAAATATTGTTGTGACTCTCTCTTCAACAAGAAAGCTCGATATGT
47621 GGTATTGTATGCAACAGTGATGGAGAATGGCTCATTTGTTTTTAAAAGAACATTGGGTTTGCTTC
326 GGTATTGTATGCAACAGTGATGGAGAATGGCTCATTTGTTTTTAAAAGAACATTGGGTTTGCTTC
47686 AGTGCTACTCGCAGAGCTTTGAGGATTCTTTGAAGGCCTTCAGCTTGTTTGGCCATACGAGTTAG
391 AGTGCTACTCGCAGAGCTTTGAGGATTCTTTGAAGGCCTTCAGCTTGTTTGGCCATACGAGTTAG
47751 AGCTTCACCTAATACAAATTGAAAATGATGAAGTTGTGTATCTTCTTTAGGATCCCTATGTTTAG
456 AGCTTCACCTAATACAAATTGAAAATGATGAAGTTGTGTATCTTCTTTAGGATCCCTATGTTTAG
47816 GGATGATCATAGGTTGGACAAAATCGGGTTCTTAGTCCACTAAAACTTGATCTAAAAGTTAAATC
521 GGATGATCATAGGTTGGACAAAATCGGGTTCTTAGTCCACTAAAACTTGATCTAAAAGTTAAATC
*
47881 TCTCTATTTGTATCTGATCTAATTTAAATTTAGGAGTATCCTATTGTTGGAACCATCAGTACATC
586 TCTCTATTTGTATCTGATCTAATTTAAATTTAGGAGTATCCTATTGTTGGGACCATCAGTACATC
47946 TCAGGACAATTAATTAGTTTAATTAATGACATCATTAATTAAGAAATA
651 TCAGGACAATTAATTAG-TTAATTAATGACATCATTAATTAAGAAATA
47994 TTA
1 TTA
47997 AATTTAATTA
Statistics
Matches: 1389, Mismatches: 1, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
690 195 0.14
691 39 0.03
692 309 0.22
693 12 0.01
694 123 0.09
698 696 0.50
699 15 0.01
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (697 bp):
TTACGTGTCTCCAATTATATAAACATTTCTTTTATATTTATTTGTCATAAACCAATTTAATTTAT
ATTGAATACTGGAGATATTAAATATGGACCATCCCAACTCAATTGTTTGCATTCATAATATTACT
ATTCGAACTTACTTAACAAATTTAATGCCTCATTTCACTAAATCAAATGTATGCGCCACTTTCTC
AATTTTGCAAGCCATAATAGCAACAAGATTGAAAGGCACACAAAGATGATCCAATGACAGAGACT
GCCTGTAGGTTGGTATTGTCTAAATATTGTTGTGACTCTCTCTTCAACAAGAAAGCTCGATATGT
GGTATTGTATGCAACAGTGATGGAGAATGGCTCATTTGTTTTTAAAAGAACATTGGGTTTGCTTC
AGTGCTACTCGCAGAGCTTTGAGGATTCTTTGAAGGCCTTCAGCTTGTTTGGCCATACGAGTTAG
AGCTTCACCTAATACAAATTGAAAATGATGAAGTTGTGTATCTTCTTTAGGATCCCTATGTTTAG
GGATGATCATAGGTTGGACAAAATCGGGTTCTTAGTCCACTAAAACTTGATCTAAAAGTTAAATC
TCTCTATTTGTATCTGATCTAATTTAAATTTAGGAGTATCCTATTGTTGGGACCATCAGTACATC
TCAGGACAATTAATTAGTTAATTAATGACATCATTAATTAAGAAATA
Found at i:51396 original size:54 final size:54
Alignment explanation
Indices: 51333--51443 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 54
51323 AAATTTAAAC
**
51333 TTACATCTTAAACACTAAATTATAACTCATAACCCATAAATTATAAGCCTTAAG
1 TTACATCTTAAACACTAAATTATAACTCATAACCCATAAATTATAAAACTTAAG
51387 TTACATCTTAAACACTAAATTATAACTCATAACCCATAAATTATAAAACTTAAG
1 TTACATCTTAAACACTAAATTATAACTCATAACCCATAAATTATAAAACTTAAG
51441 TTA
1 TTA
51444 TAAAATCATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (54 bp):
TTACATCTTAAACACTAAATTATAACTCATAACCCATAAATTATAAAACTTAAG
Found at i:51500 original size:19 final size:21
Alignment explanation
Indices: 51460--51520 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
51450 CATAAATCTT
*
51460 AAATAAA-ATAAATTGTATTA
1 AAATAAATATAAATTATATTA
51480 AAATAAATA-AAATTATA-TA
1 AAATAAATATAAATTATATTA
*
51499 AACTAAATATCAAATTTATATT
1 AAATAAATAT-AAA-TTATATT
51521 TGATTATTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 10 0.29
20 14 0.41
21 4 0.12
22 5 0.15
23 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATAAATATAAATTATATTA
Found at i:51542 original size:46 final size:46
Alignment explanation
Indices: 51491--51580 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
51481 AATAAATAAA
* *
51491 ATTATATAAACTAAATATCAAATTTATATTTGATTATTTGTTTGAT
1 ATTATAAAAACTAAATATCAAAGTTATATTTGATTATTTGTTTGAT
*
51537 ATTATAAAAACTAAATTTCAAAGTTATATTTGATTATTTGTTTG
1 ATTATAAAAACTAAATATCAAAGTTATATTTGATTATTTGTTTG
51581 GTTTCATCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (46 bp):
ATTATAAAAACTAAATATCAAAGTTATATTTGATTATTTGTTTGAT
Found at i:52051 original size:60 final size:60
Alignment explanation
Indices: 51944--52061 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 60
51934 TATGAAACAA
* * *
51944 TCCTTTGACTATGGGACATTATTTTGTTAAGTGTCTTAATTACTAAAAGTTATAAAATGG
1 TCCTTTGACTATAGGACATTATTTTGTTAAGTGCCTTAATTACTAAAAGTTACAAAATGG
* * * *
52004 TCCTTTGACTATATGACATTATTTTGTTGAGT-CCATTGATTATTAAAAGTTACAAAAT
1 TCCTTTGACTATAGGACATTATTTTGTTAAGTGCC-TTAATTACTAAAAGTTACAAAAT
52062 AGGCACTTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 1 0.02
60 49 0.98
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (60 bp):
TCCTTTGACTATAGGACATTATTTTGTTAAGTGCCTTAATTACTAAAAGTTACAAAATGG
Found at i:52943 original size:40 final size:38
Alignment explanation
Indices: 52899--52979 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
52889 GTTTTTAGAC
*
52899 AAACGCCACAATAGTAT-TAATCAATAGTGGCGTTTTTTAT
1 AAACGCCACAAAAGTATGTAAT--ATAGTGGCGTTTTTT-T
* *
52939 AAACGCCGCAAAAGTATGTGATATAGTGGCGTTTTTTT
1 AAACGCCACAAAAGTATGTAATATAGTGGCGTTTTTTT
52977 AAA
1 AAA
52980 ACGTCGCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 4 0.11
39 15 0.41
40 15 0.41
41 3 0.08
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (38 bp):
AAACGCCACAAAAGTATGTAATATAGTGGCGTTTTTTT
Found at i:53681 original size:150 final size:147
Alignment explanation
Indices: 53444--53726 Score: 413
Period size: 150 Copynumber: 1.9 Consensus size: 147
53434 TTTTGGTATC
* * * * * * *
53444 AAACGCCGTAAATAATTCGGACTTTAGTGGCGTTTTGATAGAAAATGCCGCAAATTTTTTTATTT
1 AAACGCCGCAAATAATTCGGACATTAATGGCATTTAGATAAAAAACGCCGCAAATTTTTTTATTT
* * *
53509 AAACGTCATTAACTTTAGACATATAGCGGCGTTTTTTAATAAACGTCACAATAGATTAGTACTTT
66 AAACGTCATTAACTTTAGACATATAGCGGCGTTTTTTAATAAACGCCACAACAAATTAGTACTTT
53574 AGCGGTGTTTTGATAAA
131 AGCGGTGTTTTGATAAA
* *
53591 AAACGCCGCAAATGATTCGTACATTAATGGCATTTAGATAAAAAAACGCCGCAAATGTTTTTTTA
1 AAACGCCGCAAATAATTCGGACATTAATGGCATTTAGAT-AAAAAACGCCGCAAA--TTTTTTTA
* *
53656 TTTAAACGTCATTAACTTTATACATATAGCGGCGTTTTTTAATAAACGCCGCAACAAATTAGTAC
63 TTTAAACGTCATTAACTTTAGACATATAGCGGCGTTTTTTAATAAACGCCACAACAAATTAGTAC
53721 TTTAGC
128 TTTAGC
53727 AACGTTTTGA
Statistics
Matches: 119, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
147 32 0.27
148 13 0.11
150 74 0.62
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (147 bp):
AAACGCCGCAAATAATTCGGACATTAATGGCATTTAGATAAAAAACGCCGCAAATTTTTTTATTT
AAACGTCATTAACTTTAGACATATAGCGGCGTTTTTTAATAAACGCCACAACAAATTAGTACTTT
AGCGGTGTTTTGATAAA
Found at i:53883 original size:190 final size:191
Alignment explanation
Indices: 53581--53958 Score: 589
Period size: 190 Copynumber: 2.0 Consensus size: 191
53571 TTTAGCGGTG
* *
53581 TTTTGATAAAAAACGCCGCAAATGATTCGTACATTAATGGCATTTAGATAAAAAAACGCCGCAAA
1 TTTTGATAAAAAACACCGCAAATGATTCGTACATTAATGGCATTTAGACAAAAAAACGCCGCAAA
* * *
53646 TGTTTTTTTATTTAAACGTCATTAACTTTATACATATAGCGGCGTTTTTTAATAAACGCCGCAAC
66 TGATATTTTATTTAAACGTCATTAACTTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAAC
* *
53711 AAATTAGTACTTTAGCAACGTTTTGACAAAAATGTCATAATAGGGTT-CATATATAGCGATA
131 AAATTAGTACTTTAGCAACGTTTTGACAAAAACGTCATAATA-GGTTGCACATATAGCGATA
* * * * * *
53772 TTTTGGTAACAAACACCGCAAATGATTCGTACATTAGTGGCGTTTAGACAAAAAAATGTCGCAAA
1 TTTTGATAAAAAACACCGCAAATGATTCGTACATTAATGGCATTTAGACAAAAAAACGCCGCAAA
*
53837 T-ATATTTTATTTAAACGTCATTAACTTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAAT
66 TGATATTTTATTTAAACGTCATTAACTTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAAC
* *
53901 AAATTAGTACTTTAGCAGCGTTTTGACAAAAACGTCGTAATAGGTTGCACATATAGCG
131 AAATTAGTACTTTAGCAACGTTTTGACAAAAACGTCATAATAGGTTGCACATATAGCG
53959 GCGCTGTAGT
Statistics
Matches: 170, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
189 4 0.02
190 108 0.64
191 58 0.34
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (191 bp):
TTTTGATAAAAAACACCGCAAATGATTCGTACATTAATGGCATTTAGACAAAAAAACGCCGCAAA
TGATATTTTATTTAAACGTCATTAACTTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAAC
AAATTAGTACTTTAGCAACGTTTTGACAAAAACGTCATAATAGGTTGCACATATAGCGATA
Found at i:53973 original size:190 final size:191
Alignment explanation
Indices: 53591--54027 Score: 585
Period size: 190 Copynumber: 2.3 Consensus size: 191
53581 TTTTGATAAA
* * * *
53591 AAACGCCGCAAATGATTCGTACATTAATGGCATTTAGATAAAAAAACGCCGCAAATGTTTTTTTA
1 AAACACCGCAAATGATTCGTACATTAATGGCATTTAGACAAAAAAACGCCGCAAATGATATTTTA
*
53656 TTTAAACGTCATTAACTTTATACATATAGCGGCGTTTTTTAATAAACGCCGCAACAAATTAGTAC
66 TTTAAACGTCATTAACTTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAACAAATTAGTAC
* * * * * *
53721 TTTAGCAACGTTTTGACAAAAATGTCATAATAGGGTTCATATATAGCGATATTTTGGTAAC
131 TTTAGCAACGTTTTGACAAAAACGTCATAATAGGGTTCACATATAGCGACACTGTAGTAAC
* * * *
53782 AAACACCGCAAATGATTCGTACATTAGTGGCGTTTAGACAAAAAAATGTCGCAAAT-ATATTTTA
1 AAACACCGCAAATGATTCGTACATTAATGGCATTTAGACAAAAAAACGCCGCAAATGATATTTTA
*
53846 TTTAAACGTCATTAACTTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAATAAATTAGTAC
66 TTTAAACGTCATTAACTTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAACAAATTAGTAC
* * * *
53911 TTTAGCAGCGTTTTGACAAAAACGTCGTAATA-GGTTGCACATATAGCGGCGCTGTAGTAAC
131 TTTAGCAACGTTTTGACAAAAACGTCATAATAGGGTT-CACATATAGCGACACTGTAGTAAC
* * * * ** *
53972 AAACACCGTAAATTA-ACGATACATTTATGGTGTTTTGAC-AAAAAACGCCGCAAATG
1 AAACACCGCAAATGATTCG-TACATTAATGGCATTTAGACAAAAAAACGCCGCAAATG
54028 TTTTTAACAT
Statistics
Matches: 214, Mismatches: 29, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
189 20 0.09
190 144 0.67
191 50 0.23
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (191 bp):
AAACACCGCAAATGATTCGTACATTAATGGCATTTAGACAAAAAAACGCCGCAAATGATATTTTA
TTTAAACGTCATTAACTTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAACAAATTAGTAC
TTTAGCAACGTTTTGACAAAAACGTCATAATAGGGTTCACATATAGCGACACTGTAGTAAC
Found at i:55013 original size:12 final size:12
Alignment explanation
Indices: 54996--55020 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54986 TTTTCTTGTA
54996 TTATATTTGTTG
1 TTATATTTGTTG
55008 TTATATTTGTTG
1 TTATATTTGTTG
55020 T
1 T
55021 GCTTGTGAAT
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:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (12 bp):
TTATATTTGTTG
Found at i:63357 original size:43 final size:43
Alignment explanation
Indices: 63289--63534 Score: 194
Period size: 43 Copynumber: 5.7 Consensus size: 43
63279 TACAGACCTT
* * *
63289 AACGCCGCAAAACATCAACACCTACTGCGGCGTTTGTGAGAAA
1 AACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGAGAAA
* * * * * * * *
63332 AACGTCACAAAATATCAACACCTACTACGACATTT-TAGATAAA
1 AACGCCGCTAAATATCAACACCTATTGCGGCGTTTGT-GAGAAA
* * * *
63375 AACGCCGCTAAACATCATA-ACCTATTACGACGTTTGTCTA-AAA
1 AACGCCGCTAAATATCA-ACACCTATTGCGGCGTTTGT-GAGAAA
* * * *
63418 AACGTCGCTAAATATCAACACCTATTGCGGAGTTT-TTATGATA
1 AACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGA-GAAA
* * * *
63461 AACGCCGTTAAATATCAACACCTATTGCAGCGTTTGTGTGACA
1 AACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGAGAAA
* * *
63504 AATGCCGCTAAATATCAATACATATTGCGGC
1 AACGCCGCTAAATATCAACACCTATTGCGGC
63535 ATTTTTTGTT
Statistics
Matches: 163, Mismatches: 33, Indels: 14
0.78 0.16 0.07
Matches are distributed among these distances:
41 2 0.01
42 3 0.02
43 154 0.94
44 4 0.02
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (43 bp):
AACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGAGAAA
Found at i:63464 original size:86 final size:85
Alignment explanation
Indices: 63289--63539 Score: 233
Period size: 86 Copynumber: 2.9 Consensus size: 85
63279 TACAGACCTT
* * * * * *
63289 AACGCCGCAAAACATCAACACCTACTGCGGCGTTTGTGAGAAAAACGTCACAAAATATCAACACC
1 AACGCCGCTAAACATCAACACCTATTGCGACGTTTGTTA-AAAAACGTCGCTAAATATCAACACC
* *
63354 TACTAC-GACATTTTAGATAAA
65 TATTGCGGACATTTTAGAT-AA
*
63375 AACGCCGCTAAACATCATA-ACCTATTACGACGTTTGTCTAAAAAACGTCGCTAAATATCAACAC
1 AACGCCGCTAAACATCA-ACACCTATTGCGACGTTTGT-TAAAAAACGTCGCTAAATATCAACAC
**
63439 CTATTGCGGAGTTTTTATGAT-A
64 CTATTGCGGACATTTTA-GATAA
* * * * * * *
63461 AACGCCGTTAAATATCAACACCTATTGC-AGCGTTTGTGTGACAAATGCCGCTAAATATCAATAC
1 AACGCCGCTAAACATCAACACCTATTGCGA-CGTTTGT-TAAAAAACGTCGCTAAATATCAACAC
*
63525 ATATTGCGG-CATTTT
64 CTATTGCGGACATTTT
63540 TTGTTAAAAA
Statistics
Matches: 136, Mismatches: 23, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
85 6 0.04
86 118 0.87
87 9 0.07
88 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (85 bp):
AACGCCGCTAAACATCAACACCTATTGCGACGTTTGTTAAAAAACGTCGCTAAATATCAACACCT
ATTGCGGACATTTTAGATAA
Found at i:64644 original size:14 final size:16
Alignment explanation
Indices: 64610--64646 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
64600 TTTCGGTTCA
64610 GTTCGGGTTTTTTAACG
1 GTTCGGGTTTTTT-ACG
64627 GTTCGGG-TTTTT-CG
1 GTTCGGGTTTTTTACG
64641 GTTCGG
1 GTTCGG
64647 TTTGGTTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
16 5 0.25
17 7 0.35
ACGTcount: A:0.05, C:0.14, G:0.35, T:0.46
Consensus pattern (16 bp):
GTTCGGGTTTTTTACG
Found at i:68507 original size:23 final size:23
Alignment explanation
Indices: 68484--68550 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
68474 ATATATATAT
68484 TTTAATTATATT-TTTTTATTTA
1 TTTAATTATATTCTTTTTATTTA
*
68506 TTT-ACTATATTCCTCTTTT-TTTA
1 TTTAATTATATT-CT-TTTTATTTA
*
68529 TTTATATTATATTATTTTTATT
1 TTTA-ATTATATTCTTTTTATT
68551 ATATATATCT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
21 7 0.19
22 3 0.08
23 12 0.33
24 7 0.19
25 7 0.19
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTAATTATATTCTTTTTATTTA
Found at i:68543 original size:14 final size:14
Alignment explanation
Indices: 68526--68565 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
68516 TCCTCTTTTT
68526 TTATTTATATTATA
1 TTATTTATATTATA
*
68540 TTATTTTTATTATA
1 TTATTTATATTATA
68554 TATATCTTATAT
1 T-TAT-TTATAT
68566 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:68552 original size:23 final size:22
Alignment explanation
Indices: 68484--68558 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 22
68474 ATATATATAT
68484 TTTA-ATTATATTTTTTTATTTA
1 TTTATATTATATTTTTTTA-TTA
68506 TTTACTA-TAT-TCCTCTTTTT-TTA
1 TTTA-TATTATAT--T-TTTTTATTA
68529 TTTATATTATATTATTTTTATTA
1 TTTATATTATATT-TTTTTATTA
*
68552 TATATAT
1 TTTATAT
68559 CTTATATCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
22 13 0.30
23 22 0.51
24 3 0.07
25 5 0.12
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTATATTATATTTTTTTATTA
Found at i:68557 original size:2 final size:2
Alignment explanation
Indices: 68550--68591 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
68540 TTATTTTTAT
*
68550 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
68591 T
1 T
68592 GTATTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
1 2 0.06
2 32 0.89
3 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:68697 original size:32 final size:36
Alignment explanation
Indices: 68618--68691 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 36
68608 ATTTACTATG
*
68618 TATATATTTTTTCTTAATATTATATTTTATACGTTTT
1 TATATATATTTTCTTAATATTATATTTTATA-GTTTT
*
68655 TATATATATTTTCTTAATATTCTATTTT-T-GTTTT
1 TATATATATTTTCTTAATATTATATTTTATAGTTTT
68689 TAT
1 TAT
68692 TTATTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
34 8 0.23
36 1 0.03
37 26 0.74
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (36 bp):
TATATATATTTTCTTAATATTATATTTTATAGTTTT
Found at i:68727 original size:16 final size:17
Alignment explanation
Indices: 68691--68741 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 17
68681 TTTGTTTTTA
*
68691 TTTATTTATA-TA-TAT
1 TTTATTTTTACTATTAT
*
68706 TATATTTTTACT-TTAT
1 TTTATTTTTACTATTAT
*
68722 TTTATTTTTTCTATTAT
1 TTTATTTTTACTATTAT
68739 TTT
1 TTT
68742 TCCCTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 8 0.28
16 14 0.48
17 7 0.24
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTTTACTATTAT
Found at i:68730 original size:17 final size:17
Alignment explanation
Indices: 68686--68741 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
68676 CTATTTTTGT
*
68686 TTTTATTTATTTA-TATA
1 TTTTATTT-TTTACTTTA
*
68703 TATTATATTTTTACTTTA
1 TTTTAT-TTTTTACTTTA
68721 TTTTATTTTTT-CTATTA
1 TTTTATTTTTTACT-TTA
68738 TTTT
1 TTTT
68742 TCCCTTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 2 0.06
17 21 0.64
18 10 0.30
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTTTTTACTTTA
Found at i:68968 original size:19 final size:18
Alignment explanation
Indices: 68946--68981 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
68936 ATTTTATTCA
68946 TTTTGTTTATTTTGTTTAT
1 TTTTGTTTATTTT-TTTAT
*
68965 TTTTTTTTATTTTTTTA
1 TTTTGTTTATTTTTTTA
68982 CGTGTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (18 bp):
TTTTGTTTATTTTTTTAT
Found at i:68980 original size:10 final size:10
Alignment explanation
Indices: 68946--68978 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
68936 ATTTTATTCA
68946 TTTTGTTTA-
1 TTTTGTTTAT
68955 TTTTGTTTAT
1 TTTTGTTTAT
*
68965 TTTTTTTTAT
1 TTTTGTTTAT
68975 TTTT
1 TTTT
68979 TTACGTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (10 bp):
TTTTGTTTAT
Found at i:69020 original size:26 final size:28
Alignment explanation
Indices: 68960--69021 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 28
68950 GTTTATTTTG
*
68960 TTTATTT-TTTTTTATTTTTTTACGTGT
1 TTTATTTATTTTTCATTTTTTTACGTGT
* *
68987 TTT-GTTATTTTTCA-TTTTTT-CTTGT
1 TTTATTTATTTTTCATTTTTTTACGTGT
69012 TTTATTTATT
1 TTTATTTATT
69022 ATTCTCACGT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
25 7 0.24
26 13 0.45
27 9 0.31
ACGTcount: A:0.11, C:0.05, G:0.06, T:0.77
Consensus pattern (28 bp):
TTTATTTATTTTTCATTTTTTTACGTGT
Found at i:70809 original size:7 final size:7
Alignment explanation
Indices: 70792--70825 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
70782 GAACATTTCA
70792 TGCATTTT
1 TGCA-TTT
70800 TGCATTT
1 TGCATTT
70807 TGCATTT
1 TGCATTT
70814 TGCATTT
1 TGCATTT
70821 TGCAT
1 TGCAT
70826 CTACATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 22 0.85
8 4 0.15
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (7 bp):
TGCATTT
Found at i:71955 original size:13 final size:11
Alignment explanation
Indices: 71919--71976 Score: 71
Period size: 11 Copynumber: 4.9 Consensus size: 11
71909 AGATTCAATC
*
71919 AGAACAAAAAG
1 AGAAAAAAAAG
71930 AGAAAAAAAAG
1 AGAAAAAAAAG
71941 AGAAAAAGTAAAG
1 AGAAAAA--AAAG
71954 AGAAAAAAAAAAG
1 AG--AAAAAAAAG
71967 AGAAAAAAAA
1 AGAAAAAAAA
71977 AGGAAAATTG
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
11 25 0.60
13 12 0.29
15 5 0.12
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:71970 original size:37 final size:34
Alignment explanation
Indices: 71924--72001 Score: 102
Period size: 37 Copynumber: 2.2 Consensus size: 34
71914 CAATCAGAAC
71924 AAAAAGAGAAAAAAAAGAGAAAAAGTAAAGAGAAAAA
1 AAAAAGAGAAAAAAAA-AGAAAAAGTAAA-A-AAAAA
* * *
71961 AAAAAGAGAAAAAAAAAGGAAAATTGAAAAAAAA
1 AAAAAGAGAAAAAAAAAGAAAAAGTAAAAAAAAA
71995 AAAAAGA
1 AAAAAGA
72002 CAAGATGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 12 0.32
35 1 0.03
36 9 0.24
37 16 0.42
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (34 bp):
AAAAAGAGAAAAAAAAAGAAAAAGTAAAAAAAAA
Found at i:71977 original size:13 final size:13
Alignment explanation
Indices: 71924--71977 Score: 76
Period size: 13 Copynumber: 4.3 Consensus size: 13
71914 CAATCAGAAC
71924 AAAAAGAG--AAA
1 AAAAAGAGAAAAA
71935 AAAAAGAGAAAAA
1 AAAAAGAGAAAAA
**
71948 GTAAAGAGAAAAA
1 AAAAAGAGAAAAA
71961 AAAAAGAGAAAAA
1 AAAAAGAGAAAAA
71974 AAAA
1 AAAA
71978 GGAAAATTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.22
13 29 0.78
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (13 bp):
AAAAAGAGAAAAA
Found at i:72168 original size:69 final size:69
Alignment explanation
Indices: 72057--72194 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
72047 GATTCAAACT
* *
72057 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAATCACTTCACTCGAATATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
72122 TCAA
66 TCAA
*
72126 ATGAGATTGATCGAGCACAATCATTTCCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
72191 TCAA
66 TCAA
72195 GAGAGACACA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
TCAA
Found at i:73160 original size:31 final size:31
Alignment explanation
Indices: 73114--73203 Score: 119
Period size: 31 Copynumber: 2.8 Consensus size: 31
73104 TGAGGGCATC
73114 TTTGAAGATTCAACATCAAATGTTGGGCCATTT
1 TTTG-AGATTCAACATCAAATGTTGGG-CATTT
*
73147 TTT-AGATTTAACATCAAATGTTAGGGCATTT
1 TTTGAGATTCAACATCAAATGTT-GGGCATTT
* *
73178 TTTGAGATTCAACATCGAATATTGGG
1 TTTGAGATTCAACATCAAATGTTGGG
73204 GCATCTTTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
31 29 0.57
32 19 0.37
33 3 0.06
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (31 bp):
TTTGAGATTCAACATCAAATGTTGGGCATTT
Found at i:73186 original size:32 final size:31
Alignment explanation
Indices: 73106--73212 Score: 117
Period size: 32 Copynumber: 3.4 Consensus size: 31
73096 AGGAACAATG
73106 AGGGCATCTTTGAAGATTCAACATCAAATGTT
1 AGGGCATCTTTG-AGATTCAACATCAAATGTT
* * *
73138 -GGGCCATTTTTTAGATTTAACATCAAATGTT
1 AGGG-CATCTTTGAGATTCAACATCAAATGTT
* * *
73169 AGGGCATTTTTTGAGATTCAACATCGAATATT
1 AGGGCA-TCTTTGAGATTCAACATCAAATGTT
*
73201 GGGGCATCTTTG
1 AGGGCATCTTTG
73213 GGAATTTAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
31 28 0.44
32 35 0.56
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (31 bp):
AGGGCATCTTTGAGATTCAACATCAAATGTT
Found at i:73224 original size:32 final size:32
Alignment explanation
Indices: 73106--73225 Score: 86
Period size: 32 Copynumber: 3.8 Consensus size: 32
73096 AGGAACAATG
* * *
73106 AGGGCATCTTT-GAAGATTCAACATCAAATGTT
1 AGGGCAT-TTTGGGAGATTTAACATCAAATATT
** *
73138 -GGGCCATTTT-TTAGATTTAACATCAAATGTT
1 AGGG-CATTTTGGGAGATTTAACATCAAATATT
** * *
73169 AGGGCATTTTTTGAGATTCAACATCGAATATT
1 AGGGCATTTTGGGAGATTTAACATCAAATATT
*
73201 GGGGCATCTTTGGGA-ATTTAACATC
1 AGGGCAT-TTTGGGAGATTTAACATC
73226 CTGATGCAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
31 30 0.41
32 38 0.52
33 5 0.07
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (32 bp):
AGGGCATTTTGGGAGATTTAACATCAAATATT
Found at i:74197 original size:36 final size:36
Alignment explanation
Indices: 74099--74217 Score: 148
Period size: 36 Copynumber: 3.3 Consensus size: 36
74089 TATGTTTTAT
* * * *
74099 TTGAAACAAATTTCATCTCCCTTGAGACATTTTCTT
1 TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCTC
* * *
74135 TTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTC
1 TTGAAAC-AAATTTCGTCTCTCTTGAGACAGTTTCTC
* *
74172 TTGAACCAAATTTCGTCTCTCTTGAGACAGTTTCCC
1 TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCTC
74208 TTGAAACAAA
1 TTGAAACAAA
74218 ATCTTTGAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
36 41 0.59
37 28 0.41
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (36 bp):
TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCTC
Found at i:74316 original size:67 final size:67
Alignment explanation
Indices: 74178--74346 Score: 220
Period size: 67 Copynumber: 2.6 Consensus size: 67
74168 TCTCTTGAAC
* * * **
74178 CAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCCTAA
1 CAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAA
74241 AA
66 AA
*
74243 CAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTT-CCCTTA
1 CAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAA
74307 AA
66 AA
* * *
74309 CAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACA
1 C-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
74347 ACAGATATCT
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 30 0.33
66 19 0.21
67 43 0.47
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.37
Consensus pattern (67 bp):
CAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAA
AA
Found at i:75319 original size:103 final size:106
Alignment explanation
Indices: 75069--75319 Score: 251
Period size: 110 Copynumber: 2.4 Consensus size: 106
75059 CCAATTTCAG
* * *
75069 AGCCAATTTCAACTTCACAAC-GAGGGATATTGGACTCAAGACAAAAGAAGCTCAACTTCACAAC
1 AGCCAATTTCAACTTCACAACGGA-GGATATTGGACTCGAGACAAAACAAGCTCAACATCACAAC
* * *
75133 AAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATTCAG
65 --AGGGGCGACTGACTGTCAACAAACAACTTTCCAGTTTC--TCAA
* ** * ** * * * *
75179 AGTCAATTTTTACTTCATAGTGAAGGATATTGAACTCGAGACAACACAAGCTCAACATCACAGC-
1 AGCCAATTTCAACTTCACAACGGAGGATATTGGACTCGAGACAAAACAAGCTCAACATCACAACA
*
75243 GGGGCGACTGGCTGTCAACAAACAA-TTTCCTAG-TTC-CAA
66 GGGGCGACTGACTGTCAACAAACAACTTTCC-AGTTTCTCAA
*
75282 AGCCAATTTCAACTTCACGACGGAGGATATTGGACTCG
1 AGCCAATTTCAACTTCACAACGGAGGATATTGGACTCG
75320 GAACAATACT
Statistics
Matches: 113, Mismatches: 26, Indels: 11
0.75 0.17 0.07
Matches are distributed among these distances:
103 31 0.27
106 7 0.06
107 25 0.22
110 49 0.43
111 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (106 bp):
AGCCAATTTCAACTTCACAACGGAGGATATTGGACTCGAGACAAAACAAGCTCAACATCACAACA
GGGGCGACTGACTGTCAACAAACAACTTTCCAGTTTCTCAA
Found at i:76797 original size:14 final size:14
Alignment explanation
Indices: 76780--76819 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
76770 TCCTCTTTTT
76780 TTATTTATATTATA
1 TTATTTATATTATA
*
76794 TTATTTTTATTATA
1 TTATTTATATTATA
76808 TATATCTTATAT
1 T-TAT-TTATAT
76820 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:76951 original size:39 final size:38
Alignment explanation
Indices: 76872--76954 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 38
76862 ATTTACTATG
76872 TATATATTTTGCTTAATATTATATTTTATACGTTTTTA
1 TATATATTTTGCTTAATATTATATTTTATACGTTTTTA
* * * *
76910 TATATATTTT-CTTAGTATTCTATTTTTTA-TTTATTTA
1 TATATATTTTGCTTAATATTATATTTTATACGTT-TTTA
76947 TATATATT
1 TATATATT
76955 ATATTTTTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
36 2 0.05
37 28 0.70
38 10 0.25
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (38 bp):
TATATATTTTGCTTAATATTATATTTTATACGTTTTTA
Found at i:76975 original size:16 final size:17
Alignment explanation
Indices: 76929--76989 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
76919 TCTTAGTATT
76929 CTATT-TTTTATTTATTTA
1 CTATTATTTTA-TT-TTTA
*
76947 -TATATATTATATTTTTA
1 CTAT-TATTTTATTTTTA
*
76964 CT-TTATTTTATTTTTT
1 CTATTATTTTATTTTTA
76980 CTATTATTTT
1 CTATTATTTT
76990 TTTCCTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
16 13 0.36
17 15 0.42
18 4 0.11
19 4 0.11
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (17 bp):
CTATTATTTTATTTTTA
Found at i:77128 original size:18 final size:17
Alignment explanation
Indices: 77096--77140 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
77086 TGTACATATT
77096 ATTTTTATT-CCTTTTTA
1 ATTTTT-TTACCTTTTTA
*
77113 ATTTCTTTTACCTTTTTT
1 ATTT-TTTTACCTTTTTA
77131 ATTTTTTTAC
1 ATTTTTTTAC
77141 TCCATTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTTACCTTTTTA
Found at i:77138 original size:17 final size:17
Alignment explanation
Indices: 77094--77140 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
77084 TATGTACATA
77094 TTATTTTTATT-CCTTTT
1 TTATTTTT-TTACCTTTT
*
77111 TAATTTCTTTTACCTTTT
1 TTATTT-TTTTACCTTTT
77129 TTATTTTTTTAC
1 TTATTTTTTTAC
77141 TCCATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTTACCTTTT
Found at i:77207 original size:19 final size:17
Alignment explanation
Indices: 77185--77219 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
77175 TTTTTTAACA
77185 TTTTATTCATTTTGTTTAT
1 TTTTATT-ATTTT-TTTAT
77204 TTTTATTATTTTTTTA
1 TTTTATTATTTTTTTA
77220 CGTGTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTATTATTTTTTTAT
Found at i:78132 original size:20 final size:21
Alignment explanation
Indices: 78094--78134 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
78084 TTAGGGTTTA
78094 AGTATCGATATTGGTATGAAT
1 AGTATCGATATTGGTATGAAT
78115 AGTATCGATATT-GTATGAAT
1 AGTATCGATATTGGTATGAAT
78135 TGGGGCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (21 bp):
AGTATCGATATTGGTATGAAT
Found at i:78752 original size:21 final size:21
Alignment explanation
Indices: 78708--78751 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
78698 AATCAGATTG
78708 CCCAGGGGATACAGATTCCCC
1 CCCAGGGGATACAGATTCCCC
78729 CCCAGGGG-TACAGATTCCCC
1 CCCAGGGGATACAGATTCCCC
78749 CCC
1 CCC
78752 CCCCAGGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.14
Consensus pattern (21 bp):
CCCAGGGGATACAGATTCCCC
Found at i:78757 original size:24 final size:25
Alignment explanation
Indices: 78725--78775 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
78715 GATACAGATT
*
78725 CCCCCCCA-GGGGTACAGATTCCCC
1 CCCCCCCAGGGGGTACAGATTACCC
*
78749 CCCCCCCAGGGGGTACCGATTACCC
1 CCCCCCCAGGGGGTACAGATTACCC
78774 CC
1 CC
78776 TGTCTAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.16, C:0.51, G:0.22, T:0.12
Consensus pattern (25 bp):
CCCCCCCAGGGGGTACAGATTACCC
Found at i:80064 original size:23 final size:24
Alignment explanation
Indices: 80029--80074 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
80019 TGATTTCAAA
80029 TTTTAAAATCAAAAA-AGATTTTC
1 TTTTAAAATCAAAAATAGATTTTC
80052 TTTTGAAAA-CAAAAATAGATTTT
1 TTTT-AAAATCAAAAATAGATTTT
80075 GAAAGCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (24 bp):
TTTTAAAATCAAAAATAGATTTTC
Found at i:80076 original size:19 final size:20
Alignment explanation
Indices: 80052--80099 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
80042 AAAGATTTTC
*
80052 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
80071 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
80091 TTTTGAAAA
1 TTTTGAAAA
80100 ATGATTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:81519 original size:21 final size:21
Alignment explanation
Indices: 81493--81583 Score: 139
Period size: 21 Copynumber: 4.4 Consensus size: 21
81483 AAGAAAAATC
* *
81493 ATTCCCCCCTAGTGGGTACAG
1 ATTCCCCCCCAGGGGGTACAG
81514 ATTCCCCCCCAGGGGGTACAG
1 ATTCCCCCCCAGGGGGTACAG
*
81535 ATT-CCCCCCAGGGGGAACAG
1 ATTCCCCCCCAGGGGGTACAG
*
81555 ATTCCCCCCCAGGGGGTACTG
1 ATTCCCCCCCAGGGGGTACAG
81576 ATTCCCCC
1 ATTCCCCC
81584 TGTCTAACGG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 19 0.30
21 45 0.70
ACGTcount: A:0.19, C:0.38, G:0.25, T:0.18
Consensus pattern (21 bp):
ATTCCCCCCCAGGGGGTACAG
Found at i:81555 original size:41 final size:42
Alignment explanation
Indices: 81493--81583 Score: 148
Period size: 41 Copynumber: 2.2 Consensus size: 42
81483 AAGAAAAATC
* *
81493 ATTCCCCCCTAGTGGGTACAGATTCCCCCCCAGGGGGTACAG
1 ATTCCCCCCTAGGGGGAACAGATTCCCCCCCAGGGGGTACAG
*
81535 ATTCCCCCC-AGGGGGAACAGATTCCCCCCCAGGGGGTACTG
1 ATTCCCCCCTAGGGGGAACAGATTCCCCCCCAGGGGGTACAG
81576 ATTCCCCC
1 ATTCCCCC
81584 TGTCTAACGG
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 37 0.80
42 9 0.20
ACGTcount: A:0.19, C:0.38, G:0.25, T:0.18
Consensus pattern (42 bp):
ATTCCCCCCTAGGGGGAACAGATTCCCCCCCAGGGGGTACAG
Found at i:83156 original size:32 final size:32
Alignment explanation
Indices: 83120--83268 Score: 176
Period size: 32 Copynumber: 4.7 Consensus size: 32
83110 TATAGTAGTA
*
83120 TCAGTGTTGCATTCAAATAATGCATAGTAGAG
1 TCAGTGTTGCATTCAAATAATGCACAGTAGAG
* * *
83152 TCAGTGTTACATTCAGATAATGCACAGCAGAG
1 TCAGTGTTGCATTCAAATAATGCACAGTAGAG
* *
83184 TCAGTGTTGCATTCAAACAATACACA-TCAGAG
1 TCAGTGTTGCATTCAAATAATGCACAGT-AGAG
* *
83216 TTAGTATTGCATTCAAATAATGCACA-TCAGAG
1 TCAGTGTTGCATTCAAATAATGCACAGT-AGAG
* *
83248 TTAGTATTGCATTCAAATAAT
1 TCAGTGTTGCATTCAAATAAT
83269 TCATATGAGT
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
32 103 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (32 bp):
TCAGTGTTGCATTCAAATAATGCACAGTAGAG
Found at i:83292 original size:64 final size:64
Alignment explanation
Indices: 83161--83301 Score: 156
Period size: 64 Copynumber: 2.2 Consensus size: 64
83151 GTCAGTGTTA
* ** * *
83161 CATTCAGATAATGCACAGCAGAGTCAGTGTTGCATTCAAACAATACACATCAGAGTTAGTATTG
1 CATTCAGATAATGCACAGCAGAGTCAGTATTGCATTCAAACAATACACATCAGAGCCAATATCG
* * * * * * * *
83225 CATTCAAATAATGCACATCAGAGTTAGTATTGCATTCAAATAATTCATATGAGTGCCAATATCG
1 CATTCAGATAATGCACAGCAGAGTCAGTATTGCATTCAAACAATACACATCAGAGCCAATATCG
*
83289 CATTTAGATAATG
1 CATTCAGATAATG
83302 TGCAACAAAT
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (64 bp):
CATTCAGATAATGCACAGCAGAGTCAGTATTGCATTCAAACAATACACATCAGAGCCAATATCG
Found at i:86359 original size:21 final size:21
Alignment explanation
Indices: 86335--86375 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
86325 TTCCAAGTTC
86335 GATAATTGAAACAAAATTTAT
1 GATAATTGAAACAAAATTTAT
*
86356 GATAATTGAAACAAAGTTTA
1 GATAATTGAAACAAAATTTA
86376 AAAATAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (21 bp):
GATAATTGAAACAAAATTTAT
Found at i:88353 original size:15 final size:15
Alignment explanation
Indices: 88333--88362 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
88323 CCATTTGACA
88333 TCTCACATAAATCGT
1 TCTCACATAAATCGT
88348 TCTCACATAAATCGT
1 TCTCACATAAATCGT
88363 AGTGATCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (15 bp):
TCTCACATAAATCGT
Found at i:89547 original size:22 final size:23
Alignment explanation
Indices: 89522--89581 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
89512 AACTAAGATA
89522 ACAATAAAAAAATTAAGTT-TAC
1 ACAATAAAAAAATTAAGTTGTAC
** * * *
89544 ACAATTTATAAA-CAAGTTGTTC
1 ACAATAAAAAAATTAAGTTGTAC
89566 ACAATAAAAAAATTAA
1 ACAATAAAAAAATTAA
89582 AGCTTTATAT
Statistics
Matches: 27, Mismatches: 9, Indels: 3
0.69 0.23 0.08
Matches are distributed among these distances:
21 5 0.19
22 20 0.74
23 2 0.07
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (23 bp):
ACAATAAAAAAATTAAGTTGTAC
Found at i:91871 original size:49 final size:49
Alignment explanation
Indices: 91815--91913 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
91805 TATTATGGTA
*
91815 AGGATTGGTTCCAATTTTTTGACTTTCTATATATATATATTCTTTTCAC
1 AGGATTGGTTCCAATTATTTGACTTTCTATATATATATATTCTTTTCAC
91864 AGGATTGGTTCCAATTATTTGACTTTCTATATATATATATTCTTTTCAC
1 AGGATTGGTTCCAATTATTTGACTTTCTATATATATATATTCTTTTCAC
91913 A
1 A
91914 TTATAATGCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.49
Consensus pattern (49 bp):
AGGATTGGTTCCAATTATTTGACTTTCTATATATATATATTCTTTTCAC
Found at i:94100 original size:13 final size:14
Alignment explanation
Indices: 94076--94104 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
94066 TTCAGCCAGC
94076 TACATCAGATTAAT
1 TACATCAGATTAAT
94090 TACATCA-ATTAAT
1 TACATCAGATTAAT
94103 TA
1 TA
94105 GTTGTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (14 bp):
TACATCAGATTAAT
Found at i:106748 original size:195 final size:194
Alignment explanation
Indices: 106417--106798 Score: 674
Period size: 195 Copynumber: 2.0 Consensus size: 194
106407 AAAATAAAGC
*
106417 TATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCTGGCTTTATGAATAGATTATATT
1 TATTCCACTAAGGAAATTGGTTATAGAGGAAACTCGAAAGCCTGGCTTTATGAATAGATTATATT
*
106482 CAAACCATGACCTTGATCGGGTACTTGGCAATTCGGTGTATGCTCCACTGTGATTGTCAAGTCAA
66 CAAACCATGACCTTGATCGGGTACTCGGCAATTCGGTGTATGCTCCACTGTGATTGTCAAGTCAA
* * * *
106547 AGACTTTGTGATGAGATGAATCCTTCAGTTAGCCCGATAAACGCAAATTATAATAAAGCTAAGT
131 AGACTTTGTAATGAGATGAATCCTTCAGCTAGCCCGATAAACGAAAATTACAATAAAGCTAAGT
*
106611 TATTCCACTAAGGAAATTGGTTATAGAGGAAACTCGAAGGCCCTGGCTTTATGAATAGATTATAT
1 TATTCCACTAAGGAAATTGGTTATAGAGGAAACTCGAAAG-CCTGGCTTTATGAATAGATTATAT
106676 TCAAACCATGACCTTGATCGGGTACTCGGCAATTCGGTGTATGCTCCACTGTGATTGTCAAGTCA
65 TCAAACCATGACCTTGATCGGGTACTCGGCAATTCGGTGTATGCTCCACTGTGATTGTCAAGTCA
* *
106741 AAGACTTTGTAATGAGATGAATCCTTCAGCTAGCCTGATAAAGGAAAATTACAATAAA
130 AAGACTTTGTAATGAGATGAATCCTTCAGCTAGCCCGATAAACGAAAATTACAATAAA
106799 TTTGATTTCA
Statistics
Matches: 178, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
194 38 0.21
195 140 0.79
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (194 bp):
TATTCCACTAAGGAAATTGGTTATAGAGGAAACTCGAAAGCCTGGCTTTATGAATAGATTATATT
CAAACCATGACCTTGATCGGGTACTCGGCAATTCGGTGTATGCTCCACTGTGATTGTCAAGTCAA
AGACTTTGTAATGAGATGAATCCTTCAGCTAGCCCGATAAACGAAAATTACAATAAAGCTAAGT
Found at i:107988 original size:125 final size:125
Alignment explanation
Indices: 107766--108139 Score: 493
Period size: 125 Copynumber: 3.0 Consensus size: 125
107756 TCTGGGACAT
* *
107766 GACTGAACCCACATCATGTTGAGACGACGAGATTCAGACCAAGGAGGCATGAAGAATGAGCCTTA
1 GACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATGAAGAATGAGCCTTA
* * *
107831 CAAATTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATGAGATAATGTCGGGGCAC
66 CAAATTGAGGTGTTGGGGCATTTTGAAGGCCCGTACCAGTATAAGATAATGTTGGGGCAC
* * * *
107891 GACTGAGCCCAGATCATGTTGATATGACAATATTCAGACCAAGGAGGCATGAAGAATGAGCCTTA
1 GACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATGAAGAATGAGCCTTA
* * *
107956 CAAATT-ATGGTGTTGGGGCATTTTAAAGGCCCGTACCCGTATAAGATAATGTTGGGGCAT
66 CAAATTGA-GGTGTTGGGGCATTTTGAAGGCCCGTACCAGTATAAGATAATGTTGGGGCAC
* * * * * * *
108016 GATTGAACCCCCATAATGTGGAGATGATAAGATCCAGACCAA--AGGTCATGGAGAATGAGCCTT
1 GACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGG-CATGAAGAATGAGCCTT
* ** * *
108079 ACAATTTGAGGTGTTGGGGCATTTTGAAGATCCGTACCAGTACAAGATGATGTTGGGGCAC
65 ACAAATTGAGGTGTTGGGGCATTTTGAAGGCCCGTACCAGTATAAGATAATGTTGGGGCAC
108140 TAGTGAAGAC
Statistics
Matches: 215, Mismatches: 31, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
123 3 0.01
124 68 0.32
125 144 0.67
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (125 bp):
GACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATGAAGAATGAGCCTTA
CAAATTGAGGTGTTGGGGCATTTTGAAGGCCCGTACCAGTATAAGATAATGTTGGGGCAC
Found at i:109004 original size:37 final size:36
Alignment explanation
Indices: 108954--109166 Score: 216
Period size: 37 Copynumber: 5.9 Consensus size: 36
108944 TTGAGCAAAG
* *
108954 TCAATCTTAAGCCTTCACCAAAGAGGAGTGAAGTAGA
1 TCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCA-A
* ** *
108991 TCAATCTGAAGCCTTCACCGGAGAATAGTGAAGCAA
1 TCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAA
* * ** *
109027 ACAATCTTCAGCCTTCACTGAAGAGTAGTGAAGTAA
1 TCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAA
* *
109063 TTC-ATCTTAAGCATTCACCAAATAGTAGTGAAGCAAA
1 -TCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGC-AA
109100 TCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGC--
1 TCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAA
* * * * *
109134 GCCACCTTAAGCCTTCATCGAAGAGTAGTGAAG
1 TCAATCTTAAGCCTTCACCAAAGAGTAGTGAAG
109167 AAAATCCATC
Statistics
Matches: 146, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
34 28 0.19
36 57 0.39
37 61 0.42
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (36 bp):
TCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAA
Found at i:109041 original size:73 final size:73
Alignment explanation
Indices: 108947--109132 Score: 241
Period size: 73 Copynumber: 2.5 Consensus size: 73
108937 ATGAGATTTG
* * *
108947 AGCAAAGTCAATCTTAAGCCTTCACCAAAGAGGAGTGAAGTAGA-TCAATCTGAAGCCTTCACCG
1 AGCAAA-TCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGTA-ATTC-ATCTGAAGCATTCACCA
*
109011 GAGAATAGTGA
63 AAGAATAGTGA
* ** * *
109022 AGCAAA-CAATCTTCAGCCTTCACTGAAGAGTAGTGAAGTAATTCATCTTAAGCATTCACCAAAT
1 AGCAAATCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGTAATTCATCTGAAGCATTCACCAAAG
*
109086 AGTAGTGA
66 AATAGTGA
109094 AGCAAATCAATCTTAAGCCTTCACCAAAGAGTAGTGAAG
1 AGCAAATCAATCTTAAGCCTTCACCAAAGAGTAGTGAAG
109133 CGCCACCTTA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
72 29 0.30
73 61 0.64
75 6 0.06
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (73 bp):
AGCAAATCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGTAATTCATCTGAAGCATTCACCAAAG
AATAGTGA
Found at i:109148 original size:34 final size:35
Alignment explanation
Indices: 108959--109166 Score: 141
Period size: 36 Copynumber: 5.8 Consensus size: 35
108949 CAAAGTCAAT
* * *
108959 CTTAAGCCTTCACCAAAGAGGAGTGAAGTAGATCAAT
1 CTTAAGCCTTCACCAAAGAGTAGTGAAGCAG--CAAC
* ** * * *
108996 CTGAAGCCTTCACCGGAGAATAGTGAAGCAAACAAT
1 CTTAAGCCTTCACCAAAGAGTAGTGAAGC-AGCAAC
* ** * * *
109032 CTTCAGCCTTCACTGAAGAGTAGTGAAGTAATTC-AT
1 CTTAAGCCTTCACCAAAGAGTAGTGAAG-CA-GCAAC
* * * *
109068 CTTAAGCATTCACCAAATAGTAGTGAAGCAAATCAAT
1 CTTAAGCCTTCACCAAAGAGTAGTGAAGC--AGCAAC
*
109105 CTTAAGCCTTCACCAAAGAGTAGTGAAGC-GCCAC
1 CTTAAGCCTTCACCAAAGAGTAGTGAAGCAGCAAC
* *
109139 CTTAAGCCTTCATCGAAGAGTAGTGAAG
1 CTTAAGCCTTCACCAAAGAGTAGTGAAG
109167 AAAATCCATC
Statistics
Matches: 138, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
34 28 0.20
36 55 0.40
37 54 0.39
38 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (35 bp):
CTTAAGCCTTCACCAAAGAGTAGTGAAGCAGCAAC
Found at i:109390 original size:41 final size:42
Alignment explanation
Indices: 109293--109390 Score: 108
Period size: 42 Copynumber: 2.4 Consensus size: 42
109283 TTCACCATTT
* * * * *
109293 ATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGTCATCAATAAGCCTTTAGAGCAAGATGA
* * **
109335 TTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGAT-A
1 ATAAGTCCTTCGGGTCATCAATAAGCCTTTAGAGCAAGATGA
109376 ATAAGTCCTTCGGGT
1 ATAAGTCCTTCGGGT
109391 AGGATGTTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
41 13 0.29
42 32 0.71
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (42 bp):
ATAAGTCCTTCGGGTCATCAATAAGCCTTTAGAGCAAGATGA
Found at i:109750 original size:213 final size:213
Alignment explanation
Indices: 109382--110403 Score: 1661
Period size: 213 Copynumber: 4.8 Consensus size: 213
109372 GATAATAAGT
* *
109382 CCTTCGGGTAGGATGTTTTCTCATGAATTTGAAAGTGAAAAATGATGTTTTAAGAAGAT-GAAAT
1 CCTTCGGGTAGGATGTTTTCACATGAATTTGAAA-TGAAAAATGATGTTTTAAGAAGATGGAATT
*
109446 TTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCGGGCCATCAGTAA
65 TTTTG-AAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAA
* *
109511 GTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGATCAATATGATAAGT
129 GTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGT
109576 CCTTCGGGCCATCCATAAAA
194 CCTTCGGGCCATCCATAAAA
* *
109596 CCTTCGGGTAGGATGTTTTCACATGAATTTGAAATGAAAAATAATGTCTTAAGAAGATGGAATTT
1 CCTTCGGGTAGGATGTTTTCACATGAATTTGAAATGAAAAATGATGTTTTAAGAAGATGGAATTT
* * *
109661 TTTGAAACGAAGAATGCGATTTTCAAAATTTCACAATGTATAAGTCCCTCGGGACATCAGTAAGT
66 TTTGAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGT
* *
109726 CTTTCAAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCT
131 CTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCC
109791 TTCGGGCCATCCATAAAA
196 TTCGGGCCATCCATAAAA
*
109809 CCTTCGGGTAGGATGTTTTCACATGAATTTGAAATGAAAAATGATGTTTTAATAAGATGGAATTT
1 CCTTCGGGTAGGATGTTTTCACATGAATTTGAAATGAAAAATGATGTTTTAAGAAGATGGAATTT
* * * *
109874 TTGGAAACGAAGAATGCGATTTTAAAAATTTCACAATGTATAAGTCCCTCGGGCCATCAGTAAGT
66 TTTGAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGT
* * *
109939 CTTTCGAGCATGATGTTTAAATCCTTCGAGTCATCTATAAGCCTTTAGAGCAAGTTGATAAGTCC
131 CTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCC
* *
110004 TTCGGGCTATCCATAAGA
196 TTCGGGCCATCCATAAAA
* * **
110022 CCTTCGGGTAGGATGTTTTCAAATGAATTTGAGAATGAAAAAAATGATGTTTTAAAAAGATAAAA
1 CCTTCGGGTAGGATGTTTTCACATGAATTTGA-AATG--AAAAATGATGTTTTAAGAAGATGGAA
* * *
110087 TTTTTTAAAATGAAGAATGCGATTTTCAAAATTTCACCATTTATAAGTCCTTCGGGCCATCAGTA
63 TTTTTTGAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTA
***
110152 AGTCTTTCGAGCATGATACGTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAG
128 AGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAG
110217 TCCTTCGGGCCATCCATAAAA
193 TCCTTCGGGCCATCCATAAAA
110238 CCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGGAA-T
1 CCTTCGGGTAGGATGTTTTCACATGAATTTG-AAATGAAAAATGATGTTTTAAGAAGATGGAATT
*
110302 TTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAA
65 TTTTG-AAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAA
*
110367 GTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
129 GTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATC
110404 CATAAGACCT
Statistics
Matches: 748, Mismatches: 54, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
213 394 0.53
214 160 0.21
216 193 0.26
217 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (213 bp):
CCTTCGGGTAGGATGTTTTCACATGAATTTGAAATGAAAAATGATGTTTTAAGAAGATGGAATTT
TTTGAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGT
CTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCC
TTCGGGCCATCCATAAAA
Found at i:110426 original size:42 final size:42
Alignment explanation
Indices: 110348--110428 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
110338 AATTTATAAG
* * *
110348 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAGTAAGACCTTCGAGCAGGATGCTTAAA
* *
110390 TCCTTCGGGTCATCCA-TAAGACCTTCGGGCAGGATGCTT
1 TCCTTCGGGCCAT-CAGTAAGACCTTCGAGCAGGATGCTT
110429 TTCACCAAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (42 bp):
TCCTTCGGGCCATCAGTAAGACCTTCGAGCAGGATGCTTAAA
Found at i:115754 original size:14 final size:14
Alignment explanation
Indices: 115705--115782 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
115695 AGTTACCCAA
*
115705 ATCATTGACTATTG
1 ATCATTGACCATTG
* * *
115719 AACTTTGACCACTG
1 ATCATTGACCATTG
* *
115733 ATCGTTGATCATTG
1 ATCATTGACCATTG
* * *
115747 ACCATTGATCGTTG
1 ATCATTGACCATTG
*
115761 A-CTTTGACCATTG
1 ATCATTGACCATTG
*
115774 ATCGTTGAC
1 ATCATTGAC
115783 TTTGACCATT
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
13 10 0.21
14 38 0.79
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (14 bp):
ATCATTGACCATTG
Found at i:115769 original size:20 final size:20
Alignment explanation
Indices: 115720--115792 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
115710 TGACTATTGA
*
115720 ACTTTGACCACTGATCGTTG
1 ACTTTGACCATTGATCGTTG
*
115740 ATCATTGACCATTGATCGTTG
1 A-CTTTGACCATTGATCGTTG
115761 ACTTTGACCATTGATCGTTG
1 ACTTTGACCATTGATCGTTG
115781 ACTTTGACCATT
1 ACTTTGACCATT
115793 TACTTTGATC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
20 31 0.63
21 18 0.37
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (20 bp):
ACTTTGACCATTGATCGTTG
Found at i:117954 original size:53 final size:53
Alignment explanation
Indices: 117884--117997 Score: 219
Period size: 53 Copynumber: 2.2 Consensus size: 53
117874 ACTCATTTCC
117884 ATCCTTTTTTAAACTTAAATTAGACTCTCATACCACGTAATTGCTCATACTTT
1 ATCCTTTTTTAAACTTAAATTAGACTCTCATACCACGTAATTGCTCATACTTT
*
117937 ATCCTTTTTTTAACTTAAATTAGACTCTCATACCACGTAATTGCTCATACTTT
1 ATCCTTTTTTAAACTTAAATTAGACTCTCATACCACGTAATTGCTCATACTTT
117990 ATCCTTTT
1 ATCCTTTT
117998 GATAATAGTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (53 bp):
ATCCTTTTTTAAACTTAAATTAGACTCTCATACCACGTAATTGCTCATACTTT
Found at i:121548 original size:24 final size:23
Alignment explanation
Indices: 121497--121564 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
121487 TTTAAGGTAT
*
121497 ATTTTATTATATTTAATATTTTA
1 ATTTTATTATATTTAATATTTAA
*
121520 TTTTTAATT-TATTTAAGTATTTAA
1 ATTTT-ATTATATTTAA-TATTTAA
121544 ATTTT-TTAATATTT--TATTTAA
1 ATTTTATT-ATATTTAATATTTAA
121565 TTAATTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
21 7 0.18
22 2 0.05
23 11 0.29
24 18 0.47
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (23 bp):
ATTTTATTATATTTAATATTTAA
Found at i:121558 original size:8 final size:8
Alignment explanation
Indices: 121495--121559 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
121485 TGTTTAAGGT
121495 ATATTTTA
1 ATATTTTA
*
121503 TTATATTTA
1 ATAT-TTTA
121512 ATATTTT-
1 ATATTTTA
121519 AT-TTTTA
1 ATATTTTA
*
121526 ATTTATTTA
1 ATAT-TTTA
*
121535 AGTATTTAA
1 A-TATTTTA
*
121544 ATTTTTTA
1 ATATTTTA
121552 ATATTTTA
1 ATATTTTA
121560 TTTAATTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
6 4 0.09
7 4 0.09
8 19 0.42
9 16 0.36
10 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (8 bp):
ATATTTTA
Found at i:121559 original size:17 final size:19
Alignment explanation
Indices: 121518--121559 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
121508 TTTAATATTT
*
121518 TATTTTTAATTTATTTAAG
1 TATTTTAAATTTATTTAAG
121537 TA-TTTAAATTT-TTTAA-
1 TATTTTAAATTTATTTAAG
121553 TATTTTA
1 TATTTTA
121560 TTTAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 9 0.43
18 8 0.38
19 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTTAAATTTATTTAAG
Found at i:125712 original size:2 final size:2
Alignment explanation
Indices: 125707--125743 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
125697 AAAACCACAC
125707 AT AT AT AT AT 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 AT AT AT AT AT A
125744 ATTTCCCATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:126291 original size:15 final size:12
Alignment explanation
Indices: 126255--126279 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
126245 AATATTTGGA
126255 TGATAAAATACG
1 TGATAAAATACG
126267 TGATAAAATACG
1 TGATAAAATACG
126279 T
1 T
126280 ATGAATAAAA
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:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (12 bp):
TGATAAAATACG
Found at i:126703 original size:42 final size:41
Alignment explanation
Indices: 126629--126736 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 41
126619 ACTATTATAT
* *
126629 TTTATT-AAAATAAATA-TAT-TTA-AAATTCTATTAATTA
1 TTTATTAAAAATAAATATTATATTATCAATTATATTAATTA
126666 TTTATTAAAATATAAATATTATATTATCAATTATATTAATTA
1 TTTATTAAAA-ATAAATATTATATTATCAATTATATTAATTA
* * *
126708 CTTATTAAAAA-ATATTATTATAATATCAA
1 TTTATTAAAAATA-AATATTATATTATCAA
126737 AATAAAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
37 6 0.10
38 3 0.05
39 7 0.12
40 4 0.07
41 18 0.30
42 22 0.37
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (41 bp):
TTTATTAAAAATAAATATTATATTATCAATTATATTAATTA
Found at i:127234 original size:42 final size:39
Alignment explanation
Indices: 127160--127261 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 39
127150 ACTATTATAT
*
127160 TTTATT-AAAATAAATA-TATTTAAAATTCTATTAATTA
1 TTTATTAAAAATAAATATTATTTAAAATTATATTAATTA
*
127197 TTTATTAAAATATAAATATTATATTATCAATTATATTAATTA
1 TTTATTAAAA-ATAAATATTAT-TTA-AAATTATATTAATTA
* *
127239 CTTATTAAAACAAAAATATTATT
1 TTTATTAAAA-ATAAATATTATT
127262 ATAATATCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
37 6 0.11
38 3 0.05
39 7 0.13
40 3 0.05
41 4 0.07
42 32 0.58
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (39 bp):
TTTATTAAAAATAAATATTATTTAAAATTATATTAATTA
Found at i:127591 original size:535 final size:534
Alignment explanation
Indices: 126586--127658 Score: 2017
Period size: 535 Copynumber: 2.0 Consensus size: 534
126576 ATTTAAATCT
126586 TATTTCTACAATTTTACAAATACAAGTATTATGACTATTATATTTTATTAAAATAAATATATTTA
1 TATTTCTACAATTTTACAAATACAAGTATTATGACTATTATATTTTATTAAAATAAATATATTTA
126651 AAATTCTATTAATTATTTATTAAAATATAAATATTATATTATCAATTATATTAATTACTTATTAA
66 AAATTCTATTAATTATTTATTAAAATATAAATATTATATTATCAATTATATTAATTACTTATTAA
126716 AAAATATTATTATAATATCAAAATAAAATATTATATTATATTCTGAAATAAAATAATTCAATTCA
131 AAAATATTATTATAATATCAAAATAAAATATTATATTATATTCTGAAATAAAATAATTCAATTCA
126781 ATTATTAATCAAATCTGCCATTTAAACACCTCTGAGATGAAATCCAAATATACAATTATCAAATC
196 ATTATTAATCAAATCTGCCATTTAAACACCTCTGAGATGAAATCCAAATATACAATTATCAAATC
126846 ATCTTCCACAATATAGTATTATAAGACTTTTAAATTACTATAGTTGATAAGATTTAGTCCATTAT
261 ATCTTCCACAATATAGTATTATAAGACTTTTAAATTACTATAGTTGATAAGATTTAGTCCATTAT
*
126911 TTTTTTCTCAATTTTATATATTATATGTAAATCAAAGATCACAAACCAATTTACTTCACCGGTTA
326 TTTTTTATCAATTTTATATATTATATGTAAATCAAAGATCACAAACCAATTTACTTCACCGGTTA
126976 AAGAAATCGTTGTTGTTATTAGAGGTCACCGGTTCGAGCATCAGTAGTTGCAATAGGGTGATTGA
391 AAGAAATCGTTGTTGTTATTAGAGGTCACCGGTTCGAGCATCAGTAGTTGCAATAGGGTGATTGA
*
127041 GTGTGCATTGTCAAATGATTGAG-A-AT-ATATATAACATATAATACTTTATAATCATTGTCACT
456 GTGTGCATTGTCAAATGATTGAGAATATAATATATAACATATAATACTTTATAATCATTGTCACG
127103 CCCTAATTTAATGG
521 CCCTAATTTAATGG
127117 TATTTCTACAATTTTACAAATACAAGTATTATGACTATTATATTTTATTAAAATAAATATATTTA
1 TATTTCTACAATTTTACAAATACAAGTATTATGACTATTATATTTTATTAAAATAAATATATTTA
127182 AAATTCTATTAATTATTTATTAAAATATAAATATTATATTATCAATTATATTAATTACTTATTAA
66 AAATTCTATTAATTATTTATTAAAATATAAATATTATATTATCAATTATATTAATTACTTATT--
127247 AACAAAAATATTATTATAATATCAAAATAAAATATTATATTATATTCTGAAATAAAATAATTCAA
129 -A-AAAAATATTATTATAATATCAAAATAAAATATTATATTATATTCTGAAATAAAATAATTCAA
127312 TTCAATTATTAATCAAATCTGCCATTTAAACACCTCTGAGATGAAATCCAAATATACAATTATCA
192 TTCAATTATTAATCAAATCTGCCATTTAAACACCTCTGAGATGAAATCCAAATATACAATTATCA
127377 AATCATCTTCCACAATATAGTATTATAAGACTTTTAAATTACTATAGTTGATAAGATTTAGTCCA
257 AATCATCTTCCACAATATAGTATTATAAGACTTTTAAATTACTATAGTTGATAAGATTTAGTCCA
127442 TTATTTTTTTATCAATTTTATATATTATATGTAAATCAAAGATCACAAACCAATTTACTTCACCG
322 TTATTTTTTTATCAATTTTATATATTATATGTAAATCAAAGATCACAAACCAATTTACTTCACCG
*
127507 GTTAAAGAAATCGTTGTTGTTATTAGAGGTCACTGGTTCGAGCATCAGTAGTTGCAATAGGGTGA
387 GTTAAAGAAATCGTTGTTGTTATTAGAGGTCACCGGTTCGAGCATCAGTAGTTGCAATAGGGTGA
*
127572 TTGAGTGTGCATTGTCAAATGATTGAGAATATATATAATATATAATATATAATACTTTATAATCA
452 TTGAGTGTGCATTGTCAAATGATTGAG---A-ATATAATATATAACATATAATACTTTATAATCA
127637 TTGTCACGCCCTAATTTAATGG
513 TTGTCACGCCCTAATTTAATGG
127659 CTAGATTTTA
Statistics
Matches: 527, Mismatches: 4, Indels: 11
0.97 0.01 0.02
Matches are distributed among these distances:
531 128 0.24
534 1 0.00
535 347 0.66
540 1 0.00
541 2 0.00
542 48 0.09
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (534 bp):
TATTTCTACAATTTTACAAATACAAGTATTATGACTATTATATTTTATTAAAATAAATATATTTA
AAATTCTATTAATTATTTATTAAAATATAAATATTATATTATCAATTATATTAATTACTTATTAA
AAAATATTATTATAATATCAAAATAAAATATTATATTATATTCTGAAATAAAATAATTCAATTCA
ATTATTAATCAAATCTGCCATTTAAACACCTCTGAGATGAAATCCAAATATACAATTATCAAATC
ATCTTCCACAATATAGTATTATAAGACTTTTAAATTACTATAGTTGATAAGATTTAGTCCATTAT
TTTTTTATCAATTTTATATATTATATGTAAATCAAAGATCACAAACCAATTTACTTCACCGGTTA
AAGAAATCGTTGTTGTTATTAGAGGTCACCGGTTCGAGCATCAGTAGTTGCAATAGGGTGATTGA
GTGTGCATTGTCAAATGATTGAGAATATAATATATAACATATAATACTTTATAATCATTGTCACG
CCCTAATTTAATGG
Found at i:133928 original size:2 final size:2
Alignment explanation
Indices: 133921--133951 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
133911 ACTAACTAAC
133921 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 T
133952 TGGCTAGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:134155 original size:2 final size:2
Alignment explanation
Indices: 134148--134183 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
134138 AGTTTTACAC
134148 TA TA 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 TA TA
134184 GGAAAGATCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:136933 original size:21 final size:21
Alignment explanation
Indices: 136909--136949 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
136899 ACCTTCATTT
* *
136909 AATAAAACTGATTTTTTTATA
1 AATAAAACTAATATTTTTATA
136930 AATAAAACTAATATTTTTAT
1 AATAAAACTAATATTTTTAT
136950 TTATGAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (21 bp):
AATAAAACTAATATTTTTATA
Found at i:138304 original size:18 final size:18
Alignment explanation
Indices: 138281--138412 Score: 219
Period size: 18 Copynumber: 7.3 Consensus size: 18
138271 AATATTTCCA
* *
138281 GTAATCTTATTCCCGCCG
1 GTAATCCTATTCCCGTCG
138299 GTAATCCTATTCCCGTCG
1 GTAATCCTATTCCCGTCG
138317 GTAATCCTATTCCCGTCG
1 GTAATCCTATTCCCGTCG
*
138335 GTAATCATATTCCCGTCG
1 GTAATCCTATTCCCGTCG
138353 GTAATCCTATTCCCGTCG
1 GTAATCCTATTCCCGTCG
138371 GTAATCCTATTCCCGTCG
1 GTAATCCTATTCCCGTCG
**
138389 GTAATATTATTCCCGTCG
1 GTAATCCTATTCCCGTCG
138407 GTAATC
1 GTAATC
138413 TTACATTCCG
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 107 1.00
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (18 bp):
GTAATCCTATTCCCGTCG
Found at i:140424 original size:18 final size:18
Alignment explanation
Indices: 140401--140440 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
140391 AACACGTAGA
140401 GACTCTCTTGAGTCAAGT
1 GACTCTCTTGAGTCAAGT
140419 GACTCTCTTGAGTCAAGT
1 GACTCTCTTGAGTCAAGT
140437 GACT
1 GACT
140441 AAAATGCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.33
Consensus pattern (18 bp):
GACTCTCTTGAGTCAAGT
Found at i:141096 original size:32 final size:31
Alignment explanation
Indices: 141018--141098 Score: 76
Period size: 32 Copynumber: 2.6 Consensus size: 31
141008 CAGAGTTAAT
*
141018 GTTGCA-TTAGATAATGCACATTATAGTGAA
1 GTTGCATTTAGATAATGCACATGATAGTGAA
* * * *
141048 GTTTGGATTCATATAATGCACATGAGTA-TTAGA
1 G-TTGCATTTAGATAATGCACATGA-TAGTGA-A
141081 GTTGCATTTAGATAATGC
1 GTTGCATTTAGATAATGC
141099 GTAGTAGTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
30 1 0.03
31 4 0.10
32 30 0.77
33 4 0.10
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (31 bp):
GTTGCATTTAGATAATGCACATGATAGTGAA
Found at i:145924 original size:31 final size:31
Alignment explanation
Indices: 145887--145961 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
145877 TTAAAAAGCC
* * *
145887 TAAGTTTTGGTCACTTGCGTTATTATTTTAT
1 TAAGTTTTGGTCACTTACATTATCATTTTAT
145918 TAAGTTTTGGTCACTTACATTATCATTTTAT
1 TAAGTTTTGGTCACTTACATTATCATTTTAT
145949 TAAGTTTTGGTCA
1 TAAGTTTTGGTCA
145962 TTTGGACGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.52
Consensus pattern (31 bp):
TAAGTTTTGGTCACTTACATTATCATTTTAT
Found at i:149006 original size:20 final size:19
Alignment explanation
Indices: 148970--149008 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
148960 GTGAGAAATC
*
148970 TAAATCTAAGGATCTAATT
1 TAAATCTAAGGACCTAATT
*
148989 TAAAGTCTAAGGCCCTAATT
1 TAAA-TCTAAGGACCTAATT
149009 ACAAACTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (19 bp):
TAAATCTAAGGACCTAATT
Found at i:152260 original size:34 final size:32
Alignment explanation
Indices: 152217--152279 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 32
152207 TACCAACGTT
152217 AAATACAAGCTAGATCCTTCAAAAAAAAAAAAAA
1 AAATACAAGCTAGAT-CTT-AAAAAAAAAAAAAA
* *
152251 AAATACAAGCTAGGTCTTAAAAGAAAAAA
1 AAATACAAGCTAGATCTTAAAAAAAAAAA
152280 CATTTTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 10 0.37
33 3 0.11
34 14 0.52
ACGTcount: A:0.62, C:0.13, G:0.10, T:0.16
Consensus pattern (32 bp):
AAATACAAGCTAGATCTTAAAAAAAAAAAAAA
Found at i:154755 original size:73 final size:73
Alignment explanation
Indices: 154636--154780 Score: 263
Period size: 73 Copynumber: 2.0 Consensus size: 73
154626 TCGGTGACTA
*
154636 CAGTGATTAATGTGATATTTGGTATTTAAGTCAGATCACTCTAATCGGGTCTATCTATTTATGCT
1 CAGTGATTAATGTGATATTTGGTATTTAAGTCAGATCACTCTAATCGGGTCTATCTATGTATGCT
154701 ATCATATT
66 ATCATATT
* *
154709 CAGTGATTAATGTGATATTTGGTATTTAAGTCAGGTCACTCTAATCGGGTCTATCTATGTATGGT
1 CAGTGATTAATGTGATATTTGGTATTTAAGTCAGATCACTCTAATCGGGTCTATCTATGTATGCT
154774 ATCATAT
66 ATCATAT
154781 AGAGATTGCA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (73 bp):
CAGTGATTAATGTGATATTTGGTATTTAAGTCAGATCACTCTAATCGGGTCTATCTATGTATGCT
ATCATATT
Found at i:155916 original size:2 final size:2
Alignment explanation
Indices: 155909--155943 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
155899 ATGGTTTAAC
155909 AT AT AT AT 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 AT AT AT AT A
155944 ATCGTACATT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:160883 original size:150 final size:150
Alignment explanation
Indices: 160611--160943 Score: 488
Period size: 150 Copynumber: 2.2 Consensus size: 150
160601 CTTAATCGGT
* * *
160611 TAAAATAAAATAGTCATTATCTATTATGTTAAACTACCTACCAGTTTGTTTGAAGATTACTAATA
1 TAAAATAAAATAGGCATTACCTATTATGTTAAACTACCTACCAGTTTGTTTAAAGATTACTAATA
*
160676 ATGTAAACAATAAGATAAAATAGACACTACCTATTACATTAAAATACCTACCAGTTTGTTTAAAG
66 ATGTAAACAATAAAATAAAATAGACACTACCTATTACATTAAAATACCTACCAGTTTGTTTAAAG
*
160741 GTTACTAATAATGCAAACGG
131 GTTAATAATAATGCAAACGG
* * *
160761 TAAAATAAAATAGGCACTAGCTATTATGTTAAACTACCTACCGGTTTGTTTAAA-AGTTACTAAT
1 TAAAATAAAATAGGCATTACCTATTATGTTAAACTACCTACCAGTTTGTTTAAAGA-TTACTAAT
* ** * * * * *
160825 ATTGTAAACGGTAAAATAAAATAGTCGCTACCTATTACATTAAATTAGCTACCCGTTTGTTTAAA
65 AATGTAAACAATAAAATAAAATAGACACTACCTATTACATTAAAATACCTACCAGTTTGTTTAAA
*
160890 GGTTAATAATAATGTAAACGG
130 GGTTAATAATAATGCAAACGG
*
160911 TAAAATAAAATAGGCGTTACCTATTATGTTAAA
1 TAAAATAAAATAGGCATTACCTATTATGTTAAA
160944 TAGACGCTAC
Statistics
Matches: 163, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
149 1 0.01
150 162 0.99
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (150 bp):
TAAAATAAAATAGGCATTACCTATTATGTTAAACTACCTACCAGTTTGTTTAAAGATTACTAATA
ATGTAAACAATAAAATAAAATAGACACTACCTATTACATTAAAATACCTACCAGTTTGTTTAAAG
GTTAATAATAATGCAAACGG
Found at i:160944 original size:23 final size:23
Alignment explanation
Indices: 160918--160989 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
160908 CGGTAAAATA
*
160918 AAATAGGCGTTACCTATTATGTT
1 AAATAGGCGTTACCTATTACGTT
* *
160941 AAATAGACGCTACCTATTACGTT
1 AAATAGGCGTTACCTATTACGTT
* * *
160964 AAATAAGTGTTACCAATTACGTT
1 AAATAGGCGTTACCTATTACGTT
160987 AAA
1 AAA
160990 CTAATTACCG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (23 bp):
AAATAGGCGTTACCTATTACGTT
Found at i:160944 original size:75 final size:75
Alignment explanation
Indices: 160611--160943 Score: 423
Period size: 75 Copynumber: 4.4 Consensus size: 75
160601 CTTAATCGGT
* * * * *
160611 TAAAATAAAATAGTCATTATCTATTATGTTAAACTACCTACCAGTTTGTTTGAAGATTACTAATA
1 TAAAATAAAATAGGCACTACCTATTATGTTAAACTACCTACCAGTTTGTTTAAAGGTTACTAATA
**
160676 ATGTAAACAA
66 ATGTAAACGG
* * ** *
160686 TAAGATAAAATAGACACTACCTATTACATTAAAATACCTACCAGTTTGTTTAAAGGTTACTAATA
1 TAAAATAAAATAGGCACTACCTATTATGTTAAACTACCTACCAGTTTGTTTAAAGGTTACTAATA
*
160751 ATGCAAACGG
66 ATGTAAACGG
* * *
160761 TAAAATAAAATAGGCACTAGCTATTATGTTAAACTACCTACCGGTTTGTTTAAAAGTTACTAATA
1 TAAAATAAAATAGGCACTACCTATTATGTTAAACTACCTACCAGTTTGTTTAAAGGTTACTAATA
*
160826 TTGTAAACGG
66 ATGTAAACGG
* * ** * * * *
160836 TAAAATAAAATAGTCGCTACCTATTACATTAAATTAGCTACCCGTTTGTTTAAAGGTTAATAATA
1 TAAAATAAAATAGGCACTACCTATTATGTTAAACTACCTACCAGTTTGTTTAAAGGTTACTAATA
160901 ATGTAAACGG
66 ATGTAAACGG
**
160911 TAAAATAAAATAGGCGTTACCTATTATGTTAAA
1 TAAAATAAAATAGGCACTACCTATTATGTTAAA
160944 TAGACGCTAC
Statistics
Matches: 221, Mismatches: 37, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 221 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (75 bp):
TAAAATAAAATAGGCACTACCTATTATGTTAAACTACCTACCAGTTTGTTTAAAGGTTACTAATA
ATGTAAACGG
Found at i:161195 original size:153 final size:153
Alignment explanation
Indices: 161019--161307 Score: 479
Period size: 153 Copynumber: 1.9 Consensus size: 153
161009 AGGTTAATAA
*
161019 TAATGTAAACGCTAAAATATATACAACTTAACCATTTGAAATATTTTTTAAAAATTTGAAAGTAT
1 TAATGTAAACGCTAAAATATATACAACTTAACCATTTGAAATATTTTTTAAAAATTCGAAAGTAT
* * *
161084 GAATACTTACTCTCAAAGTATGGATACTCTAAAGGTTAATAATAATGTATCCATACTTACTCTAA
66 GAATACTTACTCTAAAAGTATGAATACTCTAAAAGTTAATAATAATGTATCCATACTTACTCTAA
161149 AAGTATGGATACTATTTCGACAG
131 AAGTATGGATACTATTTCGACAG
* *** *
161172 TAATGTAAACGGTAAAATATATACAACTTAATTGTTTGAAATATTTTTTTAAAATTCGAAAGTAT
1 TAATGTAAACGCTAAAATATATACAACTTAACCATTTGAAATATTTTTTAAAAATTCGAAAGTAT
* *
161237 GAATATTTACTCTAAAAGTATGAATACTCTAAAAGTTAATAATAATGTATCTATACTTACTCTAA
66 GAATACTTACTCTAAAAGTATGAATACTCTAAAAGTTAATAATAATGTATCCATACTTACTCTAA
161302 AAGTAT
131 AAGTAT
161308 TAATATTTGC
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
153 125 1.00
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.36
Consensus pattern (153 bp):
TAATGTAAACGCTAAAATATATACAACTTAACCATTTGAAATATTTTTTAAAAATTCGAAAGTAT
GAATACTTACTCTAAAAGTATGAATACTCTAAAAGTTAATAATAATGTATCCATACTTACTCTAA
AAGTATGGATACTATTTCGACAG
Found at i:161671 original size:108 final size:108
Alignment explanation
Indices: 161481--161776 Score: 396
Period size: 108 Copynumber: 2.7 Consensus size: 108
161471 ATTAGATTTA
* * * * * * *
161481 ACCTAGTATGTTAATATTTATTTATAACAAAATAAGAAATTAATCTATTTTGTTGTCGTGGGATT
1 ACCTAATATGTTAATA-ATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATT
* *
161546 TCGAAGGCCCCGTCAGCTTAAACTTTGGTAACATTTTAGGCGCT
65 TCGAAGGCCCCATCAGCTTAAACTTTGATAACATTTTAGGCGCT
161590 ACCTAATATGTTAATAATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTT
1 ACCTAATATGTTAATAATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTT
** *
161655 CTTAGGCCCCATCAGCTTAAACTTTGATAATATTTTAGGCGCT
66 CGAAGGCCCCATCAGCTTAAACTTTGATAACATTTTAGGCGCT
* * * **
161698 ACCTAATATTTTGATAATATTAATAACAAATTAAGTAATTAACAC-ATTTTGTTATCGTCTTATT
1 ACCTAATATGTTAATAATATTAATAACAAAATAAGTAATTAAC-CTATTTTGTTATCGTCGGATT
* *
161762 TCCATGGCCCCATCA
65 TCGAAGGCCCCATCA
161777 TCTTTAAAAA
Statistics
Matches: 166, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
108 150 0.90
109 16 0.10
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (108 bp):
ACCTAATATGTTAATAATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTT
CGAAGGCCCCATCAGCTTAAACTTTGATAACATTTTAGGCGCT
Found at i:161930 original size:226 final size:224
Alignment explanation
Indices: 161623--162299 Score: 781
Period size: 226 Copynumber: 3.0 Consensus size: 224
161613 TAACAAAATA
* * *
161623 AGTAATTAACCTATTTTGTTATCGTCGGATTTCTTAGGCCCCATCAGCTTAAACTTTGATAATAT
1 AGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAATAT
* *
161688 TTTAGGCGCTACCTAATATTTTGATAATATTAATAACAAATTAAGTAATTAACACATTTTGTTAT
66 TTTAGG-G-TACCTAATATGTTGATAATATTGATAACAAATTAAGTAATTAACACATTTTGTTAT
* ** * * * *
161753 CGTCTTATTTCCATGGCCCCATCATCTTTAAAAAAGTGTTACTTATTACATTAAATAAACGCTAC
129 TGTCGGATTTCTAAGACCCCATCATCTTTAAAAAAGTGTTACCTATTACATTAAATAAACGCTAC
*
161818 TTGTTATATTATTATGGTTGATAATGTTTCT
194 TTGTTATGTTATTATGGTTGATAATGTTTCT
* * * * * *
161849 AGTAATTAACATATTTTGTTATCGTCTGATTTATAAGGTTCCATCAACTTAAATTTTGGTAATAT
1 AGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAATAT
* *
161914 TTTAGGTGATACCTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTAT
66 TTTAGG-G-TACCTAATATGTTGATAATATTGATAACAAATTAAGTAATTAACACATTTTGTTAT
* * * * *
161979 TGTCGGATTTCTAAGTA-TCCATCAGCTTTAAAAAGGTGATACCTATTACATTTAAATAAACACT
129 TGTCGGATTTCTAAG-ACCCCATCATCTTTAAAAAAGTGTTACCTATTACA-TTAAATAAACGCT
*
162043 ACTTGTTATGTTATTATGGTTGAAAATGTTTCT
192 ACTTGTTATGTTATTATGGTTGATAATGTTTCT
* * * * * *
162076 AGTAATTATCCGATTATGTTATCTTCGGATATCTAAGGCTCAATCAGCTTAAACTTTGG------
1 AGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAATAT
*
162135 --T--GGTACCTAATATGTTGATAA-ATTGATAACAAATTAAGTATTTAAC-CTATTTTGTTATT
66 TTTAGGGTACCTAATATGTTGATAATATTGATAACAAATTAAGTAATTAACAC-ATTTTGTTATT
* * * * * *
162194 GTCGGATTTCTAAGACCCTATCATCTTTAAAAATGCGTTACCTATTACGTTATATAAATGCTA-T
130 GTCGGATTTCTAAGACCCCATCATCTTTAAAAAAGTGTTACCTATTACATTAAATAAACGCTACT
* *
162258 CTGATATGTTATTATGGTTGATAATATTT-T
195 -TGTTATGTTATTATGGTTGATAATGTTTCT
*
162288 CATTAATTAACC
1 -AGTAATTAACC
162300 GGATATGTTA
Statistics
Matches: 386, Mismatches: 59, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
212 2 0.01
213 46 0.12
214 74 0.19
215 18 0.05
216 1 0.00
217 1 0.00
219 1 0.00
226 153 0.40
227 90 0.23
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (224 bp):
AGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAATAT
TTTAGGGTACCTAATATGTTGATAATATTGATAACAAATTAAGTAATTAACACATTTTGTTATTG
TCGGATTTCTAAGACCCCATCATCTTTAAAAAAGTGTTACCTATTACATTAAATAAACGCTACTT
GTTATGTTATTATGGTTGATAATGTTTCT
Found at i:163168 original size:14 final size:13
Alignment explanation
Indices: 163139--163172 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
163129 CAAATTTTTT
*
163139 TTAATAATATAAA
1 TTAATAATAAAAA
163152 TTAATATATAAAAA
1 TTAATA-ATAAAAA
163166 TTAATAA
1 TTAATAA
163173 AATTATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAATAATAAAAA
Found at i:163355 original size:2 final size:2
Alignment explanation
Indices: 163348--163392 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
163338 TAAAAACTCA
*
163348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
163390 AT A
1 AT A
163393 CAATCACTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:168049 original size:22 final size:22
Alignment explanation
Indices: 168024--168072 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 22
168014 ACCAAATAAT
168024 AATTTTAAAATTAATA-ATGATA
1 AATTTTAAAATTAATATAT-ATA
168046 AATTTTAAAATTAATATATATA
1 AATTTTAAAATTAATATATATA
168068 AATTT
1 AATTT
168073 GAATAAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
AATTTTAAAATTAATATATATA
Found at i:173275 original size:16 final size:18
Alignment explanation
Indices: 173254--173286 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
173244 TGTCACATTA
173254 ACTTTT-CAAAA-CGTTT
1 ACTTTTACAAAATCGTTT
173270 ACTTTTACAAAATCGTT
1 ACTTTTACAAAATCGTT
173287 GAAAACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (18 bp):
ACTTTTACAAAATCGTTT
Found at i:173884 original size:21 final size:21
Alignment explanation
Indices: 173831--173889 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
173821 ATAAAATTTA
* * * *
173831 TCCCGAATGACATCATATATG
1 TCCCGAAAGACCTCGTATATC
173852 TCCCGAAAGACCTCGTATATC
1 TCCCGAAAGACCTCGTATATC
*
173873 TCCCGAAGGACCTCGTA
1 TCCCGAAAGACCTCGTA
173890 AAACCCTCTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (21 bp):
TCCCGAAAGACCTCGTATATC
Found at i:174598 original size:20 final size:20
Alignment explanation
Indices: 174573--174626 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
174563 TTATTTCAAA
**
174573 ATGGTATCGATACTTGCCTT
1 ATGGTATCGATACTACCCTT
174593 ATGGTATCGATACTACCCTT
1 ATGGTATCGATACTACCCTT
174613 -TAGGTATCGATACT
1 AT-GGTATCGATACT
174627 CCTTGAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
ATGGTATCGATACTACCCTT
Found at i:180824 original size:22 final size:21
Alignment explanation
Indices: 180797--180851 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
180787 TAAAATTTAT
* *
180797 CCGAAGGACTTTATATATGTC
1 CCGAAGGACCTCATATATGTC
*
180818 CACGAAGGACCTCGTATATGTC
1 C-CGAAGGACCTCATATATGTC
*
180840 CCGAATGACCTC
1 CCGAAGGACCTC
180852 GTAGAACCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (21 bp):
CCGAAGGACCTCATATATGTC
Found at i:180849 original size:21 final size:22
Alignment explanation
Indices: 180810--180854 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
180800 AAGGACTTTA
180810 TATATGTCCACGAAGGACCTCG
1 TATATGTCCACGAAGGACCTCG
*
180832 TATATGTCC-CGAATGACCTCG
1 TATATGTCCACGAAGGACCTCG
180853 TA
1 TA
180855 GAACCCTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (22 bp):
TATATGTCCACGAAGGACCTCG
Found at i:181612 original size:20 final size:18
Alignment explanation
Indices: 181587--181656 Score: 58
Period size: 20 Copynumber: 3.9 Consensus size: 18
181577 TTTCAAAATT
181587 GTATCGATACTTGCCTTATG
1 GTATCGATACTT-CCTT-TG
*
181607 GTATCGGTA--TCC-TTG
1 GTATCGATACTTCCTTTG
*
181622 GTATCGATACTACCCTTTAG
1 GTATCGATACT-TCCTTT-G
181642 GTATCGATAC-TCCTT
1 GTATCGATACTTCCTT
181657 GAATAACTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 10 0.24
16 1 0.02
17 2 0.05
18 7 0.17
19 2 0.05
20 19 0.46
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (18 bp):
GTATCGATACTTCCTTTG
Found at i:181645 original size:35 final size:36
Alignment explanation
Indices: 181587--181657 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 36
181577 TTTCAAAATT
** *
181587 GTATCGATACTTGCCTTATGGTATCGGTA-TCCTTG
1 GTATCGATACTACCCTTATGGTATCGATACTCCTTG
181622 GTATCGATACTACCCTT-TAGGTATCGATACTCCTTG
1 GTATCGATACTACCCTTAT-GGTATCGATACTCCTTG
181658 AATAACTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 1 0.03
35 24 0.77
36 6 0.19
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (36 bp):
GTATCGATACTACCCTTATGGTATCGATACTCCTTG
Found at i:184156 original size:18 final size:19
Alignment explanation
Indices: 184125--184171 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
184115 GCAATGAGAT
*
184125 ATTTAAAT-AATAAAAGTG
1 ATTTAAATAAATAAAAGTA
184143 A-TTAAATAAATAAAAGTA
1 ATTTAAATAAATAAAAGTA
184161 ATTTAAATAAA
1 ATTTAAATAAA
184172 AATAAGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 11 0.42
19 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (19 bp):
ATTTAAATAAATAAAAGTA
Found at i:184174 original size:21 final size:20
Alignment explanation
Indices: 184128--184176 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
184118 ATGAGATATT
*
184128 TAAATAATAAAAGTGATTAAA
1 TAAA-AATAAAAGTAATTAAA
184149 T--AAATAAAAGTAATTTAAA
1 TAAAAATAAAAGTAA-TTAAA
184168 TAAAAATAA
1 TAAAAATAA
184177 GAGAATAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 10 0.42
19 7 0.29
21 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (20 bp):
TAAAAATAAAAGTAATTAAA
Found at i:185895 original size:22 final size:24
Alignment explanation
Indices: 185829--185898 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 24
185819 TTAAATTTTT
*
185829 TTCTTTTTGTTGTTGTTTCGTTCTGCA
1 TTCTTTTTCTT-TT-TTTC-TTCTGCA
* * *
185856 TTCTTTTTCATGTATTCTTCT-C-
1 TTCTTTTTCTTTTTTTCTTCTGCA
185878 TTCTTTTTCTTTTTTTCTTCT
1 TTCTTTTTCTTTTTTTCTTCT
185899 TTCGAACAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
22 18 0.50
23 1 0.03
24 4 0.11
25 3 0.08
26 1 0.03
27 9 0.25
ACGTcount: A:0.04, C:0.19, G:0.09, T:0.69
Consensus pattern (24 bp):
TTCTTTTTCTTTTTTTCTTCTGCA
Found at i:187661 original size:11 final size:12
Alignment explanation
Indices: 187629--187653 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
187619 TACTTAATCG
187629 AAATAAAAACAA
1 AAATAAAAACAA
187641 AAATAAAAACAA
1 AAATAAAAACAA
187653 A
1 A
187654 GTAAAAACTG
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:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (12 bp):
AAATAAAAACAA
Found at i:190456 original size:18 final size:19
Alignment explanation
Indices: 190425--190471 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
190415 GCAATGAGAT
190425 ATTTAAAT-AATAAAA-TCA
1 ATTTAAATAAATAAAAGT-A
190443 A-TTAAATAAATAAAAGTA
1 ATTTAAATAAATAAAAGTA
190461 ATTTAAATAAA
1 ATTTAAATAAA
190472 AATAAGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.23
18 10 0.38
19 10 0.38
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
ATTTAAATAAATAAAAGTA
Found at i:191985 original size:21 final size:21
Alignment explanation
Indices: 191960--192007 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
191950 ACTTTTTGGG
* * *
191960 AGTTTTGAAACTATGACTCAA
1 AGTTTCGAAACTATAACCCAA
*
191981 AGTTTCGATACTATAACCCAA
1 AGTTTCGAAACTATAACCCAA
192002 AGTTTC
1 AGTTTC
192008 AATACTCTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (21 bp):
AGTTTCGAAACTATAACCCAA
Found at i:192012 original size:21 final size:21
Alignment explanation
Indices: 191969--192013 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
191959 GAGTTTTGAA
* * *
191969 ACTATGACTCAAAGTTTCGAT
1 ACTATAACCCAAAGTTTCAAT
191990 ACTATAACCCAAAGTTTCAAT
1 ACTATAACCCAAAGTTTCAAT
192011 ACT
1 ACT
192014 CTTGAAAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (21 bp):
ACTATAACCCAAAGTTTCAAT
Found at i:203651 original size:2 final size:2
Alignment explanation
Indices: 203603--203640 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
203593 TTTTAAGATA
203603 AT AT 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 AT AT
203641 TAAACATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:204063 original size:17 final size:17
Alignment explanation
Indices: 204038--204078 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
204028 TAAATATGAT
204038 TAATAAAAT-TAAAATAG
1 TAATAAAATGTAAAA-AG
*
204055 TATTAAAATGTAAAAAG
1 TAATAAAATGTAAAAAG
204072 TAATAAA
1 TAATAAA
204079 GCTTGTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (17 bp):
TAATAAAATGTAAAAAG
Found at i:205507 original size:3 final size:3
Alignment explanation
Indices: 205478--205550 Score: 55
Period size: 3 Copynumber: 25.7 Consensus size: 3
205468 CTGTAATATG
* * * *
205478 TAA TAA T-A TAT TAT TAA TAA -AA T-A TAA TAA TAG TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
205523 CAA TTA TAA TAA TTA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
205551 GGCAAAAATT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
2 8 0.15
3 46 0.85
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Done.