Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008479.1 Hibiscus syriacus cultivar Beakdansim tig00111310_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: 457438
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 3
Found at i:14015 original size:17 final size:17
Alignment explanation
Indices: 13993--14027 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
13983 GATCATAGGG
13993 CCGAAGCATGTGTATGC
1 CCGAAGCATGTGTATGC
14010 CCGAAGCATGTGTATGC
1 CCGAAGCATGTGTATGC
14027 C
1 C
14028 TTCCAGTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.23
Consensus pattern (17 bp):
CCGAAGCATGTGTATGC
Found at i:27200 original size:21 final size:21
Alignment explanation
Indices: 27163--27212 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
27153 TCCACGCGAT
*
27163 ATTAATTA-TAATATTTTAAA
1 ATTAATAATTAATATTTTAAA
* *
27183 ATTAATAATTAATTTTTTATA
1 ATTAATAATTAATATTTTAAA
*
27204 ATAAATAAT
1 ATTAATAAT
27213 ATTAATTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAATAATTAATATTTTAAA
Found at i:30569 original size:116 final size:116
Alignment explanation
Indices: 30365--30582 Score: 321
Period size: 116 Copynumber: 1.9 Consensus size: 116
30355 CATGTGAAGA
* * * *
30365 CGCGTTCCTGGGGGCGCGCCTTCCATTATGTTGTTAGATAATATGTTATAATTGCTCTATTATTC
1 CGCGTTCCTGGAGGCGCACCTTCCATTATGTTGTCAGAGAATATGTTATAATTGCTCTATTATTC
* *
30430 ACTCATATCCCTCAGGGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAG
66 ACTCATATCCCTCAGGAGAACTATTCATGTCAGTACCCAAAGTGGTGAAAG
* * *
30481 CGCGTTCCTGGAGGCGCACGTTCCATTATTTTGTCAGAGAATATGTTATCATTGCTCTATTATGT
1 CGCGTTCCTGGAGGCGCACCTTCCATTATGTTGTCAGAGAATATGTTATAATTGCTCTATTAT-T
* *
30546 CACTCATGTCCC-CTGGAGAACTATTCATGTCAGTACC
65 CACTCATATCCCTCAGGAGAACTATTCATGTCAGTACC
30583 TATTATTTCT
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
116 78 0.87
117 12 0.13
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (116 bp):
CGCGTTCCTGGAGGCGCACCTTCCATTATGTTGTCAGAGAATATGTTATAATTGCTCTATTATTC
ACTCATATCCCTCAGGAGAACTATTCATGTCAGTACCCAAAGTGGTGAAAG
Found at i:30814 original size:138 final size:138
Alignment explanation
Indices: 30467--30969 Score: 848
Period size: 137 Copynumber: 3.7 Consensus size: 138
30457 TGTCAGTACC
* * * *
30467 CAAAGTGGTGAAAGCGCGTTCCTGGAGGCGCACGTTCCATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
* *
30532 TTGCTCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTCAGTACCTATTATTTCTGAGG
66 TTGCCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTCAGTACCTATTATTTCTAAGG
30597 GGACTTGG
131 GGACTTGG
*
30605 C-AAGTGGTGAAAGCACGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
* * *
30669 TTGCCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTTAGTACCTATTATTTTTTAGG
66 TTGCCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTCAGTACCTATTATTTCTAAGG
30734 GGACTTGG
131 GGACTTGG
*
30742 CAAAGTGGTGAAAGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
*
30807 TTACCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTCAGTACCTATTATTTCTAAGG
66 TTGCCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTCAGTACCTATTATTTCTAAGG
30872 GGACTTGG
131 GGACTTGG
* ** *
30880 CAAAGTGGTGAAA-TGCGTTCCCATGGGCTCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
30944 TTGCCCTATTATGTCACTCATGTCCC
66 TTGCCCTATTATGTCACTCATGTCCC
30970 TCGGGAACTA
Statistics
Matches: 343, Mismatches: 21, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
137 199 0.58
138 144 0.42
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (138 bp):
CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
TTGCCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTCAGTACCTATTATTTCTAAGG
GGACTTGG
Found at i:30958 original size:275 final size:274
Alignment explanation
Indices: 30467--30969 Score: 873
Period size: 275 Copynumber: 1.8 Consensus size: 274
30457 TGTCAGTACC
* *
30467 CAAAGTGGTGAAAGCGCGTTCCTGGAGGCGCACGTTCCATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGAGGCGCACCTTCCATTATTTTGTCAGAGAATATGTTATCA
* * *
30532 TTGCTCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTCAGTACCTATTATTTCTGAGG
66 TTACCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTCAGTACCTATTATTTCTAAGG
*
30597 GGACTTGGCAAGTGGTGAAAGCACGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATAT
131 GGACTTGGCAAGTGGTGAAAG-ACGTTCCCAGGGGCGCGCCTTCCATTATTTTGTCAGAGAATAT
30662 GTTATCATTGCCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTTAGTACCTATTATT
195 GTTATCATTGCCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTTAGTACCTATTATT
30727 TTTTAGGGGACTTGG
260 TTTTAGGGGACTTGG
* * *
30742 CAAAGTGGTGAAAGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGAGGCGCACCTTCCATTATTTTGTCAGAGAATATGTTATCA
30807 TTACCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTCAGTACCTATTATTTCTAAGG
66 TTACCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTCAGTACCTATTATTTCTAAGG
* *
30872 GGACTTGGCAAAGTGGTGAAATG-CGTTCCCATGGGCTCGCCTTCCATTATTTTGTCAGAGAATA
131 GGACTTGGC-AAGTGGTGAAA-GACGTTCCCAGGGGCGCGCCTTCCATTATTTTGTCAGAGAATA
30936 TGTTATCATTGCCCTATTATGTCACTCATGTCCC
194 TGTTATCATTGCCCTATTATGTCACTCATGTCCC
30970 TCGGGAACTA
Statistics
Matches: 215, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
275 203 0.94
276 11 0.05
277 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (274 bp):
CAAAGTGGTGAAAGCGCGTTCCCGGAGGCGCACCTTCCATTATTTTGTCAGAGAATATGTTATCA
TTACCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTCAGTACCTATTATTTCTAAGG
GGACTTGGCAAGTGGTGAAAGACGTTCCCAGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATG
TTATCATTGCCCTATTATGTCACTCATGTCCCCTGGAGAACTATTCATGTTAGTACCTATTATTT
TTTAGGGGACTTGG
Found at i:31163 original size:23 final size:23
Alignment explanation
Indices: 31115--31164 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
31105 TGAAGTTTGA
* * *
31115 ATAAATTGGATAAAATGTTATGG
1 ATAAATTGAATAAAATGTGAAGG
31138 ATAAATTGAAT-AAATGTGAAGTG
1 ATAAATTGAATAAAATGTGAAG-G
31161 ATAA
1 ATAA
31165 GTTGGTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (23 bp):
ATAAATTGAATAAAATGTGAAGG
Found at i:31407 original size:34 final size:34
Alignment explanation
Indices: 31369--31435 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
31359 GAATTTAATG
* *
31369 TTAAATTTTGAATA-TCATAATTTGTATTTTAAAT
1 TTAAATTTCGAATACT-ATAATTTGTATATTAAAT
31403 TTAAATTTCGAATACTATAATTTGTATATTAAA
1 TTAAATTTCGAATACTATAATTTGTATATTAAA
31436 AATATTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (34 bp):
TTAAATTTCGAATACTATAATTTGTATATTAAAT
Found at i:31968 original size:21 final size:20
Alignment explanation
Indices: 31944--31995 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
31934 GGTGTCATAA
*
31944 AACCATGCGGGCTAGGCATGT
1 AACC-TGCGGGCTAGGAATGT
31965 AACCTGGCGGGCTAGGAATGT
1 AACCT-GCGGGCTAGGAATGT
31986 AACCCTGCGG
1 AA-CCTGCGG
31996 AGATGACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 1 0.04
21 24 0.86
22 3 0.11
ACGTcount: A:0.23, C:0.25, G:0.35, T:0.17
Consensus pattern (20 bp):
AACCTGCGGGCTAGGAATGT
Found at i:32034 original size:42 final size:42
Alignment explanation
Indices: 31988--32067 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
31978 AGGAATGTAA
* * *
31988 CCCTGCGGAGATGACATATAAACTGGTGGGCTTGGCATATAC
1 CCCTGAGGAGATGACATATAAACTGGAGGGCTGGGCATATAC
* *
32030 CCCTGAGGAGATGGCATATGAACTGGAGGGCTGGGCAT
1 CCCTGAGGAGATGACATATAAACTGGAGGGCTGGGCAT
32068 CATCATCGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (42 bp):
CCCTGAGGAGATGACATATAAACTGGAGGGCTGGGCATATAC
Found at i:33809 original size:15 final size:16
Alignment explanation
Indices: 33778--33810 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
33768 AATAATTAAT
33778 TAATAATTTAAATAAA
1 TAATAATTTAAATAAA
*
33794 TAATAA-TTATATAAA
1 TAATAATTTAAATAAA
33809 TA
1 TA
33811 TTATTTTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAATTTAAATAAA
Found at i:36791 original size:20 final size:19
Alignment explanation
Indices: 36729--36798 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 19
36719 TACCCATAGG
* *
36729 AGTATCGATACTTAACCATA
1 AGTATCGATACTAAAGC-TA
* *
36749 AGTATCGATACT--GGTTA
1 AGTATCGATACTAAAGCTA
36766 AGTATCGATACTAAAGCTA
1 AGTATCGATACTAAAGCTA
*
36785 GAGTATCAATACTA
1 -AGTATCGATACTA
36799 CCCACCTCAG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
17 14 0.34
19 3 0.07
20 24 0.59
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AGTATCGATACTAAAGCTA
Found at i:38934 original size:3 final size:3
Alignment explanation
Indices: 38926--38963 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
38916 TATCCCGGTT
*
38926 TTA TTA TTA TTA TTA TTA TTA TTA CT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38964 ATAATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 1 0.03
3 31 0.97
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:40392 original size:12 final size:11
Alignment explanation
Indices: 40375--40406 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
40365 ATATGTTTAA
40375 ATTATTATTTT
1 ATTATTATTTT
40386 CATTATTATTTT
1 -ATTATTATTTT
40398 ATTATTATT
1 ATTATTATT
40407 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:41277 original size:24 final size:24
Alignment explanation
Indices: 41250--41305 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
41240 ATATACTCAT
41250 TATTTTCA-TAATATTTTTATATAA
1 TATTTTCATTAATATTTTT-TATAA
* * **
41274 TATTTTTATTAATGTTTTTTATTT
1 TATTTTCATTAATATTTTTTATAA
41298 TATTTTCA
1 TATTTTCA
41306 AGTATTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (24 bp):
TATTTTCATTAATATTTTTTATAA
Found at i:41286 original size:12 final size:13
Alignment explanation
Indices: 41257--41292 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
41247 CATTATTTTC
41257 ATAATATTTTTAT
1 ATAATATTTTTAT
41270 ATAATATTTTTAT
1 ATAATATTTTTAT
*
41283 -TAATGTTTTT
1 ATAATATTTTT
41293 TATTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (13 bp):
ATAATATTTTTAT
Found at i:41937 original size:21 final size:23
Alignment explanation
Indices: 41912--41957 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
41902 GTACTAACCA
41912 TTTTATT-TTTCT-TATTTTATT
1 TTTTATTATTTCTATATTTTATT
*
41933 TTTTATTATTTTTATATTTTATT
1 TTTTATTATTTCTATATTTTATT
41956 TT
1 TT
41958 GCTCTAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 4 0.18
23 11 0.50
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTATTATTTCTATATTTTATT
Found at i:41945 original size:16 final size:15
Alignment explanation
Indices: 41911--41955 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
41901 GGTACTAACC
*
41911 ATTTTA-TTTTTCTT
1 ATTTTATTTTTTATT
41925 ATTTTATTTTTTATT
1 ATTTTATTTTTTATT
*
41940 ATTTTTATATTTTATT
1 A-TTTTATTTTTTATT
41956 TTGCTCTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 6 0.22
15 8 0.30
16 13 0.48
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (15 bp):
ATTTTATTTTTTATT
Found at i:47670 original size:21 final size:21
Alignment explanation
Indices: 47644--47688 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
47634 GATTTCTGGG
* *
47644 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
47665 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
47686 CAA
1 CAA
47689 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:48378 original size:23 final size:24
Alignment explanation
Indices: 48335--48381 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
48325 ATATGGCATG
*
48335 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
48359 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
48382 ACAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:48598 original size:31 final size:31
Alignment explanation
Indices: 48560--48713 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
48550 GGGTCGAGGG
48560 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
48591 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
48622 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
* * *
48653 TTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGT
*
48684 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
48714 GTCCTTCGGG
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGAACATATGGACTGT
Found at i:51706 original size:21 final size:21
Alignment explanation
Indices: 51680--51724 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
51670 GATTTCTGGG
* *
51680 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
51701 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
51722 CAA
1 CAA
51725 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:52407 original size:23 final size:24
Alignment explanation
Indices: 52364--52410 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
52354 ATATGGCATG
*
52364 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
52388 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
52411 ACAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:52627 original size:31 final size:31
Alignment explanation
Indices: 52589--52742 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
52579 GGGTCGAGGG
52589 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
52620 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
52651 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
* * *
52682 TTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGT
*
52713 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
52743 GTCCTTCGGG
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGAACATATGGACTGT
Found at i:57317 original size:20 final size:22
Alignment explanation
Indices: 57272--57324 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
57262 ATATCTACAT
* *
57272 TCTTCAAATATGATATATTCTC
1 TCTTCAAAGATGATAGATTCTC
57294 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
57316 T-TTTAAAGA
1 TCTTCAAAGA
57325 CGAAAGCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:58081 original size:122 final size:123
Alignment explanation
Indices: 57837--58274 Score: 654
Period size: 122 Copynumber: 3.6 Consensus size: 123
57827 CAGGTAGAGC
* *
57837 TCATAATGAGAATAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
*
57902 CTTTGCATGACTCTATCACAGAAGGAGATAAATCAGCATCAACTTTTCCAGAGAAAGT
66 CTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAAAGT
* * *
57960 TCAGAATGAGAAGAACTTATCTGAAG-AGGAATAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
* *
58024 CTTTGCATGACTCTATCACAGAAGGAGATAGATTAACATCAACTTTTCCAGAGAAAGT
66 CTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAAAGT
* * * *
58082 TCATAATGAGAAGAACTTATCTGAAG-AGAAAGAAGAAGTTCATAACGAGAAGAACTTGTTAAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
* * *
58146 CTTTGCGTGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTT-CTG-GAAGAGT
66 CTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAA-AGT
* * *
58203 TCATAATGAGAATAACTCATCTGAAGAAGG-ATAATAAGTTCATAATGAGAAGAACTTGTTCAAA
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC-AA
58267 CC-TTGCAT
65 CCTTTGCAT
58275 TAATTCATCA
Statistics
Matches: 286, Mismatches: 26, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
120 3 0.01
121 61 0.21
122 200 0.70
123 22 0.08
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (123 bp):
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
CTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAAAGT
Found at i:58588 original size:3 final size:3
Alignment explanation
Indices: 58573--58625 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
58563 TATCTCAGTT
* * *
58573 TTA TTA TTT TTA TTA TTT TTA TTT TTA TTA TTA TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
58620 TTA TTA
1 TTA TTA
58626 ATAAATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:60029 original size:12 final size:11
Alignment explanation
Indices: 60012--60043 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
60002 ATATGTTTAA
60012 ATTATTATTTT
1 ATTATTATTTT
60023 CATTATTATTTT
1 -ATTATTATTTT
60035 ATTATTATT
1 ATTATTATT
60044 ATGTAGTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:60316 original size:2 final size:2
Alignment explanation
Indices: 60259--60305 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
60249 TCTTATTTAA
60259 AT AT 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 AT AT
60301 AT AT A
1 AT AT A
60306 AATTAATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:61119 original size:26 final size:25
Alignment explanation
Indices: 61045--61119 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 25
61035 TAAATTTTAA
* *
61045 AAATATATTTTTTATTTAACTTATT
1 AAATATATTTTTTTTTTAATTTATT
61070 AAATAT-TTTATTTTTCTTAATTTATT
1 AAATATATTT-TTTTT-TTAATTTATT
*
61096 AAATATATTTTTATTTTTATTTTA
1 AAATATATTTTT-TTTTTAATTTA
61120 ATATAAAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.07
25 10 0.23
26 24 0.56
27 6 0.14
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (25 bp):
AAATATATTTTTTTTTTAATTTATT
Found at i:61254 original size:117 final size:115
Alignment explanation
Indices: 61070--61316 Score: 286
Period size: 117 Copynumber: 2.1 Consensus size: 115
61060 TTAACTTATT
* * * *
61070 AAATATTTTATTTTTCTTAATTTATTAAATATATTTTTATTTTTATTTTAATATAAAAACATGTA
1 AAATATTTT-TTTATCTTAACTTA-TAAATATATTTATATTTTTATTTTAATATAAAAACATATA
* *
61135 TTTTAC-CTTTATATTCGCTTAAAAATATATTTTATTATTATCTTAATTTTTAA
64 TTTTACTC-TTATATTCACTTAAAAATATATTTTA-TATTATCTTAAATTTTAA
* *
61188 CAATATTTTTTTATCTTAACTTA-AAATATATTTAAATATTTTATAATTTTAATAT-ACAA-ATA
1 AAATATTTTTTTATCTTAACTTATAAATATATTT--ATATTTT-T-ATTTTAATATAAAAACATA
* * *
61250 TATTTTATTCTTATCTTCACTTAAAAATATATTTTATCTTATCTTAAATTTTAA
62 TATTTTACTCTTATATTCACTTAAAAATATATTTTATATTATCTTAAATTTTAA
*
61304 AAATATATTTTTA
1 AAATATTTTTTTA
61317 AAATATCATT
Statistics
Matches: 111, Mismatches: 13, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
115 10 0.09
116 27 0.24
117 51 0.46
118 13 0.12
119 10 0.09
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.55
Consensus pattern (115 bp):
AAATATTTTTTTATCTTAACTTATAAATATATTTATATTTTTATTTTAATATAAAAACATATATT
TTACTCTTATATTCACTTAAAAATATATTTTATATTATCTTAAATTTTAA
Found at i:61282 original size:29 final size:30
Alignment explanation
Indices: 61245--61314 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
61235 TTTAATATAC
*
61245 AAATATATTTTATTCTTATCTT-CA-CTTAA
1 AAATATATTTTA-TCTTATCTTAAATCTTAA
*
61274 AAATATATTTTATCTTATCTTAAATTTTAA
1 AAATATATTTTATCTTATCTTAAATCTTAA
61304 AAATATATTTT
1 AAATATATTTT
61315 TAAAATATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 9 0.24
29 13 0.35
30 15 0.41
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.53
Consensus pattern (30 bp):
AAATATATTTTATCTTATCTTAAATCTTAA
Found at i:61309 original size:28 final size:29
Alignment explanation
Indices: 61152--61314 Score: 115
Period size: 29 Copynumber: 5.6 Consensus size: 29
61142 TTTATATTCG
*
61152 CTTAAAAATATATTTTATTATTATCTTAA
1 CTTAAAAATATATTTTATTCTTATCTTAA
* * *
61181 TTTTTAACA-ATA-TTT-TT-TTATCTTAA
1 -CTTAAAAATATATTTTATTCTTATCTTAA
* *
61207 CTT-AAAATATATTTAAATATTTTATAATTTTAA
1 CTTAAAAATATATTT---TATTCT-T-ATCTTAA
* *
61240 -TATACAAATATATTTTATTCTTATCTTCA
1 CT-TAAAAATATATTTTATTCTTATCTTAA
61269 CTTAAAAATATATTTTA-TCTTATCTTAAA
1 CTTAAAAATATATTTTATTCTTATCTT-AA
*
61298 TTTTAAAAATATATTTT
1 -CTTAAAAATATATTTT
61315 TAAAATATCA
Statistics
Matches: 106, Mismatches: 13, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
24 3 0.03
25 5 0.05
26 11 0.10
27 2 0.02
28 12 0.11
29 24 0.23
30 24 0.23
31 6 0.06
32 2 0.02
33 7 0.07
34 10 0.09
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.53
Consensus pattern (29 bp):
CTTAAAAATATATTTTATTCTTATCTTAA
Found at i:61553 original size:31 final size:30
Alignment explanation
Indices: 61504--61567 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
61494 GATTGGTTGA
* *
61504 TTTTGGGTCGAATCAAATCGGATCAGTTAAT
1 TTTTGGGTCGAAGCAAATCGGATCAATT-AT
*
61535 TTTTGGGTC-AAGCAAAATCTGATCAATTAT
1 TTTTGGGTCGAAGC-AAATCGGATCAATTAT
61565 TTT
1 TTT
61568 CGGTTTGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (30 bp):
TTTTGGGTCGAAGCAAATCGGATCAATTAT
Found at i:62440 original size:16 final size:16
Alignment explanation
Indices: 62419--62461 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
62409 ATTCAGAGCC
*
62419 TTTGAATCATTCAGCA
1 TTTGAATCATTCAACA
*
62435 TTTGAACCATTCAACA
1 TTTGAATCATTCAACA
*
62451 CTT-AATCATTC
1 TTTGAATCATTC
62462 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (16 bp):
TTTGAATCATTCAACA
Found at i:62561 original size:50 final size:51
Alignment explanation
Indices: 62490--62634 Score: 193
Period size: 51 Copynumber: 2.9 Consensus size: 51
62480 CCTTACACAG
* * *
62490 GTGTAAGTGAATAAAACAAAAAAGTGTAACACTTAACACATACT-ACACCA
1 GTGTAAGTGAATAAAATAAAAAAGTGTAGCACTTAACACATACTCACAACA
* * *
62540 GTGTAAGTGAATAAAATAAAAAAGTGCAGCACTTAACACGTACTCACAACT
1 GTGTAAGTGAATAAAATAAAAAAGTGTAGCACTTAACACATACTCACAACA
* * * *
62591 GTGTAAGTAAATAAAATAAAAAAATGTAGTACTTAATACATACT
1 GTGTAAGTGAATAAAATAAAAAAGTGTAGCACTTAACACATACT
62635 TACATCGATT
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 40 0.49
51 42 0.51
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.23
Consensus pattern (51 bp):
GTGTAAGTGAATAAAATAAAAAAGTGTAGCACTTAACACATACTCACAACA
Found at i:62604 original size:51 final size:50
Alignment explanation
Indices: 62490--62613 Score: 176
Period size: 50 Copynumber: 2.5 Consensus size: 50
62480 CCTTACACAG
* * *
62490 GTGTAAGTGAATAAAACAAAAAAGTGTAACACTTAACACATACTACACCA
1 GTGTAAGTGAATAAAATAAAAAAGTGCAACACTTAACACATACTACAACA
* * *
62540 GTGTAAGTGAATAAAATAAAAAAGTGCAGCACTTAACACGTACTCACAACT
1 GTGTAAGTGAATAAAATAAAAAAGTGCAACACTTAACACATACT-ACAACA
*
62591 GTGTAAGTAAATAAAATAAAAAA
1 GTGTAAGTGAATAAAATAAAAAA
62614 ATGTAGTACT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
50 40 0.61
51 26 0.39
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.21
Consensus pattern (50 bp):
GTGTAAGTGAATAAAATAAAAAAGTGCAACACTTAACACATACTACAACA
Found at i:62649 original size:51 final size:50
Alignment explanation
Indices: 62481--62650 Score: 164
Period size: 51 Copynumber: 3.3 Consensus size: 50
62471 CAAACCGCTC
* * * *
62481 CTTACACAGGTGTAAGTGAATAAAACAAAAAAGTGTAACACTTAACACATA
1 CTTACAC-GATGTAAGTAAATAAAATAAAAAAGTGTAGCACTTAACACATA
* * * *
62532 C-TACACCAGTGTAAGTGAATAAAATAAAAAAGTGCAGCACTTAACACGTA
1 CTTACACGA-TGTAAGTAAATAAAATAAAAAAGTGTAGCACTTAACACATA
* * * *
62582 CTCACAACTG-TGTAAGTAAATAAAATAAAAAAATGTAGTACTTAATACATA
1 CTTAC-AC-GATGTAAGTAAATAAAATAAAAAAGTGTAGCACTTAACACATA
*
62633 CTTACATCGATTTAAGTA
1 CTTACA-CGATGTAAGTA
62651 TACAAATCTA
Statistics
Matches: 97, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
50 45 0.46
51 50 0.52
52 2 0.02
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.25
Consensus pattern (50 bp):
CTTACACGATGTAAGTAAATAAAATAAAAAAGTGTAGCACTTAACACATA
Found at i:63733 original size:60 final size:60
Alignment explanation
Indices: 63653--63828 Score: 178
Period size: 60 Copynumber: 2.9 Consensus size: 60
63643 TGAACTATTA
* * * *
63653 AAAAGGTTTGAGGACCAATTTAGGATGAA-GATCATAGTTT-GGGAATAAAAATGAAATGTTC
1 AAAA-GTTTGAGGACTAATTTAGAAT-AATAATCATAGTTTAAGG-ATAAAAATGAAATGTTC
* * *
63714 AAAAGTTTGAGGACTAATTTAGAATAATAATGATAGTTTAAGGATAAAATTGAAATGTTT
1 AAAAGTTTGAGGACTAATTTAGAATAATAATCATAGTTTAAGGATAAAAATGAAATGTTC
* * * * * *
63774 GAAAGTTT-AGGGACTAATTTAGAATAATAGTGATATTTTAAGGATGAAATTGAAA
1 AAAAGTTTGA-GGACTAATTTAGAATAATAATCATAGTTTAAGGATAAAAATGAAA
63829 GTAAAAATCG
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
59 3 0.03
60 92 0.91
61 6 0.06
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (60 bp):
AAAAGTTTGAGGACTAATTTAGAATAATAATCATAGTTTAAGGATAAAAATGAAATGTTC
Found at i:66295 original size:3 final size:3
Alignment explanation
Indices: 66289--66328 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
66279 TCATTTAAAT
** *
66289 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
66329 ATAATTATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:66310 original size:18 final size:18
Alignment explanation
Indices: 66283--66318 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
66273 TTTTTTTCAT
*
66283 TTAAATTTATTATTATTA
1 TTAAAATTATTATTATTA
66301 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
66319 GTATTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:67714 original size:16 final size:17
Alignment explanation
Indices: 67663--67722 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 17
67653 ATAGTTTTAA
67663 TATTATTACTTTTATTT
1 TATTATTACTTTTATTT
* * *
67680 TCTT-TCA-TTTTA-AT
1 TATTATTACTTTTATTT
67694 TATTATTA-TTTTATTT
1 TATTATTACTTTTATTT
67710 TATTATTACTTTT
1 TATTATTACTTTT
67723 GATATATGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 4 0.12
15 12 0.35
16 11 0.32
17 7 0.21
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTATTACTTTTATTT
Found at i:67767 original size:11 final size:11
Alignment explanation
Indices: 67692--67767 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 11
67682 TTTCATTTTA
67692 ATTATTATTATT
1 ATTATT-TTATT
67704 -TTATTTTATT
1 ATTATTTTATT
67714 ATTACTTTTGA-T
1 ATTA-TTTT-ATT
67726 A-TATGTTTAAATT
1 ATTAT-TTT--ATT
* *
67739 ATTATCTTCATG
1 ATTAT-TTTATT
67751 ATTATTTTATT
1 ATTATTTTATT
67762 ATTATT
1 ATTATT
67768 ATTAAAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
10 6 0.12
11 23 0.45
12 14 0.27
13 3 0.06
14 5 0.10
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:68529 original size:18 final size:18
Alignment explanation
Indices: 68484--68530 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
68474 TTTCAAATTA
68484 TTTA-TTTATTTATTATT
1 TTTATTTTATTTATTATT
**
68501 TTTATAATATTTA-TATGT
1 TTTATTTTATTTATTAT-T
68519 TTTATTTTATTT
1 TTTATTTTATTT
68531 GCAATTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTATTTTATTTATTATT
Found at i:68540 original size:15 final size:13
Alignment explanation
Indices: 68520--68557 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
68510 TTTATATGTT
68520 TTATTTTATTTGCAA
1 TTATTTTATTT-C-A
68535 TTATTTTATTTCA
1 TTATTTTATTTCA
68548 TTA-TTTATTT
1 TTATTTTATTT
68558 TTTTTCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 1 0.04
15 11 0.48
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATTTTATTTCA
Found at i:72856 original size:2 final size:2
Alignment explanation
Indices: 72849--72880 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
72839 TTATCCTTTA
72849 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
72881 CCTTTGTTGT
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:73187 original size:8 final size:8
Alignment explanation
Indices: 73174--73224 Score: 68
Period size: 8 Copynumber: 6.4 Consensus size: 8
73164 CTCATCCAAC
*
73174 AAAGAAAG
1 AAAGAAAA
73182 AAAGAAAA
1 AAAGAAAA
73190 AAAGAAATA
1 AAAGAAA-A
73199 AAAGAAAA
1 AAAGAAAA
73207 AAAG-AAA
1 AAAGAAAA
*
73214 AGAGAAAA
1 AAAGAAAA
73222 AAA
1 AAA
73225 ATTGAATCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
7 6 0.16
8 24 0.63
9 8 0.21
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAGAAAA
Found at i:73225 original size:17 final size:17
Alignment explanation
Indices: 73174--73224 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
73164 CTCATCCAAC
73174 AAAG-AAAGAAAGAAAA
1 AAAGAAAAGAAAGAAAA
73190 AAAGAAATA-AAAGAAAA
1 AAAGAAA-AGAAAGAAAA
73207 AAAGAAAAG--AGAAAA
1 AAAGAAAAGAAAGAAAA
73222 AAA
1 AAA
73225 ATTGAATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 9 0.28
16 5 0.16
17 17 0.53
18 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAGAAAAGAAAGAAAA
Found at i:75587 original size:114 final size:115
Alignment explanation
Indices: 75387--75725 Score: 572
Period size: 114 Copynumber: 3.0 Consensus size: 115
75377 TGCCATATTA
75387 CTCATGGTAGAAATAAGGAGGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATGGTAGAAATAAGGAGGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
75452 ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAA-TTTG
66 ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTTTG
75501 CTCATGGTAGAAATAAGGAGGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATGGTAGAAATAAGGAGGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
75566 ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTTTG
66 ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTTTG
* * * *
75616 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTG
1 CTCATGGTAGAAATAAGGAGGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * * * * * *
75681 ATTTGGTAAGAACTACAGAACCAATCATTAGAATTAAAAGATGAA
66 ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAA
75726 CTGCATGATC
Statistics
Matches: 213, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
114 110 0.52
115 103 0.48
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (115 bp):
CTCATGGTAGAAATAAGGAGGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTTTG
Found at i:78039 original size:22 final size:22
Alignment explanation
Indices: 78010--78064 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
78000 ATCTACACTC
78010 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
78032 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
78054 TTCAAAGATGA
1 TTCAAAGATGA
78065 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:78867 original size:76 final size:76
Alignment explanation
Indices: 78741--79766 Score: 1928
Period size: 76 Copynumber: 13.5 Consensus size: 76
78731 CTATTTCTCA
*
78741 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
78806 ATCCTTCGGGT
66 AACCTTCGGGT
78817 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
78882 AACCTTCGGGT
66 AACCTTCGGGT
78893 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
78958 AACCTTCGGGT
66 AACCTTCGGGT
78969 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
79034 AACCTTCGGGT
66 AACCTTCGGGT
79045 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
79110 AAACCTTCGGGT
65 AAACCTTCGGGT
79122 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
79187 AGCCTTCGGGT
66 AACCTTCGGGT
79198 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
79263 AGCCTTCGGGT
66 AACCTTCGGGT
79274 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
79339 AACCTTCGGGT
66 AACCTTCGGGT
79350 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
79415 AACCTTCGGGT
66 AACCTTCGGGT
79426 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
79491 AAACCTTCGGGT
65 AAACCTTCGGGT
79503 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
79568 AGCCTTCGGGT
66 AACCTTCGGGT
79579 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
79644 AGCCTTCGGGT
66 AACCTTCGGGT
*
79655 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATG-TTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
79720 AAGCC-TCAGGGT
65 AAACCTTC-GGGT
*
79732 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
79767 CATTTCCATC
Statistics
Matches: 938, Mismatches: 8, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
76 714 0.76
77 224 0.24
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTCGGGT
Found at i:79195 original size:229 final size:228
Alignment explanation
Indices: 78741--79766 Score: 1928
Period size: 229 Copynumber: 4.5 Consensus size: 228
78731 CTATTTCTCA
*
78741 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
78806 ATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
78871 GATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
78936 GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
196 GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
78969 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
79034 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTT
66 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTT
79099 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
*
79164 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
195 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
79198 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
79263 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
79328 GATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
79393 GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
196 GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
79426 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
79491 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
79556 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
*
79621 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
195 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
*
79655 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATG-TTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* *
79720 AAGCC-TCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
65 AAACCTTC-GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
79767 CATTTCCATC
Statistics
Matches: 783, Mismatches: 11, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
228 259 0.33
229 520 0.66
230 4 0.01
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (228 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
Found at i:79444 original size:381 final size:381
Alignment explanation
Indices: 78741--79766 Score: 1973
Period size: 381 Copynumber: 2.7 Consensus size: 381
78731 CTATTTCTCA
*
78741 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
78806 ATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
78871 GATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
78936 GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
196 GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
79001 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
261 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
79066 ATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
326 ATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
79122 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
79187 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
79252 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
79317 GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
196 GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
79382 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
261 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
79447 ATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
326 ATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
79503 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
79568 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
79633 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAGCCTT
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATG-TTTCCAAAAAGCCTT
*
79698 CGGGAGCTTTTTGATGTTTTCAAAGCC-TCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
195 CGGGAGCTTTTTGATGTTTTCAAAACCTTC-GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
*
79762 TCAAA
259 CCAAA
79767 CATTTCCATC
Statistics
Matches: 637, Mismatches: 6, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
381 559 0.88
382 78 0.12
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (381 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGC
ATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
Found at i:79900 original size:3 final size:3
Alignment explanation
Indices: 79894--79958 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
79884 TCATTTAAAT
** * *
79894 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
79942 TTA TATA TTA TTTA TTA
1 TTA T-TA TTA -TTA TTA
79959 AATATTACAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:81326 original size:16 final size:17
Alignment explanation
Indices: 81275--81334 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 17
81265 ATAGTTTTAA
81275 TATTATTACTTTTATTT
1 TATTATTACTTTTATTT
* * *
81292 TCTT-TCA-TTTTA-AT
1 TATTATTACTTTTATTT
81306 TATTATTA-TTTTATTT
1 TATTATTACTTTTATTT
81322 TATTATTACTTTT
1 TATTATTACTTTT
81335 GATATATGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 4 0.12
15 12 0.35
16 11 0.32
17 7 0.21
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTATTACTTTTATTT
Found at i:81379 original size:11 final size:11
Alignment explanation
Indices: 81304--81379 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 11
81294 TTTCATTTTA
81304 ATTATTATTATT
1 ATTATT-TTATT
81316 -TTATTTTATT
1 ATTATTTTATT
81326 ATTACTTTTGA-T
1 ATTA-TTTT-ATT
81338 A-TATGTTTAAATT
1 ATTAT-TTT--ATT
* *
81351 ATTATCTTCATG
1 ATTAT-TTTATT
81363 ATTATTTTATT
1 ATTATTTTATT
81374 ATTATT
1 ATTATT
81380 ATTAAAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
10 6 0.12
11 23 0.45
12 14 0.27
13 3 0.06
14 5 0.10
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:90692 original size:12 final size:12
Alignment explanation
Indices: 90669--90698 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
90659 TCATATTGGG
90669 GTAACG-TCGTT
1 GTAACGTTCGTT
90680 GTAACGTTCGTT
1 GTAACGTTCGTT
90692 GTAACGT
1 GTAACGT
90699 ATTTTGTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (12 bp):
GTAACGTTCGTT
Found at i:98764 original size:5 final size:5
Alignment explanation
Indices: 98750--98779 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
98740 ATTTTTGTTA
*
98750 ATTTT ATTTT GTTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
98780 TGGTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:100091 original size:45 final size:45
Alignment explanation
Indices: 99992--100256 Score: 300
Period size: 45 Copynumber: 5.8 Consensus size: 45
99982 ATAGCATATT
** ** *
99992 TTTCATGCTTATAATGCATCGTTATGCATTTTCATTTATGATATCA
1 TTTCATGCCGATAATGCATCGTTATGCA-TTTCATTTATGGCATCC
*
100038 TTTCATGCCGATAATGCATCATTATGCATTTCATTTATGGCATCC
1 TTTCATGCCGATAATGCATCGTTATGCATTTCATTTATGGCATCC
*
100083 TTTTATGCCGATAATGCA-CTGTTATGCATTTCATTTATGGCATCC
1 TTTCATGCCGATAATGCATC-GTTATGCATTTCATTTATGGCATCC
* * * *
100128 TTTCATGCCGATAATGCACCGTTATGCATTTCATTTCTGACATCA
1 TTTCATGCCGATAATGCATCGTTATGCATTTCATTTATGGCATCC
* * **
100173 TTTCATGTCGATTATGCA-CTGTTAAACATTTCATTTATGGCATCC
1 TTTCATGCCGATAATGCATC-GTTATGCATTTCATTTATGGCATCC
* * * * *
100218 TTTCGTGCTGATTATGCATTGTTATACATTTTCATTTAT
1 TTTCATGCCGATAATGCATCGTTATGCA-TTTCATTTAT
100257 CTAACTTGCA
Statistics
Matches: 190, Mismatches: 24, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
44 2 0.01
45 152 0.80
46 36 0.19
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (45 bp):
TTTCATGCCGATAATGCATCGTTATGCATTTCATTTATGGCATCC
Found at i:100203 original size:135 final size:137
Alignment explanation
Indices: 99992--100256 Score: 356
Period size: 135 Copynumber: 1.9 Consensus size: 137
99982 ATAGCATATT
** * *
99992 TTTCATGCTTATAATGCATCGTTATGCATTTTCATTTATGATATCATTTCATGCCGATAATGCAT
1 TTTCATGCCGATAATGCACCGTTATGCATTTTCATTTATGACATCATTTCATGCCGATAATGCAT
** * *
100057 CATTATGCATTTCATTTATGGCATCCTTTTATGCCGATAATGCACTGTTATGCA-TTTCATTTAT
66 CATTAAACATTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATACATTTTCATTTAT
100121 GGCATCC
131 GGCATCC
* * *
100128 TTTCATGCCGATAATGCACCGTTATGCA-TTTCATTTCTGACATCATTTCATGTCGATTATGCA-
1 TTTCATGCCGATAATGCACCGTTATGCATTTTCATTTATGACATCATTTCATGCCGATAATGCAT
* * * * *
100191 CTGTTAAACATTTCATTTATGGCATCCTTTCGTGCTGATTATGCATTGTTATACATTTTCATTTA
66 C-ATTAAACATTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATACATTTTCATTTA
100256 T
130 T
100257 CTAACTTGCA
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
134 1 0.01
135 75 0.68
136 35 0.32
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (137 bp):
TTTCATGCCGATAATGCACCGTTATGCATTTTCATTTATGACATCATTTCATGCCGATAATGCAT
CATTAAACATTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATACATTTTCATTTAT
GGCATCC
Found at i:101591 original size:17 final size:17
Alignment explanation
Indices: 101569--101602 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
101559 TTATTTCTAA
101569 ATCATTTATTATTTATT
1 ATCATTTATTATTTATT
101586 ATCATTTATTATTTATT
1 ATCATTTATTATTTATT
101603 CAATTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
ATCATTTATTATTTATT
Found at i:112136 original size:82 final size:82
Alignment explanation
Indices: 111995--112145 Score: 214
Period size: 82 Copynumber: 1.8 Consensus size: 82
111985 GATCGTTCGA
* * *
111995 TCGAGTTAAAAAATTTTGAGTTATTTAAGTTGATGAATTATATTTTACAACTCAAAGTTGACTTG
1 TCGAGTAAAAAAATTTTGAGTTATTTAAGTTGACGAATCATATTTTACAACTCAAAGTTGACTTG
112060 AAATTTTTTTGAGCTAG
66 AAATTTTTTTGAGCTAG
* * * * *
112077 TCGAGTAAAAAAATTTCT-AGTTATTTGAGTTGACGAGTCCTATTTTACAACTCAGAGTTGATTT
1 TCGAGTAAAAAAATTT-TGAGTTATTTAAGTTGACGAATCATATTTTACAACTCAAAGTTGACTT
112141 GAAAT
65 GAAAT
112146 ATTTCGAGTC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
82 59 0.98
83 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (82 bp):
TCGAGTAAAAAAATTTTGAGTTATTTAAGTTGACGAATCATATTTTACAACTCAAAGTTGACTTG
AAATTTTTTTGAGCTAG
Found at i:114019 original size:20 final size:20
Alignment explanation
Indices: 113974--114023 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
113964 AGATGAACAA
113974 TATCGATACTGATTGAAGTAG
1 TATCGATACTGATTGAAG-AG
*
113995 TATCGATACTGATATGGAG-G
1 TATCGATACTGAT-TGAAGAG
114015 TATCGATAC
1 TATCGATAC
114024 CAATTGTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.37
21 13 0.48
22 4 0.15
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (20 bp):
TATCGATACTGATTGAAGAG
Found at i:114670 original size:23 final size:23
Alignment explanation
Indices: 114638--114714 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
114628 GAGTTAAGGG
* *
114638 TTCTACGTGGTCCTTCGGGACAA
1 TTCTATGTGGTCATTCGGGACAA
114661 TTCTATGTGGTCATTCGGGACAA
1 TTCTATGTGGTCATTCGGGACAA
** *
114684 TTCTATGCAGTCATTCGGGATAA
1 TTCTATGTGGTCATTCGGGACAA
*
114707 ATCTATGT
1 TTCTATGT
114715 AGTACTTGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.35
Consensus pattern (23 bp):
TTCTATGTGGTCATTCGGGACAA
Found at i:114734 original size:23 final size:24
Alignment explanation
Indices: 114708--114761 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
114698 TCGGGATAAA
* * *
114708 TCTATGTAGTACTT-GGTGCATAT
1 TCTATGTAGCACTTCAGTGCAAAT
* *
114731 TCTACGTGGCACTTCAGTGCAAAT
1 TCTATGTAGCACTTCAGTGCAAAT
114755 TCTATGT
1 TCTATGT
114762 GACAGTTTCG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (24 bp):
TCTATGTAGCACTTCAGTGCAAAT
Found at i:116331 original size:43 final size:42
Alignment explanation
Indices: 116261--116460 Score: 215
Period size: 43 Copynumber: 4.7 Consensus size: 42
116251 TTTTAACCAA
* * *
116261 AAATGCCGCCATAGGTCAAGATCTATAGCGGCGTTTTTGGAAC
1 AAATGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTCGAAC
* * * *
116304 AAATGCCACAAAATGTCGAGATATATAGCGGCGTTTTTTGAAC
1 AAATGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTCGAAC
* * *
116347 AAACGCCGCAAAAGGTTAGATCTATAGCGGCGTTTGTATCTAA-
1 AAATGCCGCAAAAGGTCAGATCTATAGCGGCGTTT-T-TCGAAC
* *
116390 AAATACCGCAAAAGGTCAGATCTATAGCGGCGTTTGTATCTAA-
1 AAATGCCGCAAAAGGTCAGATCTATAGCGGCGTTT-T-TCGAAC
*
116433 AAATGCTGCAAAAGGTCAGATCTATAGC
1 AAATGCCGCAAAAGGTCAGATCTATAGC
116461 AACGTTTTGG
Statistics
Matches: 136, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
42 17 0.12
43 116 0.85
44 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (42 bp):
AAATGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTCGAAC
Found at i:119546 original size:41 final size:41
Alignment explanation
Indices: 119483--119631 Score: 158
Period size: 41 Copynumber: 3.6 Consensus size: 41
119473 AACGACGACA
* *
119483 TTTGTATAAAAATGCCACTAAAGTACGAGTCTTTAGCGGTG
1 TTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGATG
* * * *
119524 TTTATTTAAAAACGCCGCTAAAGTACGTGTCTTTTA-C-ATTG
1 TTTGTATAAAAACGCCACTAAAGTACGAGTC-TTTAGCGA-TG
* * * *
119565 TTTGTATAAAAATGCCACTAAAGTACTAGTATTTAGCGACG
1 TTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGATG
* *
119606 TTTGTATAAAAACGTCGCTAAAGTAC
1 TTTGTATAAAAACGCCACTAAAGTAC
119632 ACGTCTGGAT
Statistics
Matches: 87, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
40 4 0.05
41 78 0.90
42 5 0.06
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (41 bp):
TTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGATG
Found at i:123612 original size:23 final size:23
Alignment explanation
Indices: 123586--123683 Score: 92
Period size: 23 Copynumber: 4.2 Consensus size: 23
123576 GAATCGAGGG
*
123586 TTCTATGCGGTCCTTCGGTACAA
1 TTCTATGCGGTCATTCGGTACAA
*
123609 TTCTATGTGGTCATTCGAG-ACAA
1 TTCTATGCGGTCATTCG-GTACAA
* *
123632 TTCTACGCGGTCATTCGGGACAA
1 TTCTATGCGGTCATTCGGTACAA
* * *
123655 ATCTATGTGG-CACTTCGGTGCATA
1 TTCTATGCGGTCA-TTCGGTACA-A
123679 TTCTA
1 TTCTA
123684 CGTGGCACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
22 3 0.05
23 52 0.85
24 6 0.10
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (23 bp):
TTCTATGCGGTCATTCGGTACAA
Found at i:123688 original size:24 final size:24
Alignment explanation
Indices: 123630--123712 Score: 100
Period size: 24 Copynumber: 3.5 Consensus size: 24
123620 CATTCGAGAC
*
123630 AATTCTACGCGGTCA-TTCGG-GACA
1 AATTCTACGTGG-CACTTCGGTG-CA
*
123654 AA-TCTATGTGGCACTTCGGTGCA
1 AATTCTACGTGGCACTTCGGTGCA
*
123677 TATTCTACGTGGCACTTCGGTGCA
1 AATTCTACGTGGCACTTCGGTGCA
123701 AATTCTACGTGG
1 AATTCTACGTGG
123713 TAGTTTTGAC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
22 2 0.04
23 15 0.29
24 34 0.67
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (24 bp):
AATTCTACGTGGCACTTCGGTGCA
Found at i:128918 original size:15 final size:15
Alignment explanation
Indices: 128898--128928 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
128888 ATTCGAAGTT
128898 AAATTTGACTTGTCA
1 AAATTTGACTTGTCA
128913 AAATTTGACTTGTCA
1 AAATTTGACTTGTCA
128928 A
1 A
128929 GGGTCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (15 bp):
AAATTTGACTTGTCA
Found at i:129358 original size:20 final size:20
Alignment explanation
Indices: 129333--129387 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
129323 ACTCGTTAAG
129333 GGATGCATCGATACACTATA
1 GGATGCATCGATACACTATA
129353 GGATGCATCGATACACTATA
1 GGATGCATCGATACACTATA
129373 -GAGTGCATCGATACA
1 GGA-TGCATCGATACA
129388 TACCTTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 2 0.06
20 32 0.94
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (20 bp):
GGATGCATCGATACACTATA
Found at i:132788 original size:17 final size:17
Alignment explanation
Indices: 132766--132800 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
132756 CACATACACC
132766 AGTAATCTAAATAGAAT
1 AGTAATCTAAATAGAAT
132783 AGTAATCTAAATAGAAT
1 AGTAATCTAAATAGAAT
132800 A
1 A
132801 TAGTGTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.06, G:0.11, T:0.29
Consensus pattern (17 bp):
AGTAATCTAAATAGAAT
Found at i:141728 original size:12 final size:12
Alignment explanation
Indices: 141665--141729 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
141655 ACGGATTTAT
141665 CAGAAATCAAAA
1 CAGAAATCAAAA
* * *
141677 CAGAATTCAGAT
1 CAGAAATCAAAA
* *
141689 CAGATATCAGAA
1 CAGAAATCAAAA
* *
141701 CAG-AATCTATAT
1 CAGAAATC-AAAA
141713 CAGAAATCAAAA
1 CAGAAATCAAAA
141725 CAGAA
1 CAGAA
141730 TCCAGGTCAG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 3 0.08
12 33 0.82
13 4 0.10
ACGTcount: A:0.54, C:0.17, G:0.12, T:0.17
Consensus pattern (12 bp):
CAGAAATCAAAA
Found at i:141745 original size:24 final size:24
Alignment explanation
Indices: 141663--141745 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 24
141653 AAACGGATTT
* *
141663 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGATATCAAAACAGAATCCAG
* * *
141687 ATCAGATATCAGAACAGAATCTAT
1 ATCAGATATCAAAACAGAATCCAG
*
141711 ATCAGAAATCAAAACAGAATCCAG
1 ATCAGATATCAAAACAGAATCCAG
* *
141735 GTCAGGTATCA
1 ATCAGATATCA
141746 GAACGTAATT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGATATCAAAACAGAATCCAG
Found at i:142936 original size:64 final size:63
Alignment explanation
Indices: 142850--143010 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
142840 ATTGTTTAAG
* * * *
142850 ATGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGA-TT
1 ATGCATCGATGCATAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAAT-GCATTT
142913 T
63 T
* *
142914 ATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTT
1 ATGCATCGATGCATAAGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATGCATTTT
* *
142978 ATGCACCGATGCATAAGTAGTGCATCGATGCAT
1 ATGCATCGATGCATAAGCAGTGCATCGATGCAT
143011 ACATTCATTG
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 2 0.02
64 76 0.88
65 7 0.08
66 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (63 bp):
ATGCATCGATGCATAAGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATGCATTTT
Found at i:143724 original size:30 final size:30
Alignment explanation
Indices: 143688--143751 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
143678 AAGGAACATA
* *
143688 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
143718 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
143748 TGGA
1 TGGA
143752 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:147179 original size:64 final size:63
Alignment explanation
Indices: 147093--147253 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
147083 ATTGTTTAAG
* * * *
147093 ATGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGA-TT
1 ATGCATCGATGCATAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAAT-GCATTT
147156 T
63 T
* *
147157 ATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTT
1 ATGCATCGATGCATAAGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATGCATTTT
* *
147221 ATGCACCGATGCATAAGTAGTGCATCGATGCAT
1 ATGCATCGATGCATAAGCAGTGCATCGATGCAT
147254 ACATTCATTG
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 2 0.02
64 76 0.88
65 7 0.08
66 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (63 bp):
ATGCATCGATGCATAAGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATGCATTTT
Found at i:147968 original size:30 final size:30
Alignment explanation
Indices: 147932--147995 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
147922 AAGGAACATA
* *
147932 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
147962 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
147992 TGGA
1 TGGA
147996 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:152315 original size:10 final size:10
Alignment explanation
Indices: 152296--152329 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
152286 TTCACCACAC
152296 CAAATCCTCT
1 CAAATCCTCT
*
152306 CAAATTCTCT
1 CAAATCCTCT
152316 CAAATCCTCT
1 CAAATCCTCT
152326 CAAA
1 CAAA
152330 AACCAAACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (10 bp):
CAAATCCTCT
Found at i:158036 original size:46 final size:46
Alignment explanation
Indices: 157969--158060 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
157959 TGACAGATTT
*
157969 ATAATTTTCGAATTGGATCTAATAAACCGAAAATCTAACCCAATCC
1 ATAATTTTCGAATTGGATCTAATAAACCGAAAATCCAACCCAATCC
158015 ATAATTTTCGAATTGGATCTAATAAACCGAAAATCCAACCCAATCC
1 ATAATTTTCGAATTGGATCTAATAAACCGAAAATCCAACCCAATCC
158061 GATCTATTAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (46 bp):
ATAATTTTCGAATTGGATCTAATAAACCGAAAATCCAACCCAATCC
Found at i:158223 original size:9 final size:9
Alignment explanation
Indices: 158209--158242 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
158199 CAGACGGGAG
158209 AAAAAAATT
1 AAAAAAATT
158218 AAAAAAATT
1 AAAAAAATT
158227 -AAAAAATT
1 AAAAAAATT
158235 AAAAAAAT
1 AAAAAAAT
158243 AAATTAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAAAATT
Found at i:158230 original size:7 final size:8
Alignment explanation
Indices: 158210--158245 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
158200 AGACGGGAGA
158210 AAAAAATT
1 AAAAAATT
158218 AAAAAAATT
1 -AAAAAATT
158227 AAAAAATT
1 AAAAAATT
*
158235 AAAAAAAT
1 AAAAAATT
158243 AAA
1 AAA
158246 TTAGAATAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (8 bp):
AAAAAATT
Found at i:158232 original size:17 final size:17
Alignment explanation
Indices: 158210--158242 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
158200 AGACGGGAGA
158210 AAAAAATTAAAAAAATT
1 AAAAAATTAAAAAAATT
158227 AAAAAATTAAAAAAAT
1 AAAAAATTAAAAAAAT
158243 AAATTAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAATTAAAAAAATT
Found at i:160952 original size:17 final size:17
Alignment explanation
Indices: 160908--160955 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
160898 TCCTAAACGA
160908 GTTTTGGGCCT-GCTGG
1 GTTTTGGGCCTGGCTGG
**
160924 GTTATCTGGGCCTGGCTTT
1 GTT-T-TGGGCCTGGCTGG
160943 GTTTTGGGCCTGG
1 GTTTTGGGCCTGG
160956 ATCGGGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 3 0.11
17 10 0.37
18 8 0.30
19 6 0.22
ACGTcount: A:0.02, C:0.19, G:0.40, T:0.40
Consensus pattern (17 bp):
GTTTTGGGCCTGGCTGG
Found at i:161025 original size:3 final size:3
Alignment explanation
Indices: 161019--161048 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
161009 GTATTATTTG
161019 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
161049 ATATGTAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:164854 original size:29 final size:29
Alignment explanation
Indices: 164812--164895 Score: 143
Period size: 29 Copynumber: 2.9 Consensus size: 29
164802 TTTAATGTTA
*
164812 GGAT-AATTTAAATTTATAAAATTTTAAG
1 GGATAAATTTGAATTTATAAAATTTTAAG
164840 GGATAAATTTGAATTTATAAAATTTTAAG
1 GGATAAATTTGAATTTATAAAATTTTAAG
*
164869 AGATAAATTTGAATTTATAAAATTTTA
1 GGATAAATTTGAATTTATAAAATTTTA
164896 GAGGTTACAA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
28 4 0.08
29 49 0.92
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (29 bp):
GGATAAATTTGAATTTATAAAATTTTAAG
Found at i:164888 original size:14 final size:14
Alignment explanation
Indices: 164842--164889 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
164832 ATTTTAAGGG
164842 ATAAATTTGAATTT
1 ATAAATTTGAATTT
* ***
164856 ATAAAATTTTAAGAG
1 AT-AAATTTGAATTT
164871 ATAAATTTGAATTT
1 ATAAATTTGAATTT
164885 ATAAA
1 ATAAA
164890 ATTTTAGAGG
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (14 bp):
ATAAATTTGAATTT
Found at i:164891 original size:15 final size:15
Alignment explanation
Indices: 164816--164893 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 15
164806 ATGTTAGGAT
*
164816 AATTTAAATTTATAA
1 AATTTGAATTTATAA
* ***
164831 AATTTTAAGGGAT-A
1 AATTTGAATTTATAA
164845 AATTTGAATTTATAA
1 AATTTGAATTTATAA
* ***
164860 AATTTTAAGAGAT-A
1 AATTTGAATTTATAA
164874 AATTTGAATTTATAA
1 AATTTGAATTTATAA
164889 AATTT
1 AATTT
164894 TAGAGGTTAC
Statistics
Matches: 45, Mismatches: 16, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
14 20 0.44
15 25 0.56
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (15 bp):
AATTTGAATTTATAA
Found at i:165085 original size:20 final size:19
Alignment explanation
Indices: 165053--165097 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
165043 ACTCATAAAT
*
165053 ATTTCAAATTTTTTTATATA
1 ATTT-AAATTTTTGTATATA
*
165073 ATTTAAATATTTTGTATATT
1 ATTTAAAT-TTTTGTATATA
165093 ATTTA
1 ATTTA
165098 TTGATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTAAATTTTTGTATATA
Found at i:166618 original size:14 final size:14
Alignment explanation
Indices: 166599--166631 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
166589 ATTTCTATGT
*
166599 AGGGAATTATTTGC
1 AGGGAATTATTTAC
166613 AGGGAATTATTTAC
1 AGGGAATTATTTAC
166627 AGGGA
1 AGGGA
166632 TTACTCCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (14 bp):
AGGGAATTATTTAC
Found at i:171661 original size:149 final size:146
Alignment explanation
Indices: 171383--172372 Score: 1021
Period size: 149 Copynumber: 6.9 Consensus size: 146
171373 CCTAAATCAT
*
171383 TTTATTTCACCCGGCCTACTCCACACGTTA-AGGCGCTCGGCGTAAGATCAGGTCATCCTGCCTA
1 TTTATTTCACCCGGCCTACTCCACACGTTAGA-GCGCTCGGCGTAAGACCAGGTCATCCTGCCTA
* * * *
171447 CTCCCCTCTGGAAGCGCTCGGTATGAACTCTGTCTACCCTGCCTACCCCACACGTTGAGGCGCTC
65 CTCCCCTCTGGAAGCGCTCGGCATGAACTCTGTCT-CCCTGCCTACTCTACACGTTGAAGCGCTC
* * * *
171512 GACCTGATATTAAAGCGCA
129 GGCGTGACATT-AAGCACA
* *
171531 TTATATTTCACCCGACCTACTCCACACGTTAGGGCGCTCGGCGTAAGACCAGGTCATCCTGCCTA
1 TT-TATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTA
* * * * *
171596 CTCCCCTCTAGAAGCGCTAGGCATGAACTCTGTCTACCCTGCTTACCCTACACGTTG-AGATGCT
65 CTCCCCTCTGGAAGCGCTCGGCATGAACTCTGTCT-CCCTGCCTACTCTACACGTTGAAG-CGCT
171660 CGGCGTGA-A-T-----C-
128 CGGCGTGACATTAAGCACA
** * * * *
171671 TGGGA---CACCCTGCCTACTCCATACGTTAGAGCGCTCGACGTAAGATCAGGTCATCCTGCCTA
1 T-TTATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTA
* *
171733 CTCCCCTTTGGAAGCGCTCGGCATGCACTCTGTCTCCTCTGCCTACTCT-CAACGTTGAAGCGCT
65 CTCCCCTCTGGAAGCGCTCGGCATGAACTCTGTCTCC-CTGCCTACTCTAC-ACGTTGAAGCGCT
171797 CGGCGTGACATTAAGGCACA
128 CGGCGTGACATTAA-GCACA
171817 TCTTATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTA
1 T-TTATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTA
* * *
171882 CTCCCCTCTGGAAGCGCTCGGCATGTACTCTGTCTCCTCTGCCTACTCTAAACATTGAAGCGCTC
65 CTCCCCTCTGGAAGCGCTCGGCATGAACTCTGTCTCC-CTGCCTACTCTACACGTTGAAGCGCTC
171947 GGCGTGACATTAAGGCACA
129 GGCGTGACATTAA-GCACA
*
171966 TCTTGTTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTA
1 T-TTATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTA
* * * *
172031 CTCCCCTCTGGAAGCGCTCGGCATGTACTATGTCCCCCCTGCCTACTCT-CAACGTTGAAGTGCT
65 CTCCCCTCTGGAAGCGCTCGGCATGAACTCTGT-CTCCCTGCCTACTCTAC-ACGTTGAAGCGCT
172095 CGGCGTG--A-T------A
128 CGGCGTGACATTAAGCACA
** * * * *
172105 -TTATAACACCCTGCCTACTCCACACGTTAGAGCGCCCGGCGTAAGATCAAGTCATCCTGCCTAC
1 TTTATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTAC
* * * * *
172169 TCCCCACTGGAAGCGCTCGGCATGAACTCTATCCCCCTTCCAACTCTTA-ACAG-TGAAGCGCTC
66 TCCCCTCTGGAAGCGCTCGGCATGAACTCTGTCTCCCTGCCTACTC-TACAC-GTTGAAGCGCTC
* * *
172232 GGCGTGAAAAT-AG--GA
129 GGCGTGACATTAAGCACA
* * * * * * *
172247 ---A--T-ACCCTGCCTACCCCATACATTAGAGCGCCCGGCGTAAGATCAGGTCATCCGGCCTAC
1 TTTATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTAC
* * * *
172306 T-CCCTACTGGAAGCGCTCGGCATGAACTCTGTCCCCCTTCCAACTCTTA-ATGTTGAAGCGCTC
66 TCCCCT-CTGGAAGCGCTCGGCATGAACTCTGTCTCCCTGCCTACTC-TACACGTTGAAGCGCTC
172369 GGCG
129 GGCG
172373 AAATTCCTTA
Statistics
Matches: 742, Mismatches: 67, Indels: 77
0.84 0.08 0.09
Matches are distributed among these distances:
136 36 0.05
137 305 0.41
138 4 0.01
139 3 0.00
140 3 0.00
141 1 0.00
142 1 0.00
145 1 0.00
146 3 0.00
147 2 0.00
148 4 0.01
149 376 0.51
150 3 0.00
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.24
Consensus pattern (146 bp):
TTTATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTAC
TCCCCTCTGGAAGCGCTCGGCATGAACTCTGTCTCCCTGCCTACTCTACACGTTGAAGCGCTCGG
CGTGACATTAAGCACA
Found at i:171788 original size:137 final size:138
Alignment explanation
Indices: 171546--172372 Score: 925
Period size: 137 Copynumber: 5.9 Consensus size: 138
171536 TTTCACCCGA
* *
171546 CCTACTCCACACGTTAGGGCGCTCGGCGTAAGACCAGGTCATCCTGCCTACTCCCCTCTAGAAGC
1 CCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTACTCCCCTCTGGAAGC
* * * * *
171611 GCTAGGCATGAACTCTGTCTACCCTGCTTACCCT-ACACGTTG-AGATGCTCGGCGTGA-ATCT-
66 GCTCGGCATGAACTCTGTCTCCCCTGCCTACTCTCA-ACGTTGAAG-CGCTCGGCGTGACAT-TA
*
171672 GGGACACCCTG
128 GGAACACCCTG
* * * *
171683 CCTACTCCATACGTTAGAGCGCTCGACGTAAGATCAGGTCATCCTGCCTACTCCCCTTTGGAAGC
1 CCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTACTCCCCTCTGGAAGC
* *
171748 GCTCGGCATGCACTCTGTCTCCTCTGCCTACTCTCAACGTTGAAGCGCTCGGCGTGACATTAAGG
66 GCTCGGCATGAACTCTGTCTCCCCTGCCTACTCTCAACGTTGAAGCGCTCGGCGTGACATT-AGG
*
171813 CACATCTTATTTCACCCGG
130 ---A----A---CACCCTG
171832 CCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTACTCCCCTCTGGAAGC
1 CCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTACTCCCCTCTGGAAGC
* * * *
171897 GCTCGGCATGTACTCTGTCTCCTCTGCCTACTCTAAACATTGAAGCGCTCGGCGTGACATTAAGG
66 GCTCGGCATGAACTCTGTCTCCCCTGCCTACTCTCAACGTTGAAGCGCTCGGCGTGACATT-AGG
*
171962 CACATCTTGTTTCACCCGG
130 -A-A--------CACCCTG
171981 CCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTACTCCCCTCTGGAAGC
1 CCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTACTCCCCTCTGGAAGC
* * * * * *
172046 GCTCGGCATGTACTATGTCCCCCCTGCCTACTCTCAACGTTGAAGTGCTCGGCGTGATATTA-TA
66 GCTCGGCATGAACTCTGTCTCCCCTGCCTACTCTCAACGTTGAAGCGCTCGGCGTGACATTAGGA
172110 ACACCCTG
131 ACACCCTG
* * * *
172118 CCTACTCCACACGTTAGAGCGCCCGGCGTAAGATCAAGTCATCCTGCCTACTCCCCACTGGAAGC
1 CCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTACTCCCCTCTGGAAGC
* * * * * *
172183 GCTCGGCATGAACTCTATC-CCCCTTCCAACTCTTAACAG-TGAAGCGCTCGGCGTGAAAATAGG
66 GCTCGGCATGAACTCTGTCTCCCCTGCCTACTCTCAAC-GTTGAAGCGCTCGGCGTGACATTAGG
*
172246 AATACCCTG
130 AACACCCTG
* * * * * *
172255 CCTACCCCATACATTAGAGCGCCCGGCGTAAGATCAGGTCATCCGGCCTACT-CCCTACTGGAAG
1 CCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTACTCCCCT-CTGGAAG
* * * *
172319 CGCTCGGCATGAACTCTGTC-CCCCTTCCAACTCTTAATGTTGAAGCGCTCGGCG
65 CGCTCGGCATGAACTCTGTCTCCCCTGCCTACTCTCAACGTTGAAGCGCTCGGCG
172373 AAATTCCTTA
Statistics
Matches: 611, Mismatches: 55, Indels: 48
0.86 0.08 0.07
Matches are distributed among these distances:
136 38 0.06
137 301 0.49
138 5 0.01
139 2 0.00
144 1 0.00
145 1 0.00
146 2 0.00
147 2 0.00
148 1 0.00
149 258 0.42
ACGTcount: A:0.21, C:0.34, G:0.22, T:0.23
Consensus pattern (138 bp):
CCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTACTCCCCTCTGGAAGC
GCTCGGCATGAACTCTGTCTCCCCTGCCTACTCTCAACGTTGAAGCGCTCGGCGTGACATTAGGA
ACACCCTG
Found at i:171914 original size:286 final size:280
Alignment explanation
Indices: 171390--172372 Score: 1105
Period size: 286 Copynumber: 3.5 Consensus size: 280
171380 CATTTTATTT
171390 CACCCGGCCTACTCCACACGTTA-AGGCGCTCGGCGTAAGATCAGGTCATCCTGCCTACTCCCCT
1 CACCCGGCCTACTCCACACGTTAGA-GCGCTCGGCGTAAGATCAGGTCATCCTGCCTACTCCCCT
* * * * * *
171454 CTGGAAGCGCTCGGTATGAACTCTGTCTACCCTGCCTAC-CCCACACGTTGAGGCGCTCGACCTG
65 CTGGAAGCGCTCGGCATGAACTCTGTCTCCCCTGCCTACTCTCA-ACGTTGAAGCGCTCGGCGTG
* *
171518 ATATTAAAGCGCATTATATTTCACCCGACCTACTCCACACGTTAGGGCGCTCGGCGTAAGACCAG
129 A-ATT-AAGC-CATT-TATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAG
* * *
171583 GTCATCCTGCCTACTCCCCTCTAGAAGCGCTAGGCATGAACTCTGTCTACCCTGCTTACCCTACA
190 GTCATCCTGCCTACTCCCCTCTGGAAGCGCTCGGCATGAACTCTGTCT-CCCTGCCTACCCTA-A
*
171648 CGTTG-AGATGCTCGGCGTGAATCT-GGGA
253 CGTTGAAG-CGCTCGGCGTGAAT-TAGGGA
* * * *
171676 CACCCTGCCTACTCCATACGTTAGAGCGCTCGACGTAAGATCAGGTCATCCTGCCTACTCCCCTT
1 CACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGATCAGGTCATCCTGCCTACTCCCCTC
* *
171741 TGGAAGCGCTCGGCATGCACTCTGTCTCCTCTGCCTACTCTCAACGTTGAAGCGCTCGGCGTGAC
66 TGGAAGCGCTCGGCATGAACTCTGTCTCCCCTGCCTACTCTCAACGTTGAAGCGCTCGGCGTGA-
171806 ATTAAGGCACATCTTATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGT
130 ATTAA-GC-CAT-TTATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGT
* * *
171871 CATCCTGCCTACTCCCCTCTGGAAGCGCTCGGCATGTACTCTGTCTCCTCTGCCTACTCTAAACA
192 CATCCTGCCTACTCCCCTCTGGAAGCGCTCGGCATGAACTCTGTCTCC-CTGCCTACCCT-AACG
*
171936 TTGAAGCGCTCGGCGTGACATTAAGGCACATCTTGTTT
255 TTGAAGCGCTCGGCGTGA-ATT-AGG--------G--A
*
171974 CACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATCCTGCCTACTCCCCTC
1 CACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGATCAGGTCATCCTGCCTACTCCCCTC
* * * *
172039 TGGAAGCGCTCGGCATGTACTATGTCCCCCCTGCCTACTCTCAACGTTGAAGTGCTCGGCGTG-A
66 TGGAAGCGCTCGGCATGAACTCTGTCTCCCCTGCCTACTCTCAACGTTGAAGCGCTCGGCGTGAA
** * * * *
172103 -T-----A-TTATAACACCCTGCCTACTCCACACGTTAGAGCGCCCGGCGTAAGATCAAGTCATC
131 TTAAGCCATTTATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATC
* * * * * *
172161 CTGCCTACTCCCCACTGGAAGCGCTCGGCATGAACTCTATCCCCCTTCCAACTCTTAACAG-TGA
196 CTGCCTACTCCCCTCTGGAAGCGCTCGGCATGAACTCTGTCTCCCTGCCTAC-CCTAAC-GTTGA
* *
172225 AGCGCTCGGCGTGAAAATAGGAA
259 AGCGCTCGGCGTG-AATTAGGGA
* * * * * * *
172248 TACCCTGCCTACCCCATACATTAGAGCGCCCGGCGTAAGATCAGGTCATCCGGCCTACT-CCCTA
1 CACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGATCAGGTCATCCTGCCTACTCCCCT-
* * * *
172312 CTGGAAGCGCTCGGCATGAACTCTGTC-CCCCTTCCAACTCTTAATGTTGAAGCGCTCGGCG
65 CTGGAAGCGCTCGGCATGAACTCTGTCTCCCCTGCCTACTCTCAACGTTGAAGCGCTCGGCG
172373 AAATTCCTTA
Statistics
Matches: 606, Mismatches: 67, Indels: 61
0.83 0.09 0.08
Matches are distributed among these distances:
273 33 0.05
274 76 0.13
284 3 0.00
285 31 0.05
286 329 0.54
287 10 0.02
288 3 0.00
295 1 0.00
296 2 0.00
298 118 0.19
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.23
Consensus pattern (280 bp):
CACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGATCAGGTCATCCTGCCTACTCCCCTC
TGGAAGCGCTCGGCATGAACTCTGTCTCCCCTGCCTACTCTCAACGTTGAAGCGCTCGGCGTGAA
TTAAGCCATTTATTTCACCCGGCCTACTCCACACGTTAGAGCGCTCGGCGTAAGACCAGGTCATC
CTGCCTACTCCCCTCTGGAAGCGCTCGGCATGAACTCTGTCTCCCTGCCTACCCTAACGTTGAAG
CGCTCGGCGTGAATTAGGGA
Found at i:176523 original size:374 final size:378
Alignment explanation
Indices: 175812--176574 Score: 1140
Period size: 374 Copynumber: 2.0 Consensus size: 378
175802 AATCAGGCTT
* *
175812 GACGAGTCCCTTCCGCCCCCCTTCAAACACTGTGTTTTGTCTCCACTGTACTGATCTCGAGTTTT
1 GACGAGTCCCTTCCGACCCCCTTCAAACACTGTGTTTTGTCTCCACTGTACTGATCCCGAGTTTT
* * * * *
175877 GCAGGTGGATTTTCTTGCAAACAGCATCTCCAGATCTTGAGCTTGTGCTTGCCTTATCAAGCTCA
66 GCAGGTGGACTTCCTTGAAAACAGCATCGCCAGATCTTGAGCTTGTGCTTGCCTTATCAAGCTAA
* * **
175942 TTTGTCATAGCACTGACCCAATCAAGAAGAACCGGCTTCGATAGAGCTTTTCCCTCTTTCTTTTT
131 TTTGTCATAGCACTGAACCAATCAAGAAAAACCGGCTT--AT--AG---TTCCCTCTTTCTTCCT
* * *
176007 TATTTTAGATCCCTTCTTAGTCGACCCTTTCGCTGCTATAAGTGTTTTTGGAACAATTTTTGAGT
189 TATTTTAGATCCCTTCTTAGTCGACCCTTTCGCTACTAGAAGTGTTTTTGGAACAATTTTTAAGT
* *
176072 TCCCTCCCTGATTACATCTCAATGGAGGCCTCCCAATACTATCTTTCAAGGCTAATCTGCAGTCA
254 TCCCTCCCTGATTACATCTCAATGGAGGCCTCCCAATACTATCCTTCAAGGCTAATCCGCAGTCA
* * *
176137 TCATCCGAAATTTGAATAACAGCGTGGTTTTCACCGTTCGCATGAGAACGCACTTGCACA
319 TCATCCGAAATTTGAATAACAACGTGGTTTCCACCATTCGCATGAGAACGCACTTGCACA
* *
176197 GACGAGTCCTTTCCGACCCCTTTCAAACACTGTGTTTTGTCTCCACTGTACTGATCCCGAGTTTT
1 GACGAGTCCCTTCCGACCCCCTTCAAACACTGTGTTTTGTCTCCACTGTACTGATCCCGAGTTTT
* *
176262 GCTGGTGGACTTCCTTGAAAACAGCATCGCCAGTTCTTGAGCTTGTGCTTGCCTTATCAAGCTAA
66 GCAGGTGGACTTCCTTGAAAACAGCATCGCCAGATCTTGAGCTTGTGCTTGCCTTATCAAGCTAA
176327 TTTGAT-ATAGCACTGAACCAATCAAGAAAAACCGGCTT-T-G-T-CCTCTTTCTTCCTTATTTT
131 TTTG-TCATAGCACTGAACCAATCAAGAAAAACCGGCTTATAGTTCCCTCTTTCTTCCTTATTTT
* **
176387 AGATCCCTTTTTAGTCGACCCTTTCGCTACTAGAAGTGTTTTTGGAACAATTTTTAAGTTTTCTC
195 AGATCCCTTCTTAGTCGACCCTTTCGCTACTAGAAGTGTTTTTGGAACAATTTTTAAGTTCCCTC
* * * * *
176452 CCTGATTAGATCTCAATGGAGGTCTCCCATTACTATCCTTCAAGGCTAATCCGCGGTCATCATCT
260 CCTGATTACATCTCAATGGAGGCCTCCCAATACTATCCTTCAAGGCTAATCCGCAGTCATCATCC
176517 GAAATTTGAATAACAACGTGGTTTCCACCATTCGCATGAGAACGCACTTGCACA
325 GAAATTTGAATAACAACGTGGTTTCCACCATTCGCATGAGAACGCACTTGCACA
176571 GACG
1 GACG
176575 TCTCTTTTGA
Statistics
Matches: 346, Mismatches: 31, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
374 189 0.55
375 1 0.00
379 1 0.00
382 1 0.00
385 153 0.44
386 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (378 bp):
GACGAGTCCCTTCCGACCCCCTTCAAACACTGTGTTTTGTCTCCACTGTACTGATCCCGAGTTTT
GCAGGTGGACTTCCTTGAAAACAGCATCGCCAGATCTTGAGCTTGTGCTTGCCTTATCAAGCTAA
TTTGTCATAGCACTGAACCAATCAAGAAAAACCGGCTTATAGTTCCCTCTTTCTTCCTTATTTTA
GATCCCTTCTTAGTCGACCCTTTCGCTACTAGAAGTGTTTTTGGAACAATTTTTAAGTTCCCTCC
CTGATTACATCTCAATGGAGGCCTCCCAATACTATCCTTCAAGGCTAATCCGCAGTCATCATCCG
AAATTTGAATAACAACGTGGTTTCCACCATTCGCATGAGAACGCACTTGCACA
Found at i:178842 original size:43 final size:42
Alignment explanation
Indices: 178765--178847 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 42
178755 ATAAAATAAT
*
178765 AATTAATAATTGATAATTTAGTATTTTTAATTATTTATTAGAA
1 AATTAATAATTAATAATTTAGTATTTTT-ATTATTTATTAGAA
178808 AATTAATAGATTAATAATTTA-TCATCTTTT-TTATTTATTA
1 AATTAATA-ATTAATAATTTAGT-AT-TTTTATTATTTATTA
178848 AATTAGTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
43 19 0.53
44 13 0.36
45 4 0.11
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (42 bp):
AATTAATAATTAATAATTTAGTATTTTTATTATTTATTAGAA
Found at i:183815 original size:21 final size:20
Alignment explanation
Indices: 183778--183816 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
183768 GACTGTGGTG
*
183778 TTTCTGATTTAATAAAAATA
1 TTTCTGATTTAAGAAAAATA
*
183798 TTTCTTGATTTTAGAAAAA
1 TTTC-TGATTTAAGAAAAA
183817 GATAGAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (20 bp):
TTTCTGATTTAAGAAAAATA
Found at i:186631 original size:8 final size:8
Alignment explanation
Indices: 186618--186668 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
186608 ATAAATTCGC
186618 TAAAAAAA
1 TAAAAAAA
186626 TAAAAAAAA
1 T-AAAAAAA
186635 TAAAAACAA
1 TAAAAA-AA
*
186644 -AAATAAA
1 TAAAAAAA
*
186651 -AAAATAA
1 TAAAAAAA
186658 TAAAAAAA
1 TAAAAAAA
186666 TAA
1 TAA
186669 CGAAATGGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 7 0.19
8 19 0.53
9 10 0.28
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (8 bp):
TAAAAAAA
Found at i:186645 original size:12 final size:11
Alignment explanation
Indices: 186619--186665 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
186609 TAAATTCGCT
186619 AAAAAAAT--A
1 AAAAAAATAAA
186628 AAAAAAATAAA
1 AAAAAAATAAA
186639 AACAAAAATAAA
1 AA-AAAAATAAA
*
186651 AAAATAATAAA
1 AAAAAAATAAA
186662 AAAA
1 AAAA
186666 TAACGAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
9 8 0.24
11 15 0.44
12 11 0.32
ACGTcount: A:0.87, C:0.02, G:0.00, T:0.11
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:186653 original size:23 final size:23
Alignment explanation
Indices: 186619--186663 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
186609 TAAATTCGCT
186619 AAAAAAATAAAAAAAATAAAAAC
1 AAAAAAATAAAAAAAATAAAAAC
*
186642 AAAAATAA-AAAAATAATAAAAA
1 AAAAA-AATAAAAAAAATAAAAA
186664 AATAACGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.87, C:0.02, G:0.00, T:0.11
Consensus pattern (23 bp):
AAAAAAATAAAAAAAATAAAAAC
Found at i:186664 original size:11 final size:11
Alignment explanation
Indices: 186618--186668 Score: 65
Period size: 10 Copynumber: 5.0 Consensus size: 11
186608 ATAAATTCGC
186618 TAAAAAAAT-A
1 TAAAAAAATAA
186628 -AAAAAAATAA
1 TAAAAAAATAA
*
186638 -AAACAAA-AA
1 TAAAAAAATAA
186647 TAAAAAAATAA
1 TAAAAAAATAA
186658 TAAAAAAATAA
1 TAAAAAAATAA
186669 CGAAATGGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
9 10 0.28
10 13 0.36
11 13 0.36
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (11 bp):
TAAAAAAATAA
Found at i:203284 original size:20 final size:21
Alignment explanation
Indices: 203259--203351 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
203249 TTTTCCCAAT
*
203259 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
** **
203279 TCGCAACACGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
203300 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
203320 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
203341 TCGCAATGCGA
1 TCGCAATGCGA
203352 TACTGACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.46
21 30 0.54
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:203365 original size:20 final size:20
Alignment explanation
Indices: 203340--203434 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
203330 AATTGGGAAA
*
203340 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
203360 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* * *
203381 ATCACAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
203401 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
203421 TTCGCAACGCGATA
1 ATCGCAACGCGATA
203435 ATACATAATC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
20 46 0.78
21 13 0.22
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:203366 original size:41 final size:41
Alignment explanation
Indices: 203259--203351 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
203249 TTTTCCCAAT
*
203259 TCGCAATGCGAATAAGTAAATCGCAACACGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
203300 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
203341 TCGCAATGCGA
1 TCGCAATGCGA
203352 TACTGACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:203650 original size:22 final size:22
Alignment explanation
Indices: 203622--203663 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
203612 CACTCTCTCA
203622 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
203644 CCCATCTCCGGCGAAATCCG
1 CCCATCTCCGACGAAATCCG
203664 ACTATCTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.45, G:0.17, T:0.17
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:203954 original size:20 final size:20
Alignment explanation
Indices: 203929--203966 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
203919 CGATTCTCTC
203929 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
203949 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
203967 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:205307 original size:18 final size:18
Alignment explanation
Indices: 205286--205330 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
205276 TCCACTTCGG
*
205286 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
205304 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
205322 GAGCCATCA
1 GAGCCATCA
205331 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:205837 original size:20 final size:20
Alignment explanation
Indices: 205812--205857 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
205802 TAGTTTACTT
205812 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
205832 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
205852 TCGCAA
1 TCGCAA
205858 TGCGAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:205886 original size:14 final size:14
Alignment explanation
Indices: 205866--205924 Score: 73
Period size: 14 Copynumber: 3.9 Consensus size: 14
205856 AATGCGAAAT
205866 AAAAATCGCAACGA
1 AAAAATCGCAACGA
*
205880 CAAAATCGCAATGCGA
1 AAAAATCGCAA--CGA
205896 AATGAAATCGCAACGA
1 AA--AAATCGCAACGA
205912 AAAAATCGCAACG
1 AAAAATCGCAACG
205925 CGAAATGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 21 0.54
16 9 0.23
18 9 0.23
ACGTcount: A:0.51, C:0.22, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAAATCGCAACGA
Found at i:205909 original size:32 final size:32
Alignment explanation
Indices: 205851--205941 Score: 137
Period size: 32 Copynumber: 2.8 Consensus size: 32
205841 GGAAATGGCT
* *
205851 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
1 ATCGCAATGCGAAAT-GAAATCGCAACGAAAAA
205884 ATCGCAATGCGAAATGAAATCGCAACGAAAAA
1 ATCGCAATGCGAAATGAAATCGCAACGAAAAA
*
205916 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATG-AAATCGCAA
205942 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.12
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGAAAAA
Found at i:205977 original size:14 final size:14
Alignment explanation
Indices: 205958--206015 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
205948 TTGTGTTTCG
205958 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
205972 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
205988 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
206004 CGTTGCGATTTT
1 CGTTGCGATTTT
206016 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:205992 original size:32 final size:33
Alignment explanation
Indices: 205953--206031 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
205943 GCGATTTGTG
205953 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
205985 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
206018 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
206032 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:206030 original size:19 final size:19
Alignment explanation
Indices: 205972--206073 Score: 90
Period size: 19 Copynumber: 5.6 Consensus size: 19
205962 GCGATTTTGT
205972 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
205990 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
206004 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
206023 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
206043 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
206062 CGTTGCGATTTT
1 CGTTGCGATTTT
206074 AAGTTTCGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
14 8 0.12
15 3 0.04
16 2 0.03
17 2 0.03
18 11 0.16
19 25 0.37
20 17 0.25
ACGTcount: A:0.13, C:0.22, G:0.24, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:206050 original size:20 final size:19
Alignment explanation
Indices: 206016--206070 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
206006 TTGCGATTTT
*
206016 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
206035 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
206055 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
206071 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:207954 original size:14 final size:14
Alignment explanation
Indices: 207935--207970 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
207925 ATTGTTTAAT
207935 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
207949 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
207963 TGATTTGT
1 TGATTTGT
207971 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:208097 original size:14 final size:14
Alignment explanation
Indices: 208078--208128 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 14
208068 GAAAATGGTT
208078 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
208092 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
208111 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
208125 ATCG
1 ATCG
208129 TAATGCGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 15 0.47
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.34
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.12
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:208124 original size:19 final size:19
Alignment explanation
Indices: 208088--208124 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
208078 ATCGCAACGA
* *
208088 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAACGAGAAAT
208107 GAAAATCGCAACGAGAAA
1 GAAAATCGCAACGAGAAA
208125 ATCGTAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.11
Consensus pattern (19 bp):
GAAAATCGCAACGAGAAAT
Found at i:208212 original size:20 final size:20
Alignment explanation
Indices: 208155--208212 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
208145 TCGCATTGCG
* *
208155 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
208175 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
208195 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
208213 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:209299 original size:24 final size:24
Alignment explanation
Indices: 209272--209325 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
209262 GTATTCGAAA
* * *
209272 TTTGATCTTGGTCAATTCCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
209296 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
209320 TTTGAT
1 TTTGAT
209326 GATGTTTCAG
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:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:209517 original size:12 final size:12
Alignment explanation
Indices: 209500--209524 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
209490 ATATAATCCT
209500 GAAGAAGAAAAA
1 GAAGAAGAAAAA
209512 GAAGAAGAAAAA
1 GAAGAAGAAAAA
209524 G
1 G
209525 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:211838 original size:19 final size:19
Alignment explanation
Indices: 211816--211880 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
211806 GGAAATTACT
211816 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
211835 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
211849 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
211868 ATCGCAACGCGAA
1 ATCGCAATGCGAA
211881 TTTAATTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 9 0.25
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:211839 original size:39 final size:33
Alignment explanation
Indices: 211816--211878 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
211806 GGAAATTACT
*
211816 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGGGA
211849 ATCGCAATGCGAAATGAAAATCGCAACGCG
1 ATCGCAATGCGAAATGAAAATCGCAACGCG
211879 AATTTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGGGA
Done.