Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000908.1 Hibiscus syriacus cultivar Beakdansim tig00001802_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: 480356
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 3
Found at i:6197 original size:18 final size:18
Alignment explanation
Indices: 6163--6197 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6153 TACAGACACG
* *
6163 AACCTCAACCTTTCACCA
1 AACCTCAACCCTACACCA
6181 AACCTCAACCCTACACC
1 AACCTCAACCCTACACC
6198 TCTCAAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.49, G:0.00, T:0.17
Consensus pattern (18 bp):
AACCTCAACCCTACACCA
Found at i:6536 original size:15 final size:15
Alignment explanation
Indices: 6516--6553 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
6506 GGATTTTAGA
6516 CTCTGGTTGTGGA-TT
1 CTCTGGTTG-GGATTT
6531 CTCTGGTTGGGATTT
1 CTCTGGTTGGGATTT
6546 CTCTGGTT
1 CTCTGGTT
6554 TCGTCGTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.05, C:0.16, G:0.32, T:0.47
Consensus pattern (15 bp):
CTCTGGTTGGGATTT
Found at i:9922 original size:18 final size:18
Alignment explanation
Indices: 9899--9939 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
9889 CAACTCATCA
9899 ATCTCTCCATCGGGACTC
1 ATCTCTCCATCGGGACTC
* *
9917 ATCTCTTCATCGGGTCTC
1 ATCTCTCCATCGGGACTC
9935 ATCTC
1 ATCTC
9940 GATCAATGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.37, G:0.15, T:0.34
Consensus pattern (18 bp):
ATCTCTCCATCGGGACTC
Found at i:11915 original size:20 final size:20
Alignment explanation
Indices: 11861--11906 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
11851 ACTTGTAGAA
11861 AGTATCAAAACTTTTTCAGG
1 AGTATCAAAACTTTTTCAGG
11881 AGTATCAAAACTTTTTCAGG
1 AGTATCAAAACTTTTTCAGG
11901 AGTATC
1 AGTATC
11907 GATACTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
AGTATCAAAACTTTTTCAGG
Found at i:12770 original size:3 final size:3
Alignment explanation
Indices: 12727--12756 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
12717 CTAGAGTGTT
12727 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
12757 ACACTACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:13252 original size:10 final size:10
Alignment explanation
Indices: 13233--13286 Score: 54
Period size: 10 Copynumber: 5.0 Consensus size: 10
13223 GTAATATGTT
13233 TGTTCATTTA
1 TGTTCATTTA
*
13243 TGTTCGTTTA
1 TGTTCATTTA
13253 TGTTCATTCATTTA
1 TG----TTCATTTA
13267 TGTTCATTTA
1 TGTTCATTTA
*
13277 TGTTCGTTTA
1 TGTTCATTTA
13287 CTTTCGTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 28 0.76
14 9 0.24
ACGTcount: A:0.17, C:0.11, G:0.13, T:0.59
Consensus pattern (10 bp):
TGTTCATTTA
Found at i:13262 original size:24 final size:24
Alignment explanation
Indices: 13205--13281 Score: 100
Period size: 24 Copynumber: 3.1 Consensus size: 24
13195 AGAGGTCTTA
*
13205 TTCATTCATTTATGTTCAGTAATATG
1 TTCATTCATTTATGTTC-GT-TTATG
**
13231 TTTGTTCATTTATGTTCGTTTATG
1 TTCATTCATTTATGTTCGTTTATG
*
13255 TTCATTCATTTATGTTCATTTATG
1 TTCATTCATTTATGTTCGTTTATG
13279 TTC
1 TTC
13282 GTTTACTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 28 0.62
25 2 0.04
26 15 0.33
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.57
Consensus pattern (24 bp):
TTCATTCATTTATGTTCGTTTATG
Found at i:13268 original size:14 final size:14
Alignment explanation
Indices: 13205--13274 Score: 53
Period size: 14 Copynumber: 5.4 Consensus size: 14
13195 AGAGGTCTTA
13205 TTCATTCATTTATG
1 TTCATTCATTTATG
* *
13219 TTCAGT-A-ATATG
1 TTCATTCATTTATG
**
13231 TTTGTTCATTTATG
1 TTCATTCATTTATG
*
13245 ----TTCGTTTATG
1 TTCATTCATTTATG
13255 TTCATTCATTTATG
1 TTCATTCATTTATG
13269 TTCATT
1 TTCATT
13275 TATGTTCGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
10 9 0.21
12 7 0.17
13 2 0.05
14 24 0.57
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (14 bp):
TTCATTCATTTATG
Found at i:13372 original size:20 final size:21
Alignment explanation
Indices: 13347--13393 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
13337 TCTCTAGACC
13347 AATTTAAT-TAAGACCCAATA
1 AATTTAATCTAAGACCCAATA
* *
13367 AATTTAATCTGATACCCAATA
1 AATTTAATCTAAGACCCAATA
13388 ATATTT
1 A-ATTT
13394 TAAAATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 11 0.48
22 4 0.17
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (21 bp):
AATTTAATCTAAGACCCAATA
Found at i:13541 original size:34 final size:34
Alignment explanation
Indices: 13493--13565 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
13483 TCTATTTTCT
** * *
13493 TTTATGTTCATTTACATTTGTTTGTTTGTGTTCC
1 TTTATGTTCATTTACATCCGTTTGTTTATGTTCA
*
13527 TTTATGTTCGTTTACATCCGTTTGTTTATGTTCA
1 TTTATGTTCATTTACATCCGTTTGTTTATGTTCA
13561 TTTAT
1 TTTAT
13566 CATTTAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.60
Consensus pattern (34 bp):
TTTATGTTCATTTACATCCGTTTGTTTATGTTCA
Found at i:15922 original size:60 final size:60
Alignment explanation
Indices: 15791--15971 Score: 188
Period size: 60 Copynumber: 3.0 Consensus size: 60
15781 ATTGTATGTT
* * * *
15791 TCTAAACTATAACACTCATTTTAAATT-GATCCTTAAAATTTTGAATATTTTAATTTTATC
1 TCTAAACTATGACACTCATTTTAAATTAG-TCCTTAAACTTTTGAAAATTCTAATTTTATC
* ** * *
15851 -CTCAAAGTATGATTCTCATTCTAAATTAGTCATTAAACTTTTGAAAATTCTAATTTTATC
1 TCT-AAACTATGACACTCATTTTAAATTAGTCCTTAAACTTTTGAAAATTCTAATTTTATC
* * ** *
15911 TCTAAACTATGACCCTCTTTTTAAATTAGTCCCCAAACTTTT-AAATATTCTAATTTCATC
1 TCTAAACTATGACACTCATTTTAAATTAGTCCTTAAACTTTTGAAA-ATTCTAATTTTATC
15971 T
1 T
15972 TCAAATTCAT
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
59 5 0.05
60 91 0.92
61 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.44
Consensus pattern (60 bp):
TCTAAACTATGACACTCATTTTAAATTAGTCCTTAAACTTTTGAAAATTCTAATTTTATC
Found at i:16234 original size:60 final size:59
Alignment explanation
Indices: 16095--16251 Score: 142
Period size: 60 Copynumber: 2.6 Consensus size: 59
16085 AGTATATAGG
* *
16095 TATAGTTTGGGATAAAATTGGAATATTCAAAAAGTTTGGAGACTAATTTAGAATGAATT
1 TATAGTTTGGGATAAAATTGAAATATTCAAAAAGTTTGGAGACTAATTTAGAATGAAAT
* * * *
16154 TCATAGTTTGGGGATGAAATTGAAATGTTC-AAAA-TTTTGAGGACTATTTTTA-AATGATAAT
1 T-ATAGTTT-GGGATAAAATTGAAATATTCAAAAAGTTTGGA-GACTA-ATTTAGAATGA-AAT
* * **
16215 TATAATTTAGGGATAAAATT-AAAAATTTTAAAAGTTT
1 TATAGTTT-GGGATAAAATTGAAATATTCAAAAAGTTT
16252 AGGTATCAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
59 11 0.14
60 41 0.52
61 27 0.34
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (59 bp):
TATAGTTTGGGATAAAATTGAAATATTCAAAAAGTTTGGAGACTAATTTAGAATGAAAT
Found at i:16822 original size:30 final size:30
Alignment explanation
Indices: 16788--16848 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
16778 GCTAATTTGC
* *
16788 TATGAAATTGAGTGTACTACTTGTATATGT
1 TATGAAATTGACTGTACCACTTGTATATGT
16818 TATGAAATTGACTGTACCACTTGTATATGT
1 TATGAAATTGACTGTACCACTTGTATATGT
16848 T
1 T
16849 CCAAAAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.43
Consensus pattern (30 bp):
TATGAAATTGACTGTACCACTTGTATATGT
Found at i:19657 original size:21 final size:21
Alignment explanation
Indices: 19632--19748 Score: 65
Period size: 21 Copynumber: 5.4 Consensus size: 21
19622 CACCAAAGTG
*
19632 CCACATAATTGTTCCGAATGA
1 CCACATAATTGTACCGAATGA
* * *
19653 CCACATAGTTTGCACCGAAGTGT
1 CCACATA-ATTGTACCGAA-TGA
* * * *
19676 CCATATAGGGTTGCACCAAAGTG-
1 CCACATA--ATTGTACCGAA-TGA
* * *
19699 CCACATATTTTTCCCGAATGA
1 CCACATAATTGTACCGAATGA
* *
19720 CCACATAATTGTCCCGAAGGA
1 CCACATAATTGTACCGAATGA
19741 CCACATAA
1 CCACATAA
19749 AACCCTCGAC
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.03
21 39 0.51
22 8 0.11
23 14 0.18
24 13 0.17
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (21 bp):
CCACATAATTGTACCGAATGA
Found at i:20373 original size:54 final size:54
Alignment explanation
Indices: 20284--20407 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 54
20274 GATACTTCTC
* ** * *
20284 TTCAAGGGTATCGATACCTTCTCAAAGTATTGATACCTATTTGGCATTCGATGT
1 TTCAAGGGTATCGATACCTCCTCAAAGTACCGATACCAATATGGCATTCGATGT
*
20338 TTCAAGGGTATCGATACCTCCTCAAGGTACCGATACCAATATGGCATTCGATGT
1 TTCAAGGGTATCGATACCTCCTCAAAGTACCGATACCAATATGGCATTCGATGT
*
20392 TTTAAGGGTATCGATA
1 TTCAAGGGTATCGATA
20408 TCATCTTTCA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (54 bp):
TTCAAGGGTATCGATACCTCCTCAAAGTACCGATACCAATATGGCATTCGATGT
Found at i:20443 original size:19 final size:20
Alignment explanation
Indices: 20399--20446 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
20389 TGTTTTAAGG
* *
20399 GTATCGATATCATCTTTCAT
1 GTATCGATATCACCTTACAT
*
20419 GTATCGATATTACCTTACA-
1 GTATCGATATCACCTTACAT
20438 GTATCGATA
1 GTATCGATA
20447 CCTCTTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (20 bp):
GTATCGATATCACCTTACAT
Found at i:27322 original size:54 final size:54
Alignment explanation
Indices: 27230--27353 Score: 176
Period size: 54 Copynumber: 2.3 Consensus size: 54
27220 GATACTTCTC
* * * **
27230 TTCAAGGGTATCAATACCTCCTCAAAGTACCGATACCAATTTGGCATTCGGTGT
1 TTCAAGGGTATCAATACCTCCTCAAAGTACAGACACCAATCTGGCATTCAATGT
*
27284 TTCAAGGGTATCAATACCTCCTCAAGGTACAGACACCAATCTGGCATTCAATGT
1 TTCAAGGGTATCAATACCTCCTCAAAGTACAGACACCAATCTGGCATTCAATGT
* *
27338 TTTAAAGGTATCAATA
1 TTCAAGGGTATCAATA
27354 ACATCCTTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (54 bp):
TTCAAGGGTATCAATACCTCCTCAAAGTACAGACACCAATCTGGCATTCAATGT
Found at i:32176 original size:2 final size:2
Alignment explanation
Indices: 32169--32201 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32159 ACGGTTGGTT
32169 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
32202 TCCTGTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:38970 original size:23 final size:23
Alignment explanation
Indices: 38943--38994 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
38933 CTCAACACTC
38943 AAGCTCGACTTTGAGCTTGATTT
1 AAGCTCGACTTTGAGCTTGATTT
38966 AAGCTCGACTTTGAGCTTGATTT
1 AAGCTCGACTTTGAGCTTGATTT
38989 AAGCTC
1 AAGCTC
38995 ATTTGAAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (23 bp):
AAGCTCGACTTTGAGCTTGATTT
Found at i:39794 original size:25 final size:25
Alignment explanation
Indices: 39760--39809 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
39750 AGGGTTTTCC
39760 TACAATCAATCAATTATATAAGCCT
1 TACAATCAATCAATTATATAAGCCT
39785 TACAATCAATCAATTATATAAGCCT
1 TACAATCAATCAATTATATAAGCCT
39810 CATAACAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (25 bp):
TACAATCAATCAATTATATAAGCCT
Found at i:40709 original size:21 final size:20
Alignment explanation
Indices: 40663--40710 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
40653 TTGGATTTAA
* *
40663 ATTTAGGGTTTAGGGTATAT
1 ATTTATGGTTTAGGGTATAG
*
40683 AGTTTATGGTTTAGGGTTTAGG
1 A-TTTATGGTTTAGGGTATA-G
40705 ATTTAT
1 ATTTAT
40711 TGCAAAGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (20 bp):
ATTTATGGTTTAGGGTATAG
Found at i:43239 original size:340 final size:340
Alignment explanation
Indices: 42669--43363 Score: 1194
Period size: 340 Copynumber: 2.0 Consensus size: 340
42659 CGGTCTCAAA
* * * *
42669 ATGACAAAACCGATAAAACGTTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
1 ATGACAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATAATTTAATATAAGTATCGA
*
42734 CACTTTCTGAATTTAAAAGAGAAGTTCTAGCGCCTAAAAAGTGTCGAAACTTTATGAAAATATAT
66 CACTTTCTGAATTTAAAAGAGAAGTTATAGCGCCTAAAAAGTGTCGAAACTTTATGAAAATATAT
* *
42799 CGATCCATAACAATATAACAGCTAAAAATATGACAAAATCGGTCTCAAAATGACAAAAAAGGTAA
131 CGATCCATAACAATATAACAACTAAAAATATGACAAAATAGGTCTCAAAATGACAAAAAAGGTAA
* *
42864 ATAACTATCGGATATGTTGAAAGTGTCGATACTTTAATATAATTATCGACACTTTTGGAATTTAA
196 ATAACTATCGGATATGTTGAAAGTGTCAATACTTTAATATAAGTATCGACACTTTTGGAATTTAA
* *
42929 AAGAGAAGAAGTTATAGTGCATATAAAGTGTCGATATTTTAAAAAAA-TATTGATCCATAACAAT
261 AAGAGAAGAAGTTATAGCGCATATAAAGTGTCGATATTTTAAAAAAAGTATCGATCCATAACAAT
42993 ATAACAGGTAAAAAT
326 ATAACAGGTAAAAAT
43008 ATGACAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATAATTTAATATAAGTATCGA
1 ATGACAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATAATTTAATATAAGTATCGA
* *
43073 CACTTTCTGAATTTAAAAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTA
66 CACTTTCTGAATTTAAAAG-AGAAGTTATAGCGCCTAAAAAGTGTCGAAACTTTATGAAAATATA
* * *
43138 TCGATCCATAACAATATAATAACTAAAAATATGAGAAAATAGGTCTCAAAATGACAAAACAGGTA
130 TCGATCCATAACAATATAACAACTAAAAATATGACAAAATAGGTCTCAAAATGACAAAAAAGGTA
*
43203 AATAACTATCGGATATGTTGAACGTGTCAATACTTTAATATAAGTATCGACACTTTTGGAATTTA
195 AATAACTATCGGATATGTTGAAAGTGTCAATACTTTAATATAAGTATCGACACTTTTGGAATTTA
*
43268 AAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATATTTTAAAAAAATGTATCGATCCATAACA
260 AAAGAGAAGAAGTTATAGCGCATATAAAGTGTCGATATTTTAAAAAAA-GTATCGATCCATAACA
*
43333 ATGTAACAGGTAAAAAT
324 ATATAACAGGTAAAAAT
43350 ATGACAAAACCGGT
1 ATGACAAAACCGGT
43364 CTCAAAATGA
Statistics
Matches: 334, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
339 80 0.24
340 210 0.63
342 44 0.13
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.28
Consensus pattern (340 bp):
ATGACAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATAATTTAATATAAGTATCGA
CACTTTCTGAATTTAAAAGAGAAGTTATAGCGCCTAAAAAGTGTCGAAACTTTATGAAAATATAT
CGATCCATAACAATATAACAACTAAAAATATGACAAAATAGGTCTCAAAATGACAAAAAAGGTAA
ATAACTATCGGATATGTTGAAAGTGTCAATACTTTAATATAAGTATCGACACTTTTGGAATTTAA
AAGAGAAGAAGTTATAGCGCATATAAAGTGTCGATATTTTAAAAAAAGTATCGATCCATAACAAT
ATAACAGGTAAAAAT
Found at i:43350 original size:182 final size:181
Alignment explanation
Indices: 43008--43494 Score: 689
Period size: 182 Copynumber: 2.7 Consensus size: 181
42998 AGGTAAAAAT
* * *
43008 ATGACAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATAATTTAATATAAGTATCGA
1 ATGACAAAATCGGTAATACGAT-CCGGATATGTTGAAAGTGTCAATAATTTAATATAAGTATCGA
* * **
43073 CACTTTCT-GAATTT-AAA-AGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAAT
65 CACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAAT
* * *
43135 GTATCGATCCATAACAATATAATAACTAAAAATATGAGAAAATAGGTCTCAAA
129 GTATCGATCCATAACAATATAACAACTAAAAATATGACAAAACAGGTCTCAAA
* * *
43188 ATGACAAAA-CAGGTAAATAACTAT-CGGATATGTTGAACGTGTCAATACTTTAATATAAGTATC
1 ATGACAAAATC-GGT-AAT-ACGATCCGGATATGTTGAAAGTGTCAATAATTTAATATAAGTATC
*
43251 GACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATATTTTAAAAAAA
63 GACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAA
* ** *
43316 TGTATCGATCCATAACAATGTAACAGGTAAAAATATGACAAAACCGGTCTCAAA
128 TGTATCGATCCATAACAATATAACAACTAAAAATATGACAAAACAGGTCTCAAA
*
43370 ATGACAAAATCGGTAATACGATGCCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
1 ATGACAAAATCGGTAATACGAT-CCGGATATGTTGAAAGTGTCAATAATTTAATATAAGTATCGA
* *
43435 TACTTTTGAAATTTAAAAGAGAA-AAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAA
65 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAA
43495 TATGAATCAA
Statistics
Matches: 274, Mismatches: 24, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
179 2 0.01
180 66 0.24
181 44 0.16
182 161 0.59
183 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (181 bp):
ATGACAAAATCGGTAATACGATCCGGATATGTTGAAAGTGTCAATAATTTAATATAAGTATCGAC
ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATGT
ATCGATCCATAACAATATAACAACTAAAAATATGACAAAACAGGTCTCAAA
Found at i:43586 original size:24 final size:24
Alignment explanation
Indices: 43559--43605 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
43549 TTTCATTTAT
43559 AATTAGAGTTTGAATTTAAATTTC
1 AATTAGAGTTTGAATTTAAATTTC
* * *
43583 AATTTGAGTTTGAGTTTGAATTT
1 AATTAGAGTTTGAATTTAAATTT
43606 AAATGTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (24 bp):
AATTAGAGTTTGAATTTAAATTTC
Found at i:44191 original size:200 final size:197
Alignment explanation
Indices: 43835--44723 Score: 1129
Period size: 200 Copynumber: 4.5 Consensus size: 197
43825 AAGTGTATTA
* * * * **
43835 AAAAAGTGTCGATACATTTATAAGAAATGTCGAT-ACTAAAACATCGAAATACATAGA-TATAAT
1 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATA-ATTATAAT
* * * *
43898 GTAATAGGTATAA-TAACAATGTAACCGGCCTAAATATACCAGTTTTTGAGAAAACAAATATACA
65 GTAATAAGTA-AATTAACAATGTAACCGGTCTAAATATACCAGTTTATGAGAAAAC-AGTATACA
* * * * **
43962 TAAAGTATCGACACAAATACAATAAGTGTCGATACTTTTTGTCCAGCGTGTATTTTAAAAACCAA
128 AAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTTAAAAACCAA
44027 GTGCAC
192 GTGCAC
* *
44033 AACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATTGAAACCCATAATTATGAA
1 AA-AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT-AA
* * * * *
44098 -GTAATAAGTAAATTAACAATTTAACTGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACA
64 TGTAATAAGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTATGAGAAAACA-GTATACA
* * *
44162 AAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATTTATTTCAAAACCAAT
128 AAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTAAAAACCAAG
44227 TGCAC
193 TGCAC
* * *
44232 TAAACGTGTCGATACATTTAT---AAG-GTCGATCCCAAAAACATCGAAACCCATAATTATAATA
1 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATG
* * *
44293 TAATATGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTATGAGAAAACATGTATA-ATA
66 TAATAAGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTATGAGAAAACA-GTATACAAA
*
44357 AAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTG
130 AAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTAAAAACCAAGTG
*
44422 TA-
195 CAC
*
44424 ATAAAATGTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAA
1 A-AAAA-GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAA
* * *
44489 TGTAATAGGTAAATTAACAATGTAAACGGTCTAAATATATCAGTTTATGAGAAAACATGTATACA
64 TGTAATAAGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTATGAGAAAACA-GTATACA
* * * *
44554 TAAAGTATCGACACAGATATAAA-AAGTCTCGATACGTTTT-GTCCAGAGTGTATTTTAAAAACC
128 AAAAGTATCGACACAAATA-AAACAAGTGTCGATAC-TTTTGGTCCAGAATGTA-TTTAAAAACC
44617 AAGTGCAC
190 AAGTGCAC
* *
44625 AACAAAGTTTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCTATAATTATAAT
1 AA-AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAAT
* *
44690 GTAAT-AGATAAATTTACAATGTAACCGGTTTAAA
65 GTAATAAG-TAAATTAACAATGTAACCGGTCTAAA
44724 CTGAGAAAAT
Statistics
Matches: 613, Mismatches: 58, Indels: 38
0.86 0.08 0.05
Matches are distributed among these distances:
193 71 0.12
194 102 0.17
195 3 0.00
197 3 0.00
198 113 0.18
199 93 0.15
200 222 0.36
201 6 0.01
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (197 bp):
AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATG
TAATAAGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTATGAGAAAACAGTATACAAAA
AGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTAAAAACCAAGTGC
AC
Found at i:44600 original size:392 final size:396
Alignment explanation
Indices: 43837--44723 Score: 1154
Period size: 392 Copynumber: 2.2 Consensus size: 396
43827 GTGTATTAAA
* * **
43837 AAAGTGTCGATACATTTATAAGAAATGTCGAT-ACTAAAACATCGAAATACATAGA-TATAATGT
1 AAAGTGTCGATACATTTATAAG--A-GTCGATCCCAAAAACATCGAAACCCATA-ATTATAATGT
* *
43900 AATAGGTATAA-TAACAATGTAACCGGCCTAAATATACCAGTTTTTGAGAAAACAAATATACATA
62 AATA-GTA-AATTAACAATGTAACCGGTCTAAATATACCAGTTTATGAGAAAACAAATATACATA
* * * **
43964 AAGTATCGACACAAATACAATAAGTGTCGATACTTTTTGTCCAGCGTGTATTTTAAAAACCAAGT
125 AAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTTAAAAACCAAGT
* *
44029 GCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATTGAAACCCATAATTA
190 GCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTA
* * * *
44094 TGAAGTAATAAGTAAATTAACAATTTAACTGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGT
255 TGAAGTAATAAGTAAATTAACAATTAAACTGGTCTAAATATACCAGTTTATGAGAAAACAGGTAT
* * *
44159 ACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATTTA-TTTCAAAAC
320 ACAAAAAGTATCGACACAAATAAAACAAGTCTCGATACTTTTGGTCCAGAATGTATTTTAAAAAC
* *
44223 CAATTGCACTA-
385 CAAGTGCACAAC
* *
44234 AACGTGTCGATACATTTATAAG-GTCGATCCCAAAAACATCGAAACCCATAATTATAATATAATA
1 AAAGTGTCGATACATTTATAAGAGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* **
44298 TGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTATGAGAAAACATGTATA-ATAAAGTA
66 -GTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTATGAGAAAACAAATATACATAAAGTA
* *
44362 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTTCAAAACCAAGTGTA-A
130 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTTAAAAACCAAGTGCACA
*
44425 TA-AAATGTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT-A
195 -ACAAA-GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATGA
* * *
44488 ATGTAATAGGTAAATTAACAATGTAAAC-GGTCTAAATATATCAGTTTATGAGAAAACATGTATA
258 A-GTAATAAGTAAATTAACAAT-TAAACTGGTCTAAATATACCAGTTTATGAGAAAACAGGTATA
* * *
44552 CATAAAGTATCGACACAGATATAAA-AAGTCTCGATACGTTTT-GTCCAGAGTGTATTTTAAAAA
321 CAAAAAGTATCGACACAAATA-AAACAAGTCTCGATAC-TTTTGGTCCAGAATGTATTTTAAAAA
44615 CCAAGTGCACAAC
384 CCAAGTGCACAAC
* * *
44628 AAAGTTTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCTATAATTATAATGTA
1 AAAGTGTCGATACATTTAT---AAGAGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
* *
44693 ATAGATAAATTTACAATGTAACCGGTTTAAA
63 ATAG-TAAATTAACAATGTAACCGGTCTAAA
44724 CTGAGAAAAT
Statistics
Matches: 431, Mismatches: 43, Indels: 31
0.85 0.09 0.06
Matches are distributed among these distances:
391 6 0.01
392 159 0.37
393 85 0.20
394 92 0.21
397 25 0.06
398 64 0.15
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (396 bp):
AAAGTGTCGATACATTTATAAGAGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTATGAGAAAACAAATATACATAAAGTAT
CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTTAAAAACCAAGTGCACAA
CAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATGAAGT
AATAAGTAAATTAACAATTAAACTGGTCTAAATATACCAGTTTATGAGAAAACAGGTATACAAAA
AGTATCGACACAAATAAAACAAGTCTCGATACTTTTGGTCCAGAATGTATTTTAAAAACCAAGTG
CACAAC
Found at i:48914 original size:178 final size:180
Alignment explanation
Indices: 48612--49004 Score: 519
Period size: 178 Copynumber: 2.2 Consensus size: 180
48602 GTAAATTAAC
* *
48612 AGTGTCGATACTTTAATTTAAGTATCGACACTTTTGGAAATAAAAAAAGAAGAAGTTATAGCGCC
1 AGTGTCGATACTTTAA-TAAAGTATCGACACTTTTGGAAATAAAAAAAGAAGAAGATATAGCGCC
* * *
48677 TAAAAAGTGTCGATACTTTAAAAAATGTATCGATCCATAACAATATTATAGATAAAAATATGACA
65 TAAAAAGTGTCGACACTTTAAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACA
* * * * *
48742 AAACCGGTCTCAAAATGACAAAACCGGTAAA-ACGCTTCCGGATATGTTGCA
130 AAACCGGTCTCAAAATGACAAAACAGGTAAATA-ACTACCAGATATGTTGAA
* ** *
48793 AGTGTCGATAATTTAATAAAGTATCGACACTTTCT-G-AAT-TTAAAAG-AGAAGATATATCGCC
1 AGTGTCGATACTTTAATAAAGTATCGACACTTT-TGGAAATAAAAAAAGAAGAAGATATAGCGCC
* *
48854 TAAAAAGTGTCGACACTTTATGAAAATGTATCGA-CCTATAACAATATAACAGCTAAAAATATGA
65 TAAAAAGTGTCGACACTTTA-AAAAATGTATCGATCC-ATAACAATATAACAGATAAAAATATGA
* *
48918 CAAAACCGTTCTCAAAATGACAAAACATGTAAATAACTACCAGATATGTTGAA
128 CAAAACCGGTCTCAAAATGACAAAACAGGTAAATAACTACCAGATATGTTGAA
*
48971 AGTGTCGATACTTAAATATAAGTATCGACACTTT
1 AGTGTCGATACTTTAATA-AAGTATCGACACTTT
49005 AAAAAAATAT
Statistics
Matches: 187, Mismatches: 20, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
177 34 0.18
178 101 0.54
179 19 0.10
180 17 0.09
181 16 0.09
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (180 bp):
AGTGTCGATACTTTAATAAAGTATCGACACTTTTGGAAATAAAAAAAGAAGAAGATATAGCGCCT
AAAAAGTGTCGACACTTTAAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAA
AACCGGTCTCAAAATGACAAAACAGGTAAATAACTACCAGATATGTTGAA
Found at i:49100 original size:132 final size:132
Alignment explanation
Indices: 48858--49131 Score: 401
Period size: 132 Copynumber: 2.1 Consensus size: 132
48848 ATCGCCTAAA
* ** *
48858 AAGTGTCGACACTTTATGAAAATGTATCGACCTATAACAATATAACAGCTAAAAATATGACAAAA
1 AAGTATCGACACTTTAAAAAAATATATCGACCTATAACAATATAACAGCTAAAAATATGACAAAA
* *
48923 CCGTTCTCAAAATGACAAAACATGTAAATAACTACCAGATATGTTGAAAGTGTCGATACTTAAAT
66 CCGGTCTCAAAATGACAAAACATGTAAATAACTACCAGATATGTTGAAAGTGTCGATAATTAAAT
48988 AT
131 AT
*
48990 AAGTATCGACACTTTAAAAAAATATATCGATCC-ATAACAATATAACAGGTAAAAATATGACAAA
1 AAGTATCGACACTTTAAAAAAATATATCGA-CCTATAACAATATAACAGCTAAAAATATGACAAA
* * * *
49054 ACTGGTCTCAAAATGACAAAAC-TGGTAAA-AGGCTACTAGATATGTTGAAAGTGTCGATAATTT
65 ACCGGTCTCAAAATGACAAAACAT-GTAAATA-ACTACCAGATATGTTGAAAGTGTCGATAATTA
49117 AATAT
128 AATAT
49122 AAGTATCGAC
1 AAGTATCGAC
49132 TTTTTCTAAA
Statistics
Matches: 128, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
131 2 0.02
132 124 0.97
133 2 0.02
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (132 bp):
AAGTATCGACACTTTAAAAAAATATATCGACCTATAACAATATAACAGCTAAAAATATGACAAAA
CCGGTCTCAAAATGACAAAACATGTAAATAACTACCAGATATGTTGAAAGTGTCGATAATTAAAT
AT
Found at i:49722 original size:87 final size:87
Alignment explanation
Indices: 49618--49780 Score: 283
Period size: 87 Copynumber: 1.9 Consensus size: 87
49608 AAATAGGTCA
*
49618 ATATAAGCGCTATCTATTACATTATATAAG-TGCTACCTAATATGTTATTGTAATTGATAATATT
1 ATATAAGCGCTACCTATTACATTATATAAGCT-CTACCTAATATGTTATTGTAATTGATAATATT
49682 TTCGGTTAAATGCCTATTTTATT
65 TTCGGTTAAATGCCTATTTTATT
**
49705 ATATAAGCGCTACCTATTACATTATATAAGCTCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCTCTACCTAATATGTTATTGTAATTGATAATATTT
49770 TCGGTTAAATG
66 TCGGTTAAATG
49781 ATATAACATA
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
87 71 0.99
88 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCTCTACCTAATATGTTATTGTAATTGATAATATTT
TCGGTTAAATGCCTATTTTATT
Found at i:49752 original size:23 final size:23
Alignment explanation
Indices: 49702--49746 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
49692 TGCCTATTTT
*
49702 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
49725 ATTATATAAGCTCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
49747 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:53979 original size:22 final size:22
Alignment explanation
Indices: 53925--53984 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
53915 ATCGATTCCC
* *
53925 TCAAGGAGGGAATTGGTTCCCAT
1 TCAAGG-GGGAATCGGTACCCAT
*
53948 TCAAAGGGGGAATCGGTACCCCT
1 TC-AAGGGGGAATCGGTACCCAT
*
53971 TCAAGGGGGTATCG
1 TCAAGGGGGAATCG
53985 ATTCCCTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 11 0.34
23 17 0.53
24 4 0.12
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (22 bp):
TCAAGGGGGAATCGGTACCCAT
Found at i:59557 original size:45 final size:46
Alignment explanation
Indices: 59472--59561 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 46
59462 AAATAGCCTG
* * *
59472 AGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCATTA
1 AGTGCATCGATGCATGGTCATATGCATCGATGCATAAAATGCATTA
*
59518 AGTGCATGGATGCATGGT-ATATGCATCGATGCATAAAATGCATT
1 AGTGCATCGATGCATGGTCATATGCATCGATGCATAAAATGCATT
59562 CGATGTTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 23 0.57
46 17 0.43
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (46 bp):
AGTGCATCGATGCATGGTCATATGCATCGATGCATAAAATGCATTA
Found at i:64123 original size:15 final size:15
Alignment explanation
Indices: 64103--64134 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
64093 ATAATATTTC
*
64103 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
64118 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
64133 TT
1 TT
64135 GGATCTGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:66608 original size:28 final size:27
Alignment explanation
Indices: 66577--66633 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
66567 TTTTAACCTT
*
66577 TAAATTTTTATCTCTTTATT-TTATTTTA
1 TAAATTTTCAT-T-TTTATTCTTATTTTA
*
66605 TAAATTTTCATTTTTTTTCTTATTTTA
1 TAAATTTTCATTTTTATTCTTATTTTA
66632 TA
1 TA
66634 TTTTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.19
27 11 0.42
28 10 0.38
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (27 bp):
TAAATTTTCATTTTTATTCTTATTTTA
Found at i:69539 original size:33 final size:33
Alignment explanation
Indices: 69497--69567 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
69487 CGATTTCGAC
* *
69497 TGTTGCCTTTGTGTTATTTCATTAG-CTTTTGAT
1 TGTTGCCTTTGGGTTATTTCAGTAGAC-TTTGAT
* *
69530 TGTTGCCTTTGGGTTGTTTCAGTGGACTTTGAT
1 TGTTGCCTTTGGGTTATTTCAGTAGACTTTGAT
69563 TGTTG
1 TGTTG
69568 TTCCTTCCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.10, C:0.11, G:0.25, T:0.54
Consensus pattern (33 bp):
TGTTGCCTTTGGGTTATTTCAGTAGACTTTGAT
Found at i:74599 original size:20 final size:20
Alignment explanation
Indices: 74576--74703 Score: 98
Period size: 20 Copynumber: 6.3 Consensus size: 20
74566 GTTTCCAAAT
74576 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
** * * * **
74596 TCGCATTGTGATTTTCCAAA
1 TCGCAACGCGAATATGTAAA
*
74616 TTCGCAACGC-AAT-TTTCAAA
1 -TCGCAACGCGAATATGT-AAA
*
74636 TTCACAACGCGAATATGTAAA
1 -TCGCAACGCGAATATGTAAA
*
74657 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATATGTAAA
* * *
74677 TCGCAACGCAAATTTGTAAT
1 TCGCAACGCGAATATGTAAA
74697 TCGCAAC
1 TCGCAAC
74704 ACAGAAGTCA
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.01
20 69 0.82
21 12 0.14
22 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:74691 original size:61 final size:61
Alignment explanation
Indices: 74536--74687 Score: 164
Period size: 61 Copynumber: 2.5 Consensus size: 61
74526 ACCAACAAAT
* ** * * * *
74536 TCGCAACGCGAA-CTCCAATTTTACAACTCAGTTTCCAAATTCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATCTCCAAATTCGCAACGCAATTTTCAAATTCACAACGCGAATATGTAAA
** * * *
74596 TCGCATTGTGATTTTCCAAATTCGCAACGCAATTTTCAAATTCACAACGCGAATATGTAAA
1 TCGCAACGCGAATCTCCAAATTCGCAACGCAATTTTCAAATTCACAACGCGAATATGTAAA
**
74657 TCGCAACGCGAATCTGTAAA-TCGCAACGCAA
1 TCGCAACGCGAATCTCCAAATTCGCAACGCAA
74688 ATTTGTAATT
Statistics
Matches: 72, Mismatches: 19, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
60 19 0.26
61 53 0.74
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (61 bp):
TCGCAACGCGAATCTCCAAATTCGCAACGCAATTTTCAAATTCACAACGCGAATATGTAAA
Found at i:74905 original size:22 final size:22
Alignment explanation
Indices: 74880--74927 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
74870 CAGCGACATC
74880 CGTCCCCATCTCCGGCAAAATT
1 CGTCCCCATCTCCGGCAAAATT
*
74902 CGTCCCCATCTCCGGCGAAATT
1 CGTCCCCATCTCCGGCAAAATT
74924 CGTC
1 CGTC
74928 TATCTCCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.42, G:0.17, T:0.23
Consensus pattern (22 bp):
CGTCCCCATCTCCGGCAAAATT
Found at i:75325 original size:19 final size:20
Alignment explanation
Indices: 75301--75353 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
75291 ATCGCAACGT
**
75301 GATTTT-AGTTTCGTGTTGC
1 GATTTTAAGTTTCACGTTGC
* *
75320 GATTTTCATTTTCACGTTGC
1 GATTTTAAGTTTCACGTTGC
75340 GATTTTAAGTTTCA
1 GATTTTAAGTTTCA
75354 GAAACTATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.51
Consensus pattern (20 bp):
GATTTTAAGTTTCACGTTGC
Found at i:77145 original size:21 final size:21
Alignment explanation
Indices: 77121--77178 Score: 91
Period size: 20 Copynumber: 2.8 Consensus size: 21
77111 GACAATGGTG
77121 CTTTACGTGGTGAGGTATCTA
1 CTTTACGTGGTGAGGTATCTA
*
77142 CTTTACATGGTGA-GTATCTA
1 CTTTACGTGGTGAGGTATCTA
*
77162 CTTTACGTGATGAGGTA
1 CTTTACGTGGTGAGGTA
77179 ACCGCTCTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (21 bp):
CTTTACGTGGTGAGGTATCTA
Found at i:77477 original size:21 final size:21
Alignment explanation
Indices: 77449--77552 Score: 102
Period size: 21 Copynumber: 5.0 Consensus size: 21
77439 AATTCACCTG
*
77449 TCATCATTCAAGAGGCCTCT-
1 TCATCATTCAAGAGGCCCCTA
77469 TCTATCATTCAAGAGGCCCCTA
1 TC-ATCATTCAAGAGGCCCCTA
* * *
77491 TCATCCTTCAAGAGGCTCCTC
1 TCATCATTCAAGAGGCCCCTA
* * * *
77512 CCACCGTTCAAGAGGCCCCTG
1 TCATCATTCAAGAGGCCCCTA
* *
77533 TCATCGTTCAAGAGGTCCCT
1 TCATCATTCAAGAGGCCCCT
77553 CCCACCGTTC
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
20 2 0.03
21 66 0.94
22 2 0.03
ACGTcount: A:0.22, C:0.35, G:0.17, T:0.26
Consensus pattern (21 bp):
TCATCATTCAAGAGGCCCCTA
Found at i:77495 original size:42 final size:42
Alignment explanation
Indices: 77449--77567 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 42
77439 AATTCACCTG
* * *
77449 TCATCATTCAAGAGGC-CTCTTCTATCATTCAAGAGGCCCCTA
1 TCATCATTCAAGAGGCTC-CTCCCACCATTCAAGAGGCCCCTA
* * *
77491 TCATCCTTCAAGAGGCTCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCATTCAAGAGGCTCCTCCCACCATTCAAGAGGCCCCTA
* * *
77533 TCATCGTTCAAGAGG-TCCCTCCCACCGTTCGAGAG
1 TCATCATTCAAGAGGCT-CCTCCCACCATTCAAGAG
77568 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 65 0.97
43 1 0.01
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATCATTCAAGAGGCTCCTCCCACCATTCAAGAGGCCCCTA
Found at i:77561 original size:21 final size:20
Alignment explanation
Indices: 77497--77567 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
77487 CCTATCATCC
77497 TTCAAGAGGCTCCTCCCACCG
1 TTCAAGAGGC-CCTCCCACCG
** *
77518 TTCAAGAGGCCCCTGTCATCG
1 TTCAAGAGG-CCCTCCCACCG
77539 TTCAAGAGGTCCCTCCCACCG
1 TTCAAGAGG-CCCTCCCACCG
*
77560 TTCGAGAG
1 TTCAAGAG
77568 CCCGATTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 40 0.98
22 1 0.02
ACGTcount: A:0.20, C:0.37, G:0.23, T:0.21
Consensus pattern (20 bp):
TTCAAGAGGCCCTCCCACCG
Found at i:78926 original size:63 final size:64
Alignment explanation
Indices: 78856--79003 Score: 253
Period size: 64 Copynumber: 2.3 Consensus size: 64
78846 AAATTGATGT
78856 ATTTGTAAAAGTTGATTTGTTTAATTGATGAG-AAATAAGAATTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGTAAATAAGAATTATTTTTTGCTTGTTTAATTG
* ***
78919 ATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGTAAATAAGAATTATTTTTTGCTTGTTTAATTG
78983 ATTTGTAAAAGTTGATTTGTT
1 ATTTGTAAAAGTTGATTTGTT
79004 GTTTTAAATT
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
63 31 0.39
64 49 0.61
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (64 bp):
ATTTGTAAAAGTTGATTTGTTTAATTGATGAGTAAATAAGAATTATTTTTTGCTTGTTTAATTG
Found at i:81470 original size:12 final size:12
Alignment explanation
Indices: 81453--81489 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
81443 TCTTAGGGGA
*
81453 CTTTTTATTCTT
1 CTTTTTCTTCTT
81465 CTTTTTCTTCTT
1 CTTTTTCTTCTT
81477 CTTTTTCTTCTT
1 CTTTTTCTTCTT
81489 C
1 C
81490 AGGGTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:82700 original size:20 final size:19
Alignment explanation
Indices: 82677--82746 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 19
82667 TAAAATTCGT
82677 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTC-AAAATCGA
** *
82697 GTTGCGAAAACAAAATTCGC
1 GTTGCGAATTCAAAA-TCGA
82717 GTTGCGAATTCAGAAATCGA
1 GTTGCGAATTCA-AAATCGA
82737 GTTGCGAATT
1 GTTGCGAATT
82747 TGAAATTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.83
21 3 0.07
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (19 bp):
GTTGCGAATTCAAAATCGA
Found at i:82753 original size:40 final size:40
Alignment explanation
Indices: 82668--82744 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
82658 TTGCAATATT
*
82668 AAAATTCGTGTTGCGAATTCGAAAATCGAGTTGCGAAAAC
1 AAAATTCGCGTTGCGAATTCGAAAATCGAGTTGCGAAAAC
82708 AAAATTCGCGTTGCGAATTC-AGAAATCGAGTTGCGAA
1 AAAATTCGCGTTGCGAATTCGA-AAATCGAGTTGCGAA
82745 TTTGAAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.03
40 34 0.97
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (40 bp):
AAAATTCGCGTTGCGAATTCGAAAATCGAGTTGCGAAAAC
Found at i:88679 original size:28 final size:28
Alignment explanation
Indices: 88637--88727 Score: 146
Period size: 28 Copynumber: 3.2 Consensus size: 28
88627 TGAATAGTAA
*
88637 CTATAGCATCGACAGAAGGAGCAGAGTG
1 CTATAGCATCAACAGAAGGAGCAGAGTG
*
88665 TTATAGCATCAACAGAAGGAGCAGAGTG
1 CTATAGCATCAACAGAAGGAGCAGAGTG
*
88693 CTATAGCATCAACAGAAGGCGCAGAGTG
1 CTATAGCATCAACAGAAGGAGCAGAGTG
*
88721 CTCTAGC
1 CTATAGC
88728 TTATCAGAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.16
Consensus pattern (28 bp):
CTATAGCATCAACAGAAGGAGCAGAGTG
Found at i:91183 original size:3 final size:3
Alignment explanation
Indices: 91175--91232 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
91165 GGAGTATTAG
91175 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91223 ATA ATA ATA A
1 ATA ATA ATA A
91233 AATGGCATGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:99083 original size:2 final size:2
Alignment explanation
Indices: 99076--99107 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
99066 TGTTTATAAG
99076 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
99108 CAATAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99657 original size:18 final size:18
Alignment explanation
Indices: 99625--99689 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
99615 CATGTTCATA
99625 AAATTATTAAAAT-AATTAT
1 AAATT-TTAAAATAAATT-T
*
99644 AAATTTTAACATAAATTT
1 AAATTTTAAAATAAATTT
* *
99662 AAATTTTAGTAATAATGTTT
1 AAATTTTA-AAATAA-ATTT
99682 AAATTTTA
1 AAATTTTA
99690 CAGTTATTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
18 15 0.38
19 13 0.33
20 11 0.28
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (18 bp):
AAATTTTAAAATAAATTT
Found at i:102402 original size:16 final size:16
Alignment explanation
Indices: 102381--102421 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
102371 TTAAGCGTTG
102381 AATGATTCAAATGCTA
1 AATGATTCAAATGCTA
* *
102397 AATGATTCAAATGTTG
1 AATGATTCAAATGCTA
102413 AATGATTCA
1 AATGATTCA
102422 GAGGCTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (16 bp):
AATGATTCAAATGCTA
Found at i:111343 original size:15 final size:15
Alignment explanation
Indices: 111323--111354 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
111313 ATAATCTTTC
*
111323 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
111338 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
111353 TT
1 TT
111355 GGATCTGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:112133 original size:16 final size:17
Alignment explanation
Indices: 112102--112135 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
112092 CGTATCACCG
*
112102 ACAAAATTTTACTATTC
1 ACAAAATTTCACTATTC
112119 ACAAAA-TTCACTATTC
1 ACAAAATTTCACTATTC
112135 A
1 A
112136 TGTGAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:115016 original size:20 final size:19
Alignment explanation
Indices: 114991--115038 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
114981 CTCTATATAT
*
114991 TATTTTTTT-AATTAAATAA
1 TATTTTTTTGAA-AAAATAA
115010 CTATTTTTATTGAAAAAATAA
1 -TATTTTT-TTGAAAAAATAA
115031 TATTTTTT
1 TATTTTTT
115039 ATTATTTCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 14 0.56
21 8 0.32
22 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TATTTTTTTGAAAAAATAA
Found at i:116057 original size:24 final size:26
Alignment explanation
Indices: 116007--116057 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
115997 ATATCATAAA
*
116007 TAAGTATTTAAACTATACTTTTTTATT
1 TAAGTATCTAAAC-ATACTTTTTTATT
116034 TAAGTATCTAAA-ATA-TTTTTTATT
1 TAAGTATCTAAACATACTTTTTTATT
116058 CAAAATAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.39
25 3 0.13
27 11 0.48
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (26 bp):
TAAGTATCTAAACATACTTTTTTATT
Found at i:116264 original size:31 final size:29
Alignment explanation
Indices: 116190--116289 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
116180 ATGAAAAAAA
* * *
116190 TTAGGTACCTATTTTGATCAAAAAATACT
1 TTAGATACTTATTTTGACCAAAAAATACT
* *
116219 TTAGGTACTCATTTTGACCAAAAAGATAACT
1 TTAGATACTTATTTTGACCAAAAA-AT-ACT
*
116250 TTAGATACTTATTTTGACCAAAAAATATT
1 TTAGATACTTATTTTGACCAAAAAATACT
116279 TTAGATACTTA
1 TTAGATACTTA
116290 AATGAAAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
29 34 0.54
30 4 0.06
31 25 0.40
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (29 bp):
TTAGATACTTATTTTGACCAAAAAATACT
Found at i:119217 original size:20 final size:19
Alignment explanation
Indices: 119189--119232 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
119179 AGAAAACACT
*
119189 TTGAAAGTGAATTGTGAATG
1 TTGAAAGTGAATTGAGAA-G
* *
119209 TTGAGAGTGAGTTGAGAAG
1 TTGAAAGTGAATTGAGAAG
119228 TTGAA
1 TTGAA
119233 TATAGCCCTC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (19 bp):
TTGAAAGTGAATTGAGAAG
Found at i:119390 original size:22 final size:22
Alignment explanation
Indices: 119342--119395 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
119332 TTCAGCTGTT
* *
119342 ATAACTCCTGAAATTATATCAT
1 ATAACTCCTGAAATTAAATCAA
* * *
119364 GTAACCCCTGGAATTAAATCAA
1 ATAACTCCTGAAATTAAATCAA
119386 ATAACTCCTG
1 ATAACTCCTG
119396 TAACTCCTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (22 bp):
ATAACTCCTGAAATTAAATCAA
Found at i:129376 original size:42 final size:44
Alignment explanation
Indices: 129277--129377 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 44
129267 TTTTATCTTT
*
129277 GTATTTTAG-TTAAAT-ATGTTTTAGTATTTCAATTAGGATTTAG
1 GTATTTTAGTTTAAATAATATTTTAGTATTTC-ATTAGGATTTAG
* * *
129320 G-ATATTATTTTAAATAATATTTTAGT-TTATC-TTA-GTTTTAG
1 GTATTTTAGTTTAAATAATATTTTAGTATT-TCATTAGGATTTAG
129361 GTATTTTAGTTTAAATA
1 GTATTTTAGTTTAAATA
129378 GTTTTAACTA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
41 7 0.15
42 21 0.44
43 9 0.19
44 11 0.23
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (44 bp):
GTATTTTAGTTTAAATAATATTTTAGTATTTCATTAGGATTTAG
Found at i:129389 original size:24 final size:25
Alignment explanation
Indices: 129337--129391 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
129327 TTTTAAATAA
** **
129337 TATTTTAGTTTATCTTAGTTTTAGG
1 TATTTTAGTTTATAATAGTTTTAAC
129362 TATTTTAGTTTA-AATAGTTTTAAC
1 TATTTTAGTTTATAATAGTTTTAAC
129386 TATTTT
1 TATTTT
129392 TATTAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.25, C:0.04, G:0.11, T:0.60
Consensus pattern (25 bp):
TATTTTAGTTTATAATAGTTTTAAC
Found at i:130049 original size:18 final size:18
Alignment explanation
Indices: 130026--130068 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
130016 CTTTAGATTA
*
130026 TTTATTTAATTATTTTAT
1 TTTATTTAATTATTATAT
*
130044 TTTATTTAATTCTTATAT
1 TTTATTTAATTATTATAT
130062 TTTATTT
1 TTTATTT
130069 TAAAAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATAT
Found at i:130126 original size:15 final size:15
Alignment explanation
Indices: 130108--130170 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
130098 TCTTTACTAA
130108 TATTATTTATTATTT
1 TATTATTTATTATTT
**
130123 TATTATCTTCCCT-TTT
1 TATTAT-TT-ATTATTT
130139 TATTA-TTATTTATTT
1 TATTATTTA-TTATTT
*
130154 TATTATTTTTTATTT
1 TATTATTTATTATTT
130169 TA
1 TA
130171 AATTATAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
14 3 0.08
15 22 0.58
16 12 0.32
17 1 0.03
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTATTTATTATTT
Found at i:130188 original size:7 final size:8
Alignment explanation
Indices: 130108--130170 Score: 53
Period size: 7 Copynumber: 8.2 Consensus size: 8
130098 TCTTTACTAA
130108 TATTA-TT
1 TATTATTT
130115 TATTATTT
1 TATTATTT
130123 TATTATCTT
1 TATTAT-TT
***
130132 CCCT-TTT
1 TATTATTT
*
130139 TATTATTA
1 TATTATTT
130147 T-TTATTT
1 TATTATTT
130154 TATTATTT
1 TATTATTT
130162 T-TTATTT
1 TATTATTT
130169 TA
1 TA
130171 AATTATAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
7 21 0.49
8 19 0.44
9 3 0.07
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (8 bp):
TATTATTT
Found at i:130191 original size:15 final size:15
Alignment explanation
Indices: 130136--130170 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
130126 TATCTTCCCT
130136 TTTTATTATTATTTA
1 TTTTATTATTATTTA
*
130151 TTTTATTATTTTTTA
1 TTTTATTATTATTTA
130166 TTTTA
1 TTTTA
130171 AATTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTATTATTTA
Found at i:130196 original size:20 final size:20
Alignment explanation
Indices: 130147--130196 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
130137 TTTATTATTA
*
130147 TTTATTTTATTATTTTTTAT
1 TTTATTTTATAATTTTTTAT
**
130167 TTTAAATTATAATTTTTTAT
1 TTTATTTTATAATTTTTTAT
130187 TTTATTTTAT
1 TTTATTTTAT
130197 CTTTTCTACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATTTTATAATTTTTTAT
Found at i:131051 original size:20 final size:20
Alignment explanation
Indices: 131022--131072 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
131012 GGAGAGGCAA
*
131022 TATCGATACTCCTGATTGAG
1 TATCGATACTCCTAATTGAG
*
131042 TATTGATACTCCTAATTGAG
1 TATCGATACTCCTAATTGAG
131062 TATCGATACTC
1 TATCGATACTC
131073 TAGGGCTGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (20 bp):
TATCGATACTCCTAATTGAG
Found at i:133399 original size:19 final size:19
Alignment explanation
Indices: 133371--133407 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
133361 TAATCCTTAT
133371 ATGATGTGAGTTTTTATGA
1 ATGATGTGAGTTTTTATGA
*
133390 ATGATTTGAGTTTTTATG
1 ATGATGTGAGTTTTTATG
133408 TATATCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (19 bp):
ATGATGTGAGTTTTTATGA
Found at i:134907 original size:21 final size:21
Alignment explanation
Indices: 134881--134924 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
134871 AAGAAAAATT
*
134881 GTGCATCGATGCACTGCTACA
1 GTGCATCGATGCAATGCTACA
134902 GTGCATCGATGCAATGCTACA
1 GTGCATCGATGCAATGCTACA
134923 GT
1 GT
134925 ACTGCTACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (21 bp):
GTGCATCGATGCAATGCTACA
Found at i:134997 original size:6 final size:6
Alignment explanation
Indices: 134986--135014 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
134976 TTCATTACTA
134986 TACATT TACATT TACATT TACATT TACAT
1 TACATT TACATT TACATT TACATT TACAT
135015 AAATACGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.48
Consensus pattern (6 bp):
TACATT
Found at i:140326 original size:6 final size:6
Alignment explanation
Indices: 138987--140324 Score: 2565
Period size: 6 Copynumber: 225.0 Consensus size: 6
138977 TAACGAAATG
138987 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139035 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139083 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139131 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139179 ATATG- -TATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139225 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139273 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139321 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139369 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139417 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139465 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139513 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139561 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139609 ATATG- -TATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139655 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139703 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139751 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139799 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139847 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139895 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
139943 ATATGT ATATG- -TATGT ATATGT ATATGT ATATGT ATATGC ATATG-
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
139988 -TATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
140035 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
140083 ATATGT ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
140129 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
140175 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
140223 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
140271 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATGTGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
140319 TTATGT
1 ATATGT
140325 TTTGATGCAT
Statistics
Matches: 1316, Mismatches: 4, Indels: 24
0.98 0.00 0.02
Matches are distributed among these distances:
4 24 0.02
6 1292 0.98
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:140984 original size:18 final size:17
Alignment explanation
Indices: 140933--140984 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
140923 TGTGTTATAT
140933 GTGGTCCTTCGGAACATA
1 GTGGTCCTTCGG-ACATA
*
140951 GTGGTCCTTTGAGACATA
1 GTGGTCCTTCG-GACATA
*
140969 GTGGTCATTCAGGACA
1 GTGGTCCTTC-GGACA
140985 AATTCTACAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 27 0.93
19 2 0.07
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (17 bp):
GTGGTCCTTCGGACATA
Found at i:141318 original size:12 final size:12
Alignment explanation
Indices: 141303--141335 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
141293 TTAATCATAT
141303 GAATAATGATAA
1 GAATAATGATAA
*
141315 GAATAATAATAA
1 GAATAATGATAA
141327 GAATAATGA
1 GAATAATGA
141336 AATGATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (12 bp):
GAATAATGATAA
Found at i:147070 original size:103 final size:103
Alignment explanation
Indices: 146886--147103 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
146876 GTCGAGGGTC
146886 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
146951 TTGATCCTTGGCATATGTATATGATTCTAAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTAAAGGAATGA
*
146989 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
147054 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTAAAGGAATGA
147092 TATGTGGTCCTT
1 TATGTGGTCCTT
147104 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTAAAGGAATGA
Found at i:152969 original size:103 final size:103
Alignment explanation
Indices: 152748--152961 Score: 392
Period size: 103 Copynumber: 2.1 Consensus size: 103
152738 AGGGTCTATA
*
152748 TGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGA
1 TGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATACTTGA
*
152813 GCCTTAGCATATGTATATGATTCTTAAGGAATGATATG
66 GCCCTAGCATATGTATATGATTCTTAAGGAATGATATG
152851 TGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATACTTGA
1 TGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATACTTGA
* *
152916 TCCCTAGTATATGTATATGATTCTTAAGGAATGATATG
66 GCCCTAGCATATGTATATGATTCTTAAGGAATGATATG
152954 TGGTCCTT
1 TGGTCCTT
152962 ATGGACATTA
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
TGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATACTTGA
GCCCTAGCATATGTATATGATTCTTAAGGAATGATATG
Found at i:153035 original size:23 final size:23
Alignment explanation
Indices: 152968--153045 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
152958 CCTTATGGAC
* *
152968 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTTCGGTGCA
* * * *
152992 ATTCTACGCGGAAC-TCTGGTGCA
1 ATTATATGTGGCACTTC-GGTGCA
153015 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
153038 ATTATATG
1 ATTATATG
153046 AGCTGTGGTG
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
22 1 0.02
23 36 0.86
24 5 0.12
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTTCGGTGCA
Found at i:156113 original size:525 final size:525
Alignment explanation
Indices: 155118--156171 Score: 1964
Period size: 525 Copynumber: 2.0 Consensus size: 525
155108 TGGACACTTA
* *
155118 TTCCGTAGAAAACGTCGTGCTCAACGTGCTAATAGAGCCATGTACAACATTCAGAACCAATGAGC
1 TTCCATAGAAAACGTCGTGCTCAACGTGCTAATAGAGCCATGTACAACATTCAGAACCAATGAAC
* *
155183 TCCGCAAGTACAAGTTCCAGCAGATCCAAATGTTGCGGCAAATTGGAATGTTGGAATTATACCAT
66 TCCGCAAGTACAAGTTCCAGCAGATCCAAATGTTGCGGCAAATTGGAATGCTGGAATTATACCAC
*
155248 GGCCTAAAGCTATTCGAGATCACTTAACTCCTATTTTGGATTATCTCAATCCTGGAATTGTAGCT
131 AGCCTAAAGCTATTCGAGATCACTTAACTCCTATTTTGGATTATCTCAATCCTGGAATTGTAGCT
155313 CCTAAGATTCAGGCAACATACTTTGAGCTTAAATCAATCATGTTTAACATGTTAAACTCGATCGG
196 CCTAAGATTCAGGCAACATACTTTGAGCTTAAATCAATCATGTTTAACATGTTAAACTCGATCGG
155378 GTAATTTGGTGGCATGCCACATGAAGATGCAAGGCAACACATTCATACTTTCTTGGAAGTATATG
261 GTAATTTGGTGGCATGCCACATGAAGATGCAAGGCAACACATTCATACTTTCTTGGAAGTATATG
*
155443 GTTCATTTAGGCAAGAATGAGTGCATGAAGATGTGTTGAAGCTTAAATTATTTCCATATTCTGTA
326 GCTCATTTAGGCAAGAATGAGTGCATGAAGATGTGTTGAAGCTTAAATTATTTCCATATTCTGTA
*
155508 TGTGACTGAGCGAGGGCTTGGTTGAGTAGAATTCCATCCAGCTCGATGTAATCATGGGTTGATCT
391 TGTGACTGAGCAAGGGCTTGGTTGAGTAGAATTCCATCCAGCTCGATGTAATCATGGGTTGATCT
* * *
155573 ATGCAAAAGTTTTTTGCTATGGTATAATCCACTGAAGATGCACACTCAACTCAAAAATGACATTG
456 ATGCAAAAGTTTTTTGCTACGGTATAATCCACTGAACATGCACACTCAACTCAAAAATGACATAG
155638 CGTCT
521 CGTCT
155643 TTCCATAGAAAACGTCGTGCTCAACGTGCTAATAGAGCCATGTACAACATTCAGAACCAATGAAC
1 TTCCATAGAAAACGTCGTGCTCAACGTGCTAATAGAGCCATGTACAACATTCAGAACCAATGAAC
* *
155708 TCCGCAAGTACAAGTTCCAGCAGATCCAAATGTTGCTGCAAATTGGAATGCTGGAATTATACCCC
66 TCCGCAAGTACAAGTTCCAGCAGATCCAAATGTTGCGGCAAATTGGAATGCTGGAATTATACCAC
155773 AGCCTAAAGCTATTCGAGATCACTTAACTCCTATTTTGGATTATCTCAATCCTGGAATTGTAGCT
131 AGCCTAAAGCTATTCGAGATCACTTAACTCCTATTTTGGATTATCTCAATCCTGGAATTGTAGCT
* *
155838 CCTGAGATTCAGGCAGCATACTTTGAGCTTAAATCAATCATGTTTAACATGTTAAACTCGATCGG
196 CCTAAGATTCAGGCAACATACTTTGAGCTTAAATCAATCATGTTTAACATGTTAAACTCGATCGG
*
155903 GTAATTTGGTGGCATGCCACATGAAGATGTAAGGCAACACATTCATACTTTCTTGGAAGTATATG
261 GTAATTTGGTGGCATGCCACATGAAGATGCAAGGCAACACATTCATACTTTCTTGGAAGTATATG
*
155968 GCTCATTTAGGCAAGAATGAGTGCATGAAGATGTGTTGAAGCTTAAATTATTTCCATATTCTTTA
326 GCTCATTTAGGCAAGAATGAGTGCATGAAGATGTGTTGAAGCTTAAATTATTTCCATATTCTGTA
156033 TGTGACTGAGCAAGGGCTTGGTTGAGTAGAATTCCATCCAGCTCGATGTAATCATGGGTTGATCT
391 TGTGACTGAGCAAGGGCTTGGTTGAGTAGAATTCCATCCAGCTCGATGTAATCATGGGTTGATCT
156098 ATGCAAAAGTTTTTTGCTACGGTATAATCCACTGAACATGCACACTCAACTCAAAAATGACATAG
456 ATGCAAAAGTTTTTTGCTACGGTATAATCCACTGAACATGCACACTCAACTCAAAAATGACATAG
156163 CGTCT
521 CGTCT
156168 TTCC
1 TTCC
156172 GTCAAACTGA
Statistics
Matches: 513, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
525 513 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (525 bp):
TTCCATAGAAAACGTCGTGCTCAACGTGCTAATAGAGCCATGTACAACATTCAGAACCAATGAAC
TCCGCAAGTACAAGTTCCAGCAGATCCAAATGTTGCGGCAAATTGGAATGCTGGAATTATACCAC
AGCCTAAAGCTATTCGAGATCACTTAACTCCTATTTTGGATTATCTCAATCCTGGAATTGTAGCT
CCTAAGATTCAGGCAACATACTTTGAGCTTAAATCAATCATGTTTAACATGTTAAACTCGATCGG
GTAATTTGGTGGCATGCCACATGAAGATGCAAGGCAACACATTCATACTTTCTTGGAAGTATATG
GCTCATTTAGGCAAGAATGAGTGCATGAAGATGTGTTGAAGCTTAAATTATTTCCATATTCTGTA
TGTGACTGAGCAAGGGCTTGGTTGAGTAGAATTCCATCCAGCTCGATGTAATCATGGGTTGATCT
ATGCAAAAGTTTTTTGCTACGGTATAATCCACTGAACATGCACACTCAACTCAAAAATGACATAG
CGTCT
Found at i:161332 original size:4 final size:4
Alignment explanation
Indices: 161323--162313 Score: 1613
Period size: 4 Copynumber: 250.0 Consensus size: 4
161313 GGGTTAGTTT
* * *
161323 CATA CATA C--A CACA CATA CATG CATA CATA C--A CACA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
161367 GATA TATA CATG CATG CATA TATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
161415 CATA CATA CATA CATA CATA CATA CATA CATA TATA CATA TATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
161463 CATA CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
161509 CATA CATA CATA CATA CATA CATA CGTA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
161557 CGTA CATA CATA CATA CATA CGTA CATG CATA CATA CATA CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
161605 TATA CATA CATG CATG CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
161653 CATA CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
161700 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
161748 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
161796 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
161844 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
161892 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
161940 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
161988 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
162036 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
162084 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
162132 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
162180 CATA TATA CATA CATA TATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * * * *
162228 CACA CAT- -ATA TATA GATA TATA CATG CATG CATG CATG CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
162274 CATG CATA CATA CATA TATG CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
162314 ATCATATATT
Statistics
Matches: 934, Mismatches: 44, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
2 8 0.01
3 3 0.00
4 923 0.99
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:163151 original size:20 final size:20
Alignment explanation
Indices: 163126--163178 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
163116 GACCAATAAA
163126 TTCGCAACGCAAACTCCAAT
1 TTCGCAACGCAAACTCCAAT
* **
163146 TTCGCAACCCAATTTCCAAT
1 TTCGCAACGCAAACTCCAAT
163166 TTCGCAACGCAAA
1 TTCGCAACGCAAA
163179 TCTGTAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.23
Consensus pattern (20 bp):
TTCGCAACGCAAACTCCAAT
Found at i:163206 original size:20 final size:20
Alignment explanation
Indices: 163167--163213 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
163157 ATTTCCAATT
*
163167 TCGCAACGCAAATCTGTAAA
1 TCGCAACGCAAATCTATAAA
* * *
163187 TTGCAACGCGAATTTATAAA
1 TCGCAACGCAAATCTATAAA
163207 TCGCAAC
1 TCGCAAC
163214 ACATAAGTCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
TCGCAACGCAAATCTATAAA
Found at i:163230 original size:20 final size:20
Alignment explanation
Indices: 163207--163332 Score: 175
Period size: 20 Copynumber: 6.3 Consensus size: 20
163197 AATTTATAAA
163207 TCGCAACACATAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
163227 TCGCAACGCGAT-AGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
*
163247 TCGCAACACAAAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
163267 TCGCAACACAGAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
163287 TCGCAACGCGAT-AGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
*
163307 TCGCAACACAAAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
163327 TCGCAA
1 TCGCAA
163333 AGCTGAATTT
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.02
20 89 0.95
21 3 0.03
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.17
Consensus pattern (20 bp):
TCGCAACACATAAGTCAAAT
Found at i:163233 original size:40 final size:39
Alignment explanation
Indices: 163184--163332 Score: 167
Period size: 40 Copynumber: 3.7 Consensus size: 39
163174 GCAAATCTGT
* * *
163184 AAATT-GCAACGCGAATTTATAAATCGCAACACATAAGTC
1 AAATTCGCAACGCGAAGTCA-AATTCGCAACACATAAGTC
*
163223 AAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTC
1 AAATTCGCAACGCGA-AGTCAAATTCGCAACACATAAGTC
* *
163263 AAATTCGCAACACAGAAGTCAAATTCGCAACGCGAT-AGTC
1 AAATTCGCAACGC-GAAGTCAAATTCGCAACAC-ATAAGTC
* *
163303 AAATTCGCAACACAAAAGTCAAATTCGCAA
1 AAATTCGCAACGC-GAAGTCAAATTCGCAA
163333 AGCTGAATTT
Statistics
Matches: 98, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
39 5 0.05
40 87 0.89
41 6 0.06
ACGTcount: A:0.44, C:0.23, G:0.14, T:0.19
Consensus pattern (39 bp):
AAATTCGCAACGCGAAGTCAAATTCGCAACACATAAGTC
Found at i:163359 original size:19 final size:19
Alignment explanation
Indices: 163321--163373 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
163311 AACACAAAAG
163321 TCAAATTCGCAAAGCTGAATT
1 TCAAATTCGC-AA-CTGAATT
163342 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
* *
163361 TCGAATTTGCAAC
1 TCAAATTCGCAAC
163374 AGGTTTTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 18 0.60
20 2 0.07
21 10 0.33
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:163374 original size:60 final size:60
Alignment explanation
Indices: 163207--163354 Score: 226
Period size: 60 Copynumber: 2.5 Consensus size: 60
163197 AATTTATAAA
* *
163207 TCGCAACACATAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAATTCGCAACGCAATAGTCAAATTCGCAACACAAAAGTCAAAT
*
163267 TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAATTCGCAACGCAATAGTCAAATTCGCAACACAAAAGTCAAAT
* *
163327 TCGCAA-AGCTGAATTTCAAATTCGCAAC
1 TCGCAACA-CAGAA-GTCAAATTCGCAAC
163355 TGAATTTCGA
Statistics
Matches: 83, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
59 1 0.01
60 69 0.83
61 13 0.16
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.19
Consensus pattern (60 bp):
TCGCAACACAGAAGTCAAATTCGCAACGCAATAGTCAAATTCGCAACACAAAAGTCAAAT
Found at i:163552 original size:14 final size:15
Alignment explanation
Indices: 163533--163570 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
163523 TCCCTATCTC
163533 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
163547 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
163563 TAATTTTT
1 TAATTTTT
163571 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:164186 original size:12 final size:12
Alignment explanation
Indices: 164165--164198 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
164155 ACCACATTTC
*
164165 CAATACCAAACA
1 CAATATCAAACA
164177 CAATATCAAACA
1 CAATATCAAACA
*
164189 CAATCTCAAA
1 CAATATCAAA
164199 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:164375 original size:24 final size:24
Alignment explanation
Indices: 164324--164377 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
164314 GTATTCGAAA
*
164324 TTTGATCTCGGTCAATACCCGGAC
1 TTTGATCTCGGTCAATACCCAGAC
* * *
164348 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTCGGTCAATACCCAGAC
164372 TTTGAT
1 TTTGAT
164378 GATGTGATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (24 bp):
TTTGATCTCGGTCAATACCCAGAC
Found at i:167105 original size:20 final size:20
Alignment explanation
Indices: 166989--167105 Score: 95
Period size: 20 Copynumber: 6.2 Consensus size: 20
166979 ATCGCAACGT
* *
166989 GAATTTGACTTTTGTGTTGC
1 GAATTTGACTTTCGCGTTGC
*
167009 GAATTTGACTTTCGCATTGC
1 GAATTTGACTTTCGCGTTGC
* **
167029 GAATTTGACTATCGC--AAC
1 GAATTTGACTTTCGCGTTGC
*
167047 G--CTT-A-TTTCGCGTTGC
1 GAATTTGACTTTCGCGTTGC
*
167063 GAATTT-ACTTTTCGTGTTGC
1 GAATTTGAC-TTTCGCGTTGC
*
167083 GAATTTGACTTTCGCGTTAC
1 GAATTTGACTTTCGCGTTGC
167103 GAA
1 GAA
167106 AGTTTACCTT
Statistics
Matches: 76, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
14 5 0.07
15 1 0.01
16 4 0.05
18 5 0.07
20 59 0.78
21 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (20 bp):
GAATTTGACTTTCGCGTTGC
Found at i:167214 original size:25 final size:25
Alignment explanation
Indices: 167176--167225 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
167166 AAATCAATTA
*
167176 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
167201 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
167226 GAAAATAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:167654 original size:24 final size:24
Alignment explanation
Indices: 167603--167655 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
167593 TTTCATATGT
* * *
167603 AATTGGAGTTTAAATTTCAATTTC
1 AATTTGAGTTTAAATTTCAATATA
*
167627 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTAAATTTCAATATA
167651 AATTT
1 AATTT
167656 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTAAATTTCAATATA
Found at i:168326 original size:16 final size:16
Alignment explanation
Indices: 168305--168335 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
168295 GGAAGGCATT
168305 TTTTTACATAATTTTA
1 TTTTTACATAATTTTA
*
168321 TTTTTATATAATTTT
1 TTTTTACATAATTTT
168336 TCAATGATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTACATAATTTTA
Found at i:168945 original size:20 final size:19
Alignment explanation
Indices: 168922--169024 Score: 81
Period size: 20 Copynumber: 5.5 Consensus size: 19
168912 AAATCGCAAC
168922 GCGAATTTGACTTTCGCGTT
1 GCGAATTT-ACTTTCGCGTT
* *
168942 GCGAATTTGACTATCGC--A
1 GCGAATTT-ACTTTCGCGTT
* *
168960 ACG--CTTA-TTTCGCGTT
1 GCGAATTTACTTTCGCGTT
*
168976 GCGAATTTACCTTTCACGTT
1 GCGAATTTA-CTTTCGCGTT
168996 GCGAATTTACCTTTCGCGTT
1 GCGAATTTA-CTTTCGCGTT
*
169016 ACGAATTTA
1 GCGAATTTA
169025 TACCTTCAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
14 5 0.08
15 1 0.02
16 4 0.06
18 5 0.08
20 51 0.77
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (19 bp):
GCGAATTTACTTTCGCGTT
Found at i:169155 original size:66 final size:65
Alignment explanation
Indices: 169078--169249 Score: 240
Period size: 66 Copynumber: 2.6 Consensus size: 65
169068 GATTTAAAAC
*
169078 AACAAATCAACTTTTATAATTCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
1 AACAAATCAACTTTTAAAATTCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATC-AATT
169143 A
65 A
* *
169144 AACAAATCAACTTTTACAAA-TCAATTAAACAAGC-AAAAAATAATTCTTATTTCCTCATCAATT
1 AACAAATCAACTTTTA-AAATTCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAATT
169207 A
65 A
169208 AACAAATCAACTTTCAATGTAAAATTCAATTAAACAAGCAAA
1 AACAAATCAAC-TT---T-TAAAATTCAATTAAACAAGCAAA
169250 CAAAGTGTAC
Statistics
Matches: 95, Mismatches: 3, Indels: 12
0.86 0.03 0.11
Matches are distributed among these distances:
64 16 0.17
65 25 0.26
66 30 0.32
67 2 0.02
68 4 0.04
69 16 0.17
70 2 0.02
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (65 bp):
AACAAATCAACTTTTAAAATTCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAATTA
Found at i:170556 original size:21 final size:21
Alignment explanation
Indices: 170528--170606 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
170518 TAATGACAGA
*
170528 GGCCTCTTGAACGGTGGGAGG
1 GGCCTCTTGAACGATGGGAGG
* * *
170549 GGCTTCTTCG-ATGATGAGAGG
1 GGCCTCTT-GAACGATGGGAGG
*
170570 GGCCTCTTGAACGATAGGAGG
1 GGCCTCTTGAACGATGGGAGG
* *
170591 TGCCTCTTGAATGATG
1 GGCCTCTTGAACGATG
170607 ATAGGTGCAT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 1 0.02
21 43 0.96
22 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.38, T:0.25
Consensus pattern (21 bp):
GGCCTCTTGAACGATGGGAGG
Found at i:170590 original size:42 final size:42
Alignment explanation
Indices: 170509--170607 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
170499 GTGGGCGAGA
* * * * *
170509 CCTCTTGAATAATGACAGAGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGAGAGGGGCCTCTTGAACGATAGGAGGGG
* *
170551 CTTCTTCG-ATGATGAGAGGGGCCTCTTGAACGATAGGAGGTG
1 CCTCTT-GAATGATGAGAGGGGCCTCTTGAACGATAGGAGGGG
170593 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
170608 TAGGTGCATC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 45 0.96
43 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.25
Consensus pattern (42 bp):
CCTCTTGAATGATGAGAGGGGCCTCTTGAACGATAGGAGGGG
Found at i:170612 original size:21 final size:21
Alignment explanation
Indices: 170509--170614 Score: 74
Period size: 21 Copynumber: 5.0 Consensus size: 21
170499 GTGGGCGAGA
* *
170509 CCTCTTGAATAATGACAGAG-G
1 CCTCTTGAATGATGAGAG-GTG
* * * *
170530 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGAGAGGTG
* *
170551 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAATGATGAGAGGTG
*
170572 CCTCTTGAACGAT-AGGAGGTG
1 CCTCTTGAATGATGA-GAGGTG
*
170593 CCTCTTGAATGATGATAGGTG
1 CCTCTTGAATGATGAGAGGTG
170614 C
1 C
170615 ATCGGGCTTC
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
20 3 0.05
21 61 0.92
22 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (21 bp):
CCTCTTGAATGATGAGAGGTG
Found at i:172584 original size:20 final size:20
Alignment explanation
Indices: 172534--172577 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
172524 AAACTTAAAT
*
172534 TCGCAACACGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
172554 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
172574 TCGC
1 TCGC
172578 GTTGCGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:173178 original size:20 final size:20
Alignment explanation
Indices: 173095--173178 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
173085 TGTGTTTCGC
* *
173095 GTTGCGAATTTGATTTTTGT
1 GTTGCGAATTTGACTTCTGT
* *
173115 GTTACGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTCTGT
* * *
173135 GATGCGAATTTGGCTATC-GC
1 GTTGCGAATTTGACT-TCTGT
173155 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTCTGT
173175 GTTG
1 GTTG
173179 TAATTTACAA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.04
20 49 0.94
21 1 0.02
ACGTcount: A:0.17, C:0.12, G:0.26, T:0.45
Consensus pattern (20 bp):
GTTGCGAATTTGACTTCTGT
Found at i:173204 original size:21 final size:21
Alignment explanation
Indices: 173180--173239 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
173170 TCTGTGTTGT
173180 AATTTACAAATTCGCGTTGCG
1 AATTTACAAATTCGCGTTGCG
* **
173201 AATTTGAAAAATT-GCAATGCG
1 AATTT-ACAAATTCGCGTTGCG
*
173222 -ATTTACATATTCGCGTTG
1 AATTTACAAATTCGCGTTG
173240 TGAAATTGGA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
19 5 0.17
20 8 0.27
21 11 0.37
22 6 0.20
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (21 bp):
AATTTACAAATTCGCGTTGCG
Found at i:187001 original size:75 final size:76
Alignment explanation
Indices: 186907--187129 Score: 266
Period size: 76 Copynumber: 3.0 Consensus size: 76
186897 GATTAAACTC
*
186907 AAGTTTTAGAATAATATTTTAAATATTATATTTTATCTTT-GA-ATTTTAGTTTAAATAGGTTTT
1 AAGTTTTAGAATATTATTTTAAATATTATATTTTAT-TTTAGATATTTTAGTTTAAATAGGTTTT
186970 AGTATTTTAATT
65 AGTATTTTAATT
* * * *
186982 AAGTTTTAGGATATTATTTT-TATATTTTATCTTTGTTTTAGATATTTTAGTTTAAATAGGTTTT
1 AAGTTTTAGAATATTATTTTAAATATTATAT-TTTATTTTAGATATTTTAGTTTAAATAGGTTTT
187046 AGTATTTTAATT
65 AGTATTTTAATT
* * * *
187058 AGGATTTAGAATATTATTTTAAATA-T-TA--TT-TTTTAGGTATTTTAGTTTAAATA-TTTTTA
1 AAGTTTTAGAATATTATTTTAAATATTATATTTTATTTTAGATATTTTAGTTTAAATAGGTTTT-
*
187117 AGTGTTTTAATT
65 AGTATTTTAATT
187129 A
1 A
187130 GGATTTAAGA
Statistics
Matches: 131, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
70 4 0.03
71 34 0.26
72 2 0.02
74 11 0.08
75 26 0.20
76 51 0.39
77 3 0.02
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.57
Consensus pattern (76 bp):
AAGTTTTAGAATATTATTTTAAATATTATATTTTATTTTAGATATTTTAGTTTAAATAGGTTTTA
GTATTTTAATT
Found at i:187724 original size:18 final size:19
Alignment explanation
Indices: 187701--187740 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
187691 CTTTAATTTG
187701 TTTATTTAATTAT-TTTTA
1 TTTATTTAATTATCTTTTA
187719 TTTATTTAATTATCTTTTA
1 TTTATTTAATTATCTTTTA
187738 TTT
1 TTT
187741 TAAAAACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTAATTATCTTTTA
Found at i:192939 original size:28 final size:28
Alignment explanation
Indices: 192899--192968 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
192889 GATAGCCCTT
* *
192899 CTTGCTTCGAGCTATGTTGTAAGTTTTA
1 CTTGCCTCGAGCTATGCTGTAAGTTTTA
192927 CTTGCCTCGAGCTATGCTGTAAGTTTTA
1 CTTGCCTCGAGCTATGCTGTAAGTTTTA
*
192955 TTTGCCTCTGAGCT
1 CTTGCCTC-GAGCT
192969 GAATGTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 33 0.87
29 5 0.13
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (28 bp):
CTTGCCTCGAGCTATGCTGTAAGTTTTA
Found at i:192975 original size:28 final size:27
Alignment explanation
Indices: 192899--192976 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
192889 GATAGCCCTT
* *
192899 CTTGCTTCGAGCTATGTTGTAAGTTTTA
1 CTTGCCTCGAGCTA-GATGTAAGTTTTA
*
192927 CTTGCCTCGAGCTATGCTGTAAGTTTTA
1 CTTGCCTCGAGCTA-GATGTAAGTTTTA
*
192955 TTTGCCTCTGAGCT-GAATGTAA
1 CTTGCCTC-GAGCTAG-ATGTAA
192977 TTGAACTCGA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 1 0.02
28 38 0.86
29 5 0.11
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
CTTGCCTCGAGCTAGATGTAAGTTTTA
Found at i:193144 original size:84 final size:83
Alignment explanation
Indices: 192959--193242 Score: 261
Period size: 84 Copynumber: 3.4 Consensus size: 83
192949 GTTTTATTTG
* * * * *
192959 CCTCTGAGCTGAATGTAATTGAACTCGAATGTCTTTGGATGGCAGATAACCGTTCTCGACTTAAG
1 CCTC-GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GATGGCAGATAACCCTTCTAGACTTAAG
* *
193024 TTATGCTGCAAATGTTGTGC
64 TTATGATGCAAATGATGTGC
* * * * * *
193044 CTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGTTGGCAGATAACCCTTCTAGCCTTGAGTT
1 CCTCGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGATGGCAGATAACCCTTCTAGACTTAAGTT
* *
193109 ATGATGTAAATGATGTTC
66 ATGATGCAAATGATGTGC
* * * * * *
193127 CCTCGAAGTTGAGTGTAATCGAACTCGAGGGTC-TT--TGGCAAATAGCCATTCTCGACTTAA-T
1 CCTCG-AGCTGAGTGTAATCGAACTCGAAGGTCTTTGATGGCAGATAACCCTTCTAGACTTAAGT
* *
193188 CTATGCTGCAAATAATGTGC
65 -TATGATGCAAATGATGTGC
* * * *
193208 CTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
1 CCTCGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
193243 ATGTTTCAAG
Statistics
Matches: 160, Mismatches: 36, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
80 24 0.15
81 39 0.24
83 44 0.28
84 51 0.32
85 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (83 bp):
CCTCGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGATGGCAGATAACCCTTCTAGACTTAAGTT
ATGATGCAAATGATGTGC
Found at i:193281 original size:33 final size:33
Alignment explanation
Indices: 193244--193323 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
193234 AAGGTCTTTA
*
193244 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
193277 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
193310 TGTTTCAAGAGAAA
1 TGTTTCAAGAGAAA
193324 ATGTCTCTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
Found at i:193658 original size:36 final size:36
Alignment explanation
Indices: 193376--193658 Score: 183
Period size: 36 Copynumber: 7.8 Consensus size: 36
193366 TCAAAGGTTG
* *
193376 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAA-T
* * ** * *
193413 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAAT
* * * *
193449 TTGTTTCAAGGAAAACATAT-TCAA-AGATTATTCAAGAAA
1 TTGTTTCAAGGGAAAC-TGTCTCAAGAGA--A-ACAA-AAT
* * * *
193488 CTGTCTCAAGGGAGA--GTTTCAAG-GAAA-AAAA-
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAAT
*
193519 ---TTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAAT
* * *
193552 TTGTTTCAAGGGAAATTATCTCAAGAGAGACAAAA-
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAAT
193587 TTGTTTCAAGGGAAACTCAAGTCAAAATCAAGAGAAACAAAAT
1 TTGTTTCAAGGGAAACT---GTC----TCAAGAGAAACAAAAT
*
193630 TTGTTTCAAGAGAAACTGTCTCAAGAGAA
1 TTGTTTCAAGGGAAACTGTCTCAAGAGAA
193659 CAGAGAGACA
Statistics
Matches: 193, Mismatches: 30, Indels: 47
0.71 0.11 0.17
Matches are distributed among these distances:
28 10 0.05
30 7 0.04
31 3 0.02
32 6 0.03
33 2 0.01
35 19 0.10
36 56 0.29
37 39 0.20
38 5 0.03
39 13 0.07
40 3 0.02
42 14 0.07
43 16 0.08
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (36 bp):
TTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAAT
Found at i:195136 original size:95 final size:95
Alignment explanation
Indices: 194941--195195 Score: 338
Period size: 95 Copynumber: 2.7 Consensus size: 95
194931 GGCTAGCTGG
* * * * *
194941 ATCCATAAAGCTGGGGCTTTTAACCAATTACTTCAGAGGGACAACTCAA----TATCGTTGTATT
1 ATCCATAAAGCCGGGGCATTTAACCAATTACTTAAGAGGGACAACTCAAGCTTTATAG-TATATT
195002 ATAATCACCTTTATCAGGCTAGCTGAATATT
65 ATAATCACCTTTATCAGGCTAGCTGAATATT
* * *
195033 ATCCATAAAGCCGGGGCGTTTAACCAATTTCTTAAGAGGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCCGGGGCATTTAACCAATTACTTAAGAGGGACAACTCAAGCTTTATAGTATATTA
* *
195098 TAATCACCTTTATCAGGCTAGTTGAATCTT
66 TAATCACCTTTATCAGGCTAGCTGAATATT
* * * *
195128 ATCTATAAAGCCGGGGCATTTAACCAATTGCTTTAGAGGGACAGCTCAAGCTTTATAGTATATAT
1 ATCCATAAAGCCGGGGCATTTAACCAATTACTTAAGAGGGACAACTCAAGCTTTATAGTATAT-T
195193 ATA
65 ATA
195196 TAATTATAAT
Statistics
Matches: 144, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
92 45 0.31
95 91 0.63
96 8 0.06
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (95 bp):
ATCCATAAAGCCGGGGCATTTAACCAATTACTTAAGAGGGACAACTCAAGCTTTATAGTATATTA
TAATCACCTTTATCAGGCTAGCTGAATATT
Found at i:198533 original size:2 final size:2
Alignment explanation
Indices: 198526--198563 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
198516 CTACCATGCA
198526 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
198564 TATGAAACAC
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:198641 original size:2 final size:2
Alignment explanation
Indices: 198634--198658 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
198624 CTGCAAAATA
198634 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 A
198659 AGAGAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:198888 original size:20 final size:20
Alignment explanation
Indices: 198863--198959 Score: 142
Period size: 20 Copynumber: 4.8 Consensus size: 20
198853 GCTACTTTCC
198863 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
198883 TAAATCGTAATGCGAATACG
1 TAAATCGCAATGCGAATACG
198903 TAAATCGCAATGC-AGATACG
1 TAAATCGCAATGCGA-ATACG
* *
198923 TAAATCACAATGCGAATATG
1 TAAATCGCAATGCGAATACG
*
198943 TAAATCGCAACGCGAAT
1 TAAATCGCAATGCGAAT
198960 CTGACTATCG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 1 0.01
20 67 0.97
21 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:199180 original size:22 final size:22
Alignment explanation
Indices: 199155--199220 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
199145 GGCGACATCC
*
199155 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCTGACGAAATCA
* *
199177 GTCCCTATCTCTGACGATATCA
1 GTCCCCATCTCTGACGAAATCA
* *
199199 GTCTCCATCTCTGGCGAAATCA
1 GTCCCCATCTCTGACGAAATCA
199221 TTCACGGTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (22 bp):
GTCCCCATCTCTGACGAAATCA
Found at i:199566 original size:19 final size:19
Alignment explanation
Indices: 199542--199597 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 19
199532 GCTATTATGT
*
199542 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTGTCATTTCG
* *
199561 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTC-ATTTCG
199581 CGTTGCGATTGTCATTT
1 CGTTGCGATTGTCATTT
199598 TCATTTTCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (19 bp):
CGTTGCGATTGTCATTTCG
Found at i:201534 original size:20 final size:20
Alignment explanation
Indices: 201505--201556 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
201495 AGAATAGTTT
* * *
201505 ACTATAGCAATGCGAAAATG
1 ACTATCGCAACGCAAAAATG
201525 ACTATCGCAACGCAAAAATG
1 ACTATCGCAACGCAAAAATG
201545 ACTATCGCAACG
1 ACTATCGCAACG
201557 AGAGAATTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.17
Consensus pattern (20 bp):
ACTATCGCAACGCAAAAATG
Found at i:201577 original size:33 final size:34
Alignment explanation
Indices: 201532--201617 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 34
201522 ATGACTATCG
* * * * *
201532 CAACGCAAAAATGACTATCGCAACGAGAGAATTG
1 CAACGCGAAAATGACTATCGCAACAACAAAATTA
* **
201566 CAATGCG-AAATGAAAATCGCAACAACAAAATTA
1 CAACGCGAAAATGACTATCGCAACAACAAAATTA
201599 CAACGCGAAAATGACTATC
1 CAACGCGAAAATGACTATC
201618 ACAATGCAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
33 26 0.65
34 14 0.35
ACGTcount: A:0.48, C:0.21, G:0.16, T:0.15
Consensus pattern (34 bp):
CAACGCGAAAATGACTATCGCAACAACAAAATTA
Found at i:201629 original size:20 final size:20
Alignment explanation
Indices: 201606--201644 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
201596 TTACAACGCG
*
201606 AAAATGACTATCACAATGCA
1 AAAATAACTATCACAATGCA
*
201626 AAAATAACTATCGCAATGC
1 AAAATAACTATCACAATGC
201645 GAATTTGACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.21
Consensus pattern (20 bp):
AAAATAACTATCACAATGCA
Found at i:201800 original size:20 final size:20
Alignment explanation
Indices: 201712--201811 Score: 137
Period size: 20 Copynumber: 5.0 Consensus size: 20
201702 CTCTCATTGT
** *
201712 GATAGTCAAATTCGCATTGC
1 GATAGTCATTTTCGCGTTGC
** *
201732 GATAGTCAAATTCGCATTGC
1 GATAGTCATTTTCGCGTTGC
201752 GATAGTCATTTTCGCGTTGC
1 GATAGTCATTTTCGCGTTGC
*
201772 GATAGTCATTTTCGCGTTGT
1 GATAGTCATTTTCGCGTTGC
201792 GATAGTCATTTTCGCGTTGC
1 GATAGTCATTTTCGCGTTGC
201812 CATTTTAAGT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (20 bp):
GATAGTCATTTTCGCGTTGC
Found at i:202341 original size:21 final size:21
Alignment explanation
Indices: 202295--202398 Score: 68
Period size: 21 Copynumber: 5.0 Consensus size: 21
202285 AACTCACTTG
*
202295 TCATCGTTCAAGAGGTCTCCC-C
1 TCATCGTTCAAGAGG-C-CCCTA
202317 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
* ** * *
202337 TTATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
* * * *
202358 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTA
* *
202379 TCATCGTTGAAGAGGTCCCT
1 TCATCGTTCAAGAGGCCCCT
202399 CCCAACATTC
Statistics
Matches: 62, Mismatches: 18, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
19 3 0.05
20 2 0.03
21 56 0.90
22 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:202392 original size:42 final size:43
Alignment explanation
Indices: 202293--202402 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 43
202283 CCAACTCACT
* * * *
202293 TGTCATCGTTCAAGAGGTCTCC-CCTATCGTTCAAGAGGCCCC
1 TGTCATCGTTCAAGAGGTCCCCTCCCACCGTTCAAGAGGCCAC
* * **
202335 TATTATCCCTCAAGA-GTCCCCTCCCACCGTTCAAGAGGCCAC
1 TGTCATCGTTCAAGAGGTCCCCTCCCACCGTTCAAGAGGCCAC
*
202377 TGTCATCGTTGAAGAGGT-CCCTCCCA
1 TGTCATCGTTCAAGAGGTCCCCTCCCA
202403 ACATTCTAGA
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
41 5 0.09
42 46 0.87
43 2 0.04
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (43 bp):
TGTCATCGTTCAAGAGGTCCCCTCCCACCGTTCAAGAGGCCAC
Found at i:203805 original size:14 final size:14
Alignment explanation
Indices: 203786--203821 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
203776 ATTGTTTAAT
203786 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
203800 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
203814 TGATTTGT
1 TGATTTGT
203822 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:203937 original size:20 final size:20
Alignment explanation
Indices: 203912--203953 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
203902 CATTATGTTG
203912 AATGCA-AAACAGACTATCGC
1 AATGCAGAAA-AGACTATCGC
*
203932 AATGCAGAAATGACTATCGC
1 AATGCAGAAAAGACTATCGC
203952 AA
1 AA
203954 CGAGAGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (20 bp):
AATGCAGAAAAGACTATCGC
Done.