Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008827.1 Hibiscus syriacus cultivar Beakdansim tig00112004_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: 210864
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:149 original size:29 final size:29
Alignment explanation
Indices: 116--186 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
106 TTCCATATTA
**
116 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* *
145 TACATGACATGAATTCATCTTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
174 TAC-TGACATGAAT
1 TACATGACATGAAT
187 ATGCAGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
28 10 0.26
29 28 0.74
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:544 original size:22 final size:22
Alignment explanation
Indices: 470--536 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
460 TTATGGACAA
470 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
492 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
514 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
536 A
1 A
537 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:1793 original size:21 final size:21
Alignment explanation
Indices: 1743--1802 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
1733 GCCGTTGCAG
* *
1743 CCTTCATGCATGGATGCACAA
1 CCTTGATGCATCGATGCACAA
**
1764 -CAGGATGCATCGATGCACAA
1 CCTTGATGCATCGATGCACAA
1784 CCTTGATGCATCGATGCAC
1 CCTTGATGCATCGATGCAC
1803 TAATTGCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (21 bp):
CCTTGATGCATCGATGCACAA
Found at i:2016 original size:29 final size:31
Alignment explanation
Indices: 1984--2043 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
1974 AAACTTTGAA
*
1984 TAAATTCAATT-AAGTCC-AAAAA-CATTTTG
1 TAAAATCAATTCAAG-CCTAAAAACCATTTTG
2013 TAAAATCAATTCAAGCCTAAAAACCATTTTG
1 TAAAATCAATTCAAGCCTAAAAACCATTTTG
2044 CATTAAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 12 0.44
30 8 0.30
31 7 0.26
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.32
Consensus pattern (31 bp):
TAAAATCAATTCAAGCCTAAAAACCATTTTG
Found at i:2899 original size:17 final size:18
Alignment explanation
Indices: 2879--2922 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
2869 AAATTGTTTT
* *
2879 TAAAATAAAAGTTAGA-A
1 TAAAATAAAAGATAAAGA
2896 TAAAATAAAAGATAAAGA
1 TAAAATAAAAGATAAAGA
2914 TAAAATAAA
1 TAAAATAAA
2923 TAAACAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (18 bp):
TAAAATAAAAGATAAAGA
Found at i:2940 original size:31 final size:35
Alignment explanation
Indices: 2902--2968 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
2892 AGAATAAAAT
2902 AAAAGAT-A-AAGATAA-AAT-AAATAAACAATTA
1 AAAAGATAAGAAGATAAGAATAAAATAAACAATTA
*
2933 AAAAGATAAGAAGATAAGAATAAAATAAATAATTA
1 AAAAGATAAGAAGATAAGAATAAAATAAACAATTA
2968 A
1 A
2969 TTAAATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 7 0.23
32 1 0.03
33 7 0.23
34 3 0.10
35 13 0.42
ACGTcount: A:0.70, C:0.01, G:0.09, T:0.19
Consensus pattern (35 bp):
AAAAGATAAGAAGATAAGAATAAAATAAACAATTA
Found at i:2947 original size:39 final size:38
Alignment explanation
Indices: 2900--2973 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
2890 TTAGAATAAA
2900 ATAAAAGATAA-AGATAAAATAAATAAACAATTAAAAAG
1 ATAAAAGATAAGA-ATAAAATAAATAAACAATTAAAAAG
**
2938 ATAAGAAGATAAGAATAAAATAAATAATTAATTAAA
1 ATAA-AAGATAAGAATAAAATAAATAAACAATTAAA
2974 TTTAAAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 4 0.12
39 27 0.84
40 1 0.03
ACGTcount: A:0.69, C:0.01, G:0.08, T:0.22
Consensus pattern (38 bp):
ATAAAAGATAAGAATAAAATAAATAAACAATTAAAAAG
Found at i:3353 original size:36 final size:36
Alignment explanation
Indices: 3302--3370 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
3292 GGACCACCGG
*
3302 TAAGTTTGTTTACATGAAGTCGAACTTGCTACCCGC
1 TAAGTTTGTTCACATGAAGTCGAACTTGCTACCCGC
3338 TAAGTTTGTTCACATGAAGTCGAACTTGCTACC
1 TAAGTTTGTTCACATGAAGTCGAACTTGCTACC
3371 AGCTGATTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (36 bp):
TAAGTTTGTTCACATGAAGTCGAACTTGCTACCCGC
Found at i:7289 original size:18 final size:18
Alignment explanation
Indices: 7223--7279 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
7213 TATCAATTTA
7223 AATTATAATAAAAATATAT
1 AATTATAATAAAAA-ATAT
* *
7242 AA-GATACAAATAAAAATAT
1 AATTATA-ATA-AAAAATAT
7261 AATTATAATAAAAAATAT
1 AATTATAATAAAAAATAT
7279 A
1 A
7280 TTTCATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
18 12 0.39
19 12 0.39
20 7 0.23
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AATTATAATAAAAAATAT
Found at i:15433 original size:23 final size:23
Alignment explanation
Indices: 15403--15448 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
15393 TTCGTCCTAA
* *
15403 ATATTATTATTGTTATTATAATT
1 ATATTATTATTATTAATATAATT
15426 ATATTATTATTATTAATATAATT
1 ATATTATTATTATTAATATAATT
15449 GTTTTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
ATATTATTATTATTAATATAATT
Found at i:15445 original size:17 final size:17
Alignment explanation
Indices: 15405--15438 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15395 CGTCCTAAAT
*
15405 ATTATTATTGTTATTATA
1 ATTA-TATTATTATTATA
15423 ATTATATTATTATTAT
1 ATTATATTATTATTAT
15439 TAATATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTATATTATTATTATA
Found at i:17262 original size:2 final size:2
Alignment explanation
Indices: 17257--17288 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17247 TTTTATCAAG
17257 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
17289 CCTTTTGTAA
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:17352 original size:2 final size:2
Alignment explanation
Indices: 17345--17390 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
17335 AAAGAATTTA
17345 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
17387 AT AT
1 AT AT
17391 GTAGGTGTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17528 original size:2 final size:2
Alignment explanation
Indices: 17521--17546 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17511 AAGGGATTTA
17521 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
17547 GATCATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21953 original size:24 final size:22
Alignment explanation
Indices: 21919--21972 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
21909 TGGAGGTAAA
21919 AAAAATTATTAATATAA-AATAT
1 AAAAATTATT-ATATAAGAATAT
21941 AAAAATTAAATTATATAAGAAT-T
1 AAAAATT--ATTATATAAGAATAT
*
21964 TAAAATTAT
1 AAAAATTAT
21973 CAGACTGATC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.07
22 7 0.25
23 13 0.46
24 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAAATTATTATATAAGAATAT
Found at i:25140 original size:28 final size:28
Alignment explanation
Indices: 25096--25152 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
25086 GGTGGTTTTT
*
25096 TGATAAAAACGCTGTAAAAGATCTAGTA
1 TGATAAAAACGCCGTAAAAGATCTAGTA
25124 TGATAAAAACGCCGTAAAAGATCTAGTA
1 TGATAAAAACGCCGTAAAAGATCTAGTA
25152 T
1 T
25153 ATAGCGGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.25
Consensus pattern (28 bp):
TGATAAAAACGCCGTAAAAGATCTAGTA
Found at i:28779 original size:42 final size:41
Alignment explanation
Indices: 28650--28790 Score: 126
Period size: 41 Copynumber: 3.4 Consensus size: 41
28640 ATATAGTGCT
* *
28650 ACTCTATCA-CGGTCTTTACT-AAAAAATGCCACTATTGTCCA
1 ACTCTAT-AGCGGTGTTTACTAAAAAAATGCCACTA-TATCCA
** * * * * * *
28691 ACTCTATAGCGGCATTT-TTACAAAAACGCCTCTATAGTGCT
1 ACTCTATAGCGGTGTTTACTAAAAAAATGCCACTATA-TCCA
*
28732 ACTCTATCGCGGTGTTTACTAAAAAAATGCCACTACTATCCA
1 ACTCTATAGCGGTGTTTACTAAAAAAATGCCACTA-TATCCA
28774 ACTCTATAGCGGTGTTT
1 ACTCTATAGCGGTGTTT
28791 GTATGAAAGC
Statistics
Matches: 76, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
40 3 0.04
41 40 0.53
42 31 0.41
43 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (41 bp):
ACTCTATAGCGGTGTTTACTAAAAAAATGCCACTATATCCA
Found at i:28806 original size:83 final size:82
Alignment explanation
Indices: 28632--28818 Score: 239
Period size: 83 Copynumber: 2.3 Consensus size: 82
28622 TTTGTAAACC
* * * *
28632 AAACGCCTATATAGTGCTACTCTATCACGGTCTTTACTAAAAAATGCCACTATTGTCCAACTCTA
1 AAACACCTCTATAGTGCTACTCTATCACGGTCTTTACTAAAAAATGCCACTACTATCCAACTCTA
*
28697 TAGCGGCATTTTTACAA
66 TAGCGGCATTTGTACAA
* * *
28714 AAACGCCTCTATAGTGCTACTCTATCGCGGTGTTTACTAAAAAAATGCCACTACTATCCAACTCT
1 AAACACCTCTATAGTGCTACTCTATCACGGTCTTTACT-AAAAAATGCCACTACTATCCAACTCT
** **
28779 ATAGCGGTGTTTGTATGA
65 ATAGCGGCATTTGTACAA
* *
28797 AAGCACCTCTATAGTGCCACTC
1 AAACACCTCTATAGTGCTACTC
28819 ATTTACTTAA
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 35 0.38
83 56 0.62
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (82 bp):
AAACACCTCTATAGTGCTACTCTATCACGGTCTTTACTAAAAAATGCCACTACTATCCAACTCTA
TAGCGGCATTTGTACAA
Found at i:31907 original size:23 final size:24
Alignment explanation
Indices: 31872--31923 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
31862 GGTCTCTACT
31872 TTTTTCCAAAAATGTTCCTAACTA
1 TTTTTCCAAAAATGTTCCTAACTA
*
31896 TTTTT-CAGAAATGTTCCTAACTA
1 TTTTTCCAAAAATGTTCCTAACTA
31919 TTTTT
1 TTTTT
31924 GGGGGGAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (24 bp):
TTTTTCCAAAAATGTTCCTAACTA
Found at i:34511 original size:34 final size:34
Alignment explanation
Indices: 34465--34547 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 34
34455 TCAACATAAA
* * *
34465 CTAGAACCTTTCCCTAGCTTTTGCACGGGCTTAG
1 CTAGAACATTTCCCCAGCTTTTACACGGGCTTAG
*
34499 TTAGAACATTTCCCCAGCTTTTACACGGGCTTAG
1 CTAGAACATTTCCCCAGCTTTTACACGGGCTTAG
*
34533 CTAGAACTTTTCCCC
1 CTAGAACATTTCCCC
34548 TTTACAAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (34 bp):
CTAGAACATTTCCCCAGCTTTTACACGGGCTTAG
Found at i:34932 original size:20 final size:20
Alignment explanation
Indices: 34907--34964 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
34897 TCGTTGCAGC
34907 CAGGGTGTAT-GGATACACTG
1 CAGGGTGTATCGG-TACACTG
*
34927 CAGGGTGTATCGGTACACTA
1 CAGGGTGTATCGGTACACTG
* *
34947 TA-GGTGCATCGGTACACT
1 CAGGGTGTATCGGTACACT
34965 AATTGTATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.44
20 17 0.50
21 2 0.06
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (20 bp):
CAGGGTGTATCGGTACACTG
Found at i:35284 original size:22 final size:21
Alignment explanation
Indices: 35259--35322 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 21
35249 AATAAAATGT
* *
35259 TTAATGAAAAATATTCCAATTG
1 TTAAT-AAAAAGATACCAATTG
*
35281 TTAATAAAAGGATACCAATTG
1 TTAATAAAAAGATACCAATTG
35302 -T--TAAAAAGATACCAATTG
1 TTAATAAAAAGATACCAATTG
35320 TTA
1 TTA
35323 CCAATTGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 16 0.44
19 1 0.03
20 1 0.03
21 13 0.36
22 5 0.14
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (21 bp):
TTAATAAAAAGATACCAATTG
Found at i:35312 original size:18 final size:20
Alignment explanation
Indices: 35274--35322 Score: 75
Period size: 18 Copynumber: 2.5 Consensus size: 20
35264 GAAAAATATT
35274 CCAATTGTTAATAAAAGGATA
1 CCAATTGTT-ATAAAAGGATA
35295 CCAATTGTTA-AAAA-GATA
1 CCAATTGTTATAAAAGGATA
35313 CCAATTGTTA
1 CCAATTGTTA
35323 CCAATTGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.50
19 4 0.14
20 1 0.04
21 9 0.32
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (20 bp):
CCAATTGTTATAAAAGGATA
Found at i:38521 original size:20 final size:19
Alignment explanation
Indices: 38492--38601 Score: 109
Period size: 20 Copynumber: 5.7 Consensus size: 19
38482 TGAGCAGTCA
*
38492 TGTATGGATACACCTACAGG
1 TGTATCGATACA-CTACAGG
*
38512 TGTATCGATACACCTATAGG
1 TGTATCGATACA-CTACAGG
*
38532 TGTATCGGTACAC--CA-G
1 TGTATCGATACACTACAGG
*
38548 TGTATGGATACACTACAGAG
1 TGTATCGATACACTACAG-G
*
38568 TGTATCAATACACTACAGAG
1 TGTATCGATACACTACAG-G
*
38588 TGTATCAATACACT
1 TGTATCGATACACT
38602 TTAGTATTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
16 12 0.15
17 1 0.01
18 2 0.03
19 1 0.01
20 62 0.79
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (19 bp):
TGTATCGATACACTACAGG
Found at i:38580 original size:36 final size:36
Alignment explanation
Indices: 38511--38580 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
38501 ACACCTACAG
* **
38511 GTGTATCGATACACCTATAGGTGTATCGGTACACCA
1 GTGTATCGATACACCTACAGGTGTATCAATACACCA
*
38547 GTGTATGGATACA-CTACAGAGTGTATCAATACAC
1 GTGTATCGATACACCTACAG-GTGTATCAATACAC
38581 TACAGAGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 5 0.17
36 24 0.83
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (36 bp):
GTGTATCGATACACCTACAGGTGTATCAATACACCA
Found at i:38600 original size:56 final size:56
Alignment explanation
Indices: 38492--38600 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 56
38482 TGAGCAGTCA
* * **
38492 TGTATGGATACACCTACAGGTGTATCGATACACCTATAGGTGTATCGGTACACCAG
1 TGTATGGATACACCTACAGGTGTATCAATACACCTACAGGTGTATCAATACACCAG
38548 TGTATGGATACA-CTACAGAGTGTATCAATACA-CTACAGAGTGTATCAATACAC
1 TGTATGGATACACCTACAG-GTGTATCAATACACCTACAG-GTGTATCAATACAC
38601 TTTAGTATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 11 0.23
56 36 0.77
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (56 bp):
TGTATGGATACACCTACAGGTGTATCAATACACCTACAGGTGTATCAATACACCAG
Found at i:39785 original size:21 final size:21
Alignment explanation
Indices: 39759--39804 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
39749 TCACATTTTC
39759 AAAGCTATTATTTCCTATTCG
1 AAAGCTATTATTTCCTATTCG
*
39780 AAAGCTATTATTTTCTATTCG
1 AAAGCTATTATTTCCTATTCG
39801 AAAG
1 AAAG
39805 AAGTAAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (21 bp):
AAAGCTATTATTTCCTATTCG
Found at i:45559 original size:77 final size:79
Alignment explanation
Indices: 45432--45589 Score: 302
Period size: 77 Copynumber: 2.0 Consensus size: 79
45422 CTCGAATTCG
45432 CTTTGTATTAGCTTAGAAAATTCTTAGCAAATAACATCATTAGTAGAACTAAATA-T-TATCATC
1 CTTTGTATTAGCTTAGAAAATTCTTAGCAAATAACATCATTAGTAGAACTAAATATTATATCATC
45495 AACATAAATTTGAA
66 AACATAAATTTGAA
45509 CTTTGTATTAGCTTAGAAAATTCTTAGCAAATAACATCATTAGTAGAACTAAATATTATATCATC
1 CTTTGTATTAGCTTAGAAAATTCTTAGCAAATAACATCATTAGTAGAACTAAATATTATATCATC
45574 AACATAAATTTGAA
66 AACATAAATTTGAA
45588 CT
1 CT
45590 ACTAATAAAT
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
77 55 0.70
78 1 0.01
79 23 0.29
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.35
Consensus pattern (79 bp):
CTTTGTATTAGCTTAGAAAATTCTTAGCAAATAACATCATTAGTAGAACTAAATATTATATCATC
AACATAAATTTGAA
Found at i:48292 original size:19 final size:20
Alignment explanation
Indices: 48252--48294 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
48242 TTATTTTCAT
*
48252 TTTTTAATTTTGAAACATCA
1 TTTTTAATTTTGAAACAACA
48272 TTTTTATATTTT-AAA-AACA
1 TTTTTA-ATTTTGAAACAACA
48291 TTTT
1 TTTT
48295 CTCATAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 9 0.43
21 5 0.24
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTTGAAACAACA
Found at i:61256 original size:77 final size:79
Alignment explanation
Indices: 61164--61317 Score: 183
Period size: 77 Copynumber: 2.0 Consensus size: 79
61154 AATTAATAAA
*
61164 TAAAATACTATTTAATTAATT-CAAATTAAATAT-ACATT-AAAGACTTATAATATGAATTACAA
1 TAAAATACTATTTAATT-ATTCCAAATTAAATATCA-ATTAAAAGACTTATAATATAAATTACAA
61226 TC-TTTAATGTTTATT
64 TCTTTTAATGTTTATT
* * * * * *
61241 TAAAA-ACTTATTTAATTATTCCGAATTATATATCAATTAAAAGAGTTGTAATCTAAATTACATT
1 TAAAATAC-TATTTAATTATTCCAAATTAAATATCAATTAAAAGACTTATAATATAAATTACAAT
61305 CTTTTAATGTTTA
65 CTTTTAATGTTTA
61318 CTTACTATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
76 5 0.08
77 27 0.42
78 22 0.34
79 11 0.17
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (79 bp):
TAAAATACTATTTAATTATTCCAAATTAAATATCAATTAAAAGACTTATAATATAAATTACAATC
TTTTAATGTTTATT
Found at i:64771 original size:16 final size:16
Alignment explanation
Indices: 64750--64783 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
64740 GATGGTTGCC
*
64750 TTAGTCCTTGTTGGTT
1 TTAGTCCTTGATGGTT
64766 TTAGTCCTTGATGGTT
1 TTAGTCCTTGATGGTT
64782 TT
1 TT
64784 TCTGTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.12, G:0.24, T:0.56
Consensus pattern (16 bp):
TTAGTCCTTGATGGTT
Found at i:67483 original size:2 final size:2
Alignment explanation
Indices: 67476--67512 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
67466 TCTGATCCAA
67476 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67513 ACATCTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:67825 original size:48 final size:48
Alignment explanation
Indices: 67772--67867 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
67762 CAACACTGAC
*
67772 TTCCTTTTTTAATATTTTATTCG-TTTATACTTTTATATTTCAATCGAA
1 TTCCTTTTATAATATTTTATT-GTTTTATACTTTTATATTTCAATCGAA
*
67820 TTCCTTTTATAATATTTTATTGTTTTATTCTTTTATATTTCAATCGAA
1 TTCCTTTTATAATATTTTATTGTTTTATACTTTTATATTTCAATCGAA
67868 CTATTTGCAC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 1 0.02
48 44 0.98
ACGTcount: A:0.25, C:0.11, G:0.04, T:0.59
Consensus pattern (48 bp):
TTCCTTTTATAATATTTTATTGTTTTATACTTTTATATTTCAATCGAA
Found at i:67908 original size:58 final size:58
Alignment explanation
Indices: 67839--67956 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
67829 TAATATTTTA
67839 TTGTTTTATTCTTTTATATTTCAATCGAACTATTTGCACCATTTTGAAACTGAACAAC
1 TTGTTTTATTCTTTTATATTTCAATCGAACTATTTGCACCATTTTGAAACTGAACAAC
67897 TTGTTTTATTCTTTTATATTTCAATCGAACTATTTGCACCATTTTGAAACTGAACAAC
1 TTGTTTTATTCTTTTATATTTCAATCGAACTATTTGCACCATTTTGAAACTGAACAAC
67955 TT
1 TT
67957 CTTGCTCGAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (58 bp):
TTGTTTTATTCTTTTATATTTCAATCGAACTATTTGCACCATTTTGAAACTGAACAAC
Found at i:73727 original size:13 final size:14
Alignment explanation
Indices: 73709--73738 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
73699 GAATATAACC
73709 TTCCAC-AATCACT
1 TTCCACAAATCACT
73722 TTCCACAAATCACT
1 TTCCACAAATCACT
73736 TTC
1 TTC
73739 ATGCTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (14 bp):
TTCCACAAATCACT
Found at i:83688 original size:19 final size:18
Alignment explanation
Indices: 83664--83712 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
83654 AAATATTCAG
83664 AGTGCATCGATGCATGGA
1 AGTGCATCGATGCATGGA
*
83682 TAGTGCATCGGTGCATGGA
1 -AGTGCATCGATGCATGGA
83701 A-TGCATTCGATG
1 AGTGCA-TCGATG
83713 TTCAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 17 0.63
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (18 bp):
AGTGCATCGATGCATGGA
Found at i:83688 original size:65 final size:65
Alignment explanation
Indices: 83555--83714 Score: 225
Period size: 65 Copynumber: 2.5 Consensus size: 65
83545 TGCACCAAGT
* * *
83555 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGATA
* **
83619 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATGGAT
83683 A
65 A
* *
83684 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
83715 CAATTAATTC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGATA
Found at i:83754 original size:65 final size:65
Alignment explanation
Indices: 83556--83763 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 65
83546 GCACCAAGTG
* * ** *
83556 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
83619 G-
64 GA
* * *
83620 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA-T-
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
83683 A
65 A
* *
83684 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
83746 CTGA
62 CTGA
83750 TGCATCGGTGCATG
1 TGCATCGGTGCATG
83764 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 7 0.06
64 52 0.42
65 61 0.49
66 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:84931 original size:23 final size:21
Alignment explanation
Indices: 84904--84967 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 21
84894 GCATGGTCTT
84904 ATGCATCGATGCATATTCAATG
1 ATGCATCGATGCATATTCAA-G
* *
84926 CATGCATCGGTGCATCATGC-AG
1 -ATGCATCGATGCAT-ATTCAAG
*
84948 ATGCATCGATGCACATTCAA
1 ATGCATCGATGCATATTCAA
84968 AGGGATGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 3 0.09
21 13 0.38
22 1 0.03
23 14 0.41
24 3 0.09
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (21 bp):
ATGCATCGATGCATATTCAAG
Found at i:90900 original size:19 final size:18
Alignment explanation
Indices: 90876--90924 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
90866 AAATATTCAG
90876 AGTGCATCGATGCATGGA
1 AGTGCATCGATGCATGGA
*
90894 TAGTGCATCGGTGCATGGA
1 -AGTGCATCGATGCATGGA
90913 A-TGCATTCGATG
1 AGTGCA-TCGATG
90925 TTCAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 17 0.63
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (18 bp):
AGTGCATCGATGCATGGA
Found at i:90900 original size:65 final size:65
Alignment explanation
Indices: 90767--90926 Score: 225
Period size: 65 Copynumber: 2.5 Consensus size: 65
90757 TGCACCAAGT
* * *
90767 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGATA
* **
90831 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATGGAT
90895 A
65 A
* *
90896 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
90927 CAATTAATTC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGATA
Found at i:95679 original size:19 final size:20
Alignment explanation
Indices: 95651--95688 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
95641 ATAGAGATAT
95651 TAATTAATTAATAA-ATTAA
1 TAATTAATTAATAATATTAA
*
95670 TAATTTATTAATAATATTA
1 TAATTAATTAATAATATTA
95689 TTGTTAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATTAATTAATAATATTAA
Found at i:101489 original size:18 final size:19
Alignment explanation
Indices: 101466--101501 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
101456 TATATTTTAA
101466 AAAACA-AAAAAATAAATG
1 AAAACATAAAAAATAAATG
*
101484 AAAACATATAAAATAAAT
1 AAAACATAAAAAATAAAT
101502 TACTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAACATAAAAAATAAATG
Found at i:102837 original size:3 final size:3
Alignment explanation
Indices: 102829--102896 Score: 104
Period size: 3 Copynumber: 22.7 Consensus size: 3
102819 AATATATATT
102829 TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
102874 TAA TAA TAA T-A TAA TATA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TA
102897 TGGGTAAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.07
3 51 0.84
4 6 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:103553 original size:113 final size:113
Alignment explanation
Indices: 103215--103969 Score: 1184
Period size: 113 Copynumber: 6.8 Consensus size: 113
103205 TTAAAACAAG
* *
103215 TTCTTATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAA----CTCTGGAA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
* *
103276 AAGCT--TCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAA-TTC
66 AAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAGCTC
* * *
103321 TTCCCATTGTGAATTTCTTCTTCCTTC-TCAGATGAGTTCTTCTCA-T-TGAAC-TTCTCTGGAA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
* * * *
103382 ATA-CTGATCCATC-AATGAT-GAATTCATGTAAAAGG-TGAACAA-TTC
66 A-AGCTGATCCATCAAATGATGGATTTGA-GCAAAAGGTTGAACAAGCTC
103427 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
* * * * *
103492 AAGCTGATCCATCAATTGAT-GAATTCATGTAAAAGGTTGAACAAGTTC
66 AAGCTGATCCATCAAATGATGGATTTGA-GCAAAAGGTTGAACAAGCTC
103540 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
103605 AAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAGCTC
66 AAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAGCTC
*
103653 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTACGAACTTTCTCTGGAA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
*
103718 AAGTTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAGCTC
66 AAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAGCTC
*
103766 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTACGAACTTTCTCTGGAA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
103831 AAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAGCTC
66 AAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAGCTC
103879 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
1 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
*
103944 AAGCTGATCCATCAAATGATAGATTT
66 AAGCTGATCCATCAAATGATGGATTT
103970 AAATCTTTGC
Statistics
Matches: 610, Mismatches: 23, Indels: 25
0.93 0.03 0.04
Matches are distributed among these distances:
103 4 0.01
104 1 0.00
105 17 0.03
106 73 0.12
107 31 0.05
108 7 0.01
109 6 0.01
110 21 0.03
111 21 0.03
112 7 0.01
113 417 0.68
114 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (113 bp):
TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
AAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAGCTC
Found at i:104905 original size:83 final size:83
Alignment explanation
Indices: 104761--105437 Score: 1282
Period size: 83 Copynumber: 8.2 Consensus size: 83
104751 CTTATTTCTA
*
104761 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
104826 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* ** * *
104844 CTATTAGCAAATTCATCTTTTAAATTCAATGATTGGTTCTGCCAAACCATATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
104909 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* *
104927 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTTAAACCATATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
104992 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
105010 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
105075 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
105093 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
105158 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
105176 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
105241 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
105259 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
105324 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
105342 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
105407 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
105425 CTATGAGCAAATT
1 CTATGAGCAAATT
105438 GCACTTATTC
Statistics
Matches: 583, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 583 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:106559 original size:12 final size:12
Alignment explanation
Indices: 106542--106590 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
106532 TTGACCCCCC
106542 TTTTTCCTTTTT
1 TTTTTCCTTTTT
106554 TTTTT-CTTTTT
1 TTTTTCCTTTTT
* *
106565 TTTCTCTTTTTT
1 TTTTTCCTTTTT
*
106577 TTATTTACTTTTT
1 TT-TTTCCTTTTT
106590 T
1 T
106591 CTTCAAGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 10 0.33
12 12 0.40
13 8 0.27
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTCCTTTTT
Found at i:106562 original size:11 final size:11
Alignment explanation
Indices: 106542--106578 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
106532 TTGACCCCCC
*
106542 TTTTTCCTTTT
1 TTTTTTCTTTT
106553 TTTTTTCTTTT
1 TTTTTTCTTTT
*
106564 TTTTCTCTTTT
1 TTTTTTCTTTT
106575 TTTT
1 TTTT
106579 ATTTACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:116644 original size:18 final size:17
Alignment explanation
Indices: 116596--116646 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
116586 AAATACTTGC
*
116596 AAATAAAATAAAACATAT
1 AAAT-AAATAAAAAATAT
*
116614 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
116632 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
116647 TTGACAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 16 0.59
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:117440 original size:18 final size:19
Alignment explanation
Indices: 117417--117452 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
117407 TATATTTTAA
117417 AAAACAGA-AAAATAAATG
1 AAAACAGATAAAATAAATG
*
117435 AAAACATATAAAATAAAT
1 AAAACAGATAAAATAAAT
117453 TACTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (19 bp):
AAAACAGATAAAATAAATG
Found at i:118811 original size:3 final size:3
Alignment explanation
Indices: 118803--118898 Score: 169
Period size: 3 Copynumber: 32.7 Consensus size: 3
118793 AATATATATT
*
118803 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
118850 T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
118897 TA
1 TA
118899 TGGGTAAAAA
Statistics
Matches: 89, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
2 4 0.04
3 85 0.96
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:126537 original size:2 final size:2
Alignment explanation
Indices: 126530--126601 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
126520 AAACGGTTGA
126530 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
126572 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
126602 CTAAAGCACT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127724 original size:19 final size:20
Alignment explanation
Indices: 127700--127737 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
127690 GAAGTTTCAG
127700 AGTGAAACAG-ATCCAAGAA
1 AGTGAAACAGAATCCAAGAA
*
127719 AGTGAATCAGAATCCAAGA
1 AGTGAAACAGAATCCAAGA
127738 GATGGAGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.16, G:0.21, T:0.13
Consensus pattern (20 bp):
AGTGAAACAGAATCCAAGAA
Found at i:137627 original size:22 final size:20
Alignment explanation
Indices: 137595--137634 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
137585 GAATTCAAAG
*
137595 ATATGAATTAAATAATTCGA
1 ATATGAATTAAAAAATTCGA
137615 ATATGGAATTTAAAAAATTC
1 ATAT-GAA-TTAAAAAATTC
137635 TAATTCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 3 0.18
22 10 0.59
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (20 bp):
ATATGAATTAAAAAATTCGA
Found at i:154854 original size:32 final size:32
Alignment explanation
Indices: 154818--154881 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
154808 CGCAGACCAT
154818 CGTCTACTTACAACACAAACAGCGCCAGGAAC
1 CGTCTACTTACAACACAAACAGCGCCAGGAAC
154850 CGTCTACTTACAACACAAACAGCGCCAGGAAC
1 CGTCTACTTACAACACAAACAGCGCCAGGAAC
154882 TGACCCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.34, G:0.16, T:0.12
Consensus pattern (32 bp):
CGTCTACTTACAACACAAACAGCGCCAGGAAC
Found at i:159735 original size:50 final size:50
Alignment explanation
Indices: 159662--159762 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
159652 TCTTCGTTAA
*
159662 AAACCTCTTTTTCTCGACTATCAAATCAAATTTGAATATTATTTTTATTT
1 AAACCTCTTTTTCTCGACAATCAAATCAAATTTGAATATTATTTTTATTT
*
159712 AAACCTCTTTTTCTTGACAATCAAATCAAATTTGAATATTATTTTTATTT
1 AAACCTCTTTTTCTCGACAATCAAATCAAATTTGAATATTATTTTTATTT
159762 A
1 A
159763 TTAGTTTTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.48
Consensus pattern (50 bp):
AAACCTCTTTTTCTCGACAATCAAATCAAATTTGAATATTATTTTTATTT
Found at i:165971 original size:20 final size:20
Alignment explanation
Indices: 165946--165983 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
165936 CCTGACTTGT
*
165946 TTGCAAGACCTGTAAATCGG
1 TTGCAAGACCTGAAAATCGG
165966 TTGCAAGACCTGAAAATC
1 TTGCAAGACCTGAAAATC
165984 AGTTCTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
TTGCAAGACCTGAAAATCGG
Found at i:171023 original size:18 final size:18
Alignment explanation
Indices: 171000--171045 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
170990 CAACGGTTAA
171000 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
171018 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
171036 TGGGTCGGGT
1 CGGGTCGGGT
171046 TGTGACCTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.09, C:0.20, G:0.52, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:171035 original size:13 final size:13
Alignment explanation
Indices: 170998--171023 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
170988 GTCAACGGTT
170998 AACGGGTCGGGTC
1 AACGGGTCGGGTC
171011 AACGGGTCGGGTC
1 AACGGGTCGGGTC
171024 GGGTCAACGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.46, T:0.15
Consensus pattern (13 bp):
AACGGGTCGGGTC
Found at i:174950 original size:3 final size:3
Alignment explanation
Indices: 174942--174980 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
174932 ATTAAATTTT
* *
174942 ATG ATG ATG -TG GTG GTG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
174981 GAGTGAGGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:175699 original size:17 final size:17
Alignment explanation
Indices: 175677--175713 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
175667 TTACAGACAT
175677 TTCATTTGATGCATCAA
1 TTCATTTGATGCATCAA
175694 TTCATTTGATGCATCAA
1 TTCATTTGATGCATCAA
175711 TTC
1 TTC
175714 TTTAAGGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (17 bp):
TTCATTTGATGCATCAA
Found at i:177231 original size:19 final size:19
Alignment explanation
Indices: 177207--177244 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
177197 ATAATTTTTT
177207 TAAATAATCATAT-ATAAAA
1 TAAAT-ATCATATAATAAAA
*
177226 TAAATATTATATAATAAAA
1 TAAATATCATATAATAAAA
177245 AATAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAATATCATATAATAAAA
Found at i:177334 original size:21 final size:21
Alignment explanation
Indices: 177310--177352 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
177300 GAATTGATGT
*
177310 GGTGATGTTTA-AGGTTGAAGG
1 GGTGATATTTATAGG-TGAAGG
*
177331 GGTGTTATTTATAGGTGAAGG
1 GGTGATATTTATAGGTGAAGG
177352 G
1 G
177353 AGAGTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (21 bp):
GGTGATATTTATAGGTGAAGG
Found at i:179936 original size:23 final size:22
Alignment explanation
Indices: 179881--179938 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
179871 TTGAAAATTG
* *
179881 ATTTTT-GAAAAAAATAATTAT
1 ATTTTTAGAAATATATAATTAT
179902 -TTTTTAGAAAATATATAAGTTAT
1 ATTTTTAG-AAATATATAA-TTAT
179925 ATTTTTAGAAATAT
1 ATTTTTAGAAATAT
179939 CCTTAAATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 5 0.16
21 1 0.03
22 8 0.26
23 10 0.32
24 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
ATTTTTAGAAATATATAATTAT
Found at i:180291 original size:20 final size:20
Alignment explanation
Indices: 180266--180312 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
180256 ATTTCGTAAG
180266 ATTATTTACAGAAAAATGAC
1 ATTATTTACAGAAAAATGAC
**
180286 ATTATTTTTAGAAAAATGAC
1 ATTATTTACAGAAAAATGAC
180306 ATTATTT
1 ATTATTT
180313 TTTATTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (20 bp):
ATTATTTACAGAAAAATGAC
Found at i:180316 original size:21 final size:20
Alignment explanation
Indices: 180275--180314 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
180265 GATTATTTAC
180275 AGAAAAATGACATTATTTTT
1 AGAAAAATGACATTATTTTT
180295 AGAAAAATGACATTATTTTT
1 AGAAAAATGACATTATTTTT
180315 TATTGATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
AGAAAAATGACATTATTTTT
Found at i:182539 original size:19 final size:19
Alignment explanation
Indices: 182515--182558 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
182505 TATCAAGAAG
182515 TAAAATACATGTTCACAAT
1 TAAAATACATGTTCACAAT
182534 TAAAATACATGTTCACAAT
1 TAAAATACATGTTCACAAT
182553 TAAAAT
1 TAAAAT
182559 TATAAATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.32
Consensus pattern (19 bp):
TAAAATACATGTTCACAAT
Found at i:192151 original size:7 final size:7
Alignment explanation
Indices: 192141--192181 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
192131 GAGTAATTAG
192141 TAATTTC
1 TAATTTC
192148 TAATTT-
1 TAATTTC
192154 TAATTTC
1 TAATTTC
192161 TAATTT-
1 TAATTTC
192167 TAATTTTC
1 TAA-TTTC
192175 TAATTTC
1 TAATTTC
192182 AAAACTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 9 0.29
7 19 0.61
8 3 0.10
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (7 bp):
TAATTTC
Found at i:192176 original size:14 final size:13
Alignment explanation
Indices: 192141--192180 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
192131 GAGTAATTAG
192141 TAATTTCTAATTT
1 TAATTTCTAATTT
192154 TAATTTCTAATTT
1 TAATTTCTAATTT
192167 TAATTTTCTAATTT
1 TAA-TTTCTAATTT
192181 CAAAACTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (13 bp):
TAATTTCTAATTT
Found at i:200186 original size:97 final size:96
Alignment explanation
Indices: 199982--200199 Score: 296
Period size: 97 Copynumber: 2.2 Consensus size: 96
199972 AAAACAGAAA
*
199982 ACCATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCATGAACAATTCATATTTTCTAGT
1 ACCATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCATGAACAATTCATATTTTCGAGT
* **
200047 GAAAACAGGAAACCCGACAACACATTTCAAGT
66 GAAAACA-GAAACCAGACAACACATACCAAGT
200079 ACCATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCATGAACAATTCATAGTTTTCGA-
1 ACCATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCATGAACAATTCATA-TTTTCGAG
* * * *
200143 TGAAAACCA-AAATCAGATATCACATACCATGTT
65 TGAAAA-CAGAAACCAGACAACACATACCAAG-T
* *
200176 GCCATGGTTCATAAACCAGTAAAT
1 ACCATAGTTCATAAACCAGTAAAT
200200 CAATACTTTC
Statistics
Matches: 108, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
96 15 0.14
97 85 0.79
98 8 0.07
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.28
Consensus pattern (96 bp):
ACCATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCATGAACAATTCATATTTTCGAGT
GAAAACAGAAACCAGACAACACATACCAAGT
Found at i:205675 original size:28 final size:27
Alignment explanation
Indices: 205644--205702 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
205634 AATTCTAGGG
* *
205644 TTTAGAGGTACTTTAGTTCATTTTACAC
1 TTTAGAGGCA-TTTAGGTCATTTTACAC
* *
205672 TTTAGGGGCATTTTGGTCATTTTACAC
1 TTTAGAGGCATTTAGGTCATTTTACAC
205699 TTTA
1 TTTA
205703 TGGGTATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (27 bp):
TTTAGAGGCATTTAGGTCATTTTACAC
Found at i:207222 original size:333 final size:333
Alignment explanation
Indices: 206616--207281 Score: 1305
Period size: 333 Copynumber: 2.0 Consensus size: 333
206606 TGACGCCGAT
*
206616 TCACGACGAGAGGTTTGAGGGGTTTTGTCCATCGGTCGATAACGAACACGATGGTGGTTTCAGAT
1 TCACGACGAGAGGTTTGAGGGATTTTGTCCATCGGTCGATAACGAACACGATGGTGGTTTCAGAT
206681 CGATAAACAGTGGCCGGACGGTGGAGAAATCGGAGCTCAAAGTAGTTGACGGGGGGAGAGGGAAT
66 CGATAAACAGTGGCCGGACGGTGGAGAAATCGGAGCTCAAAGTAGTTGACGGGGGGAGAGGGAAT
206746 TGGAAATATTCTGGGAAAACAGACGGGGAGGGGGTTTATAATTCTCCCCTAAAGAAAAATGGGTA
131 TGGAAATATTCTGGGAAAACAGACGGGGAGGGGGTTTATAATTCTCCCCTAAAGAAAAATGGGTA
206811 AATTATGAGTTTGGTCTCTAAATTCCTACACTTCCTAAAATAGTCTGTCAACTTTACGATTTTAC
196 AATTATGAGTTTGGTCTCTAAATTCCTACACTTCCTAAAATAGTCTGTCAACTTTACGATTTTAC
206876 ATTTTAATCCTCAATTTCTTCCAAAATATCACTTAAATTCAATGTTTTATAACTTCTAAAATTTA
261 ATTTTAATCCTCAATTTCTTCCAAAATATCACTTAAATTCAATGTTTTATAACTTCTAAAATTTA
206941 GCTTCTAA
326 GCTTCTAA
*
206949 TCACGACGAGAGGTTTGAGGGATTTTGTTCATCGGTCGATAACGAACACGATGGTGGTTTCAGAT
1 TCACGACGAGAGGTTTGAGGGATTTTGTCCATCGGTCGATAACGAACACGATGGTGGTTTCAGAT
207014 CGATAAACAGTGGCCGGACGGTGGAGAAATCGGAGCTCAAAGTAGTTGACGGGGGGAGAGGGAAT
66 CGATAAACAGTGGCCGGACGGTGGAGAAATCGGAGCTCAAAGTAGTTGACGGGGGGAGAGGGAAT
207079 TGGAAATATTCTGGGAAAACAGACGGGGAGGGGGTTTATAATTCTCCCCTAAAGAAAAATGGGTA
131 TGGAAATATTCTGGGAAAACAGACGGGGAGGGGGTTTATAATTCTCCCCTAAAGAAAAATGGGTA
*
207144 AATTATGAGTTTGGTCTCTGAATTCCTACACTTCCTAAAATAGTCTGTCAACTTTACGATTTTAC
196 AATTATGAGTTTGGTCTCTAAATTCCTACACTTCCTAAAATAGTCTGTCAACTTTACGATTTTAC
207209 ATTTTAATCCTCAATTTCTTCCAAAATATCACTTAAATTCAATGTTTTATAACTTCTAAAATTTA
261 ATTTTAATCCTCAATTTCTTCCAAAATATCACTTAAATTCAATGTTTTATAACTTCTAAAATTTA
207274 GCTTCTAA
326 GCTTCTAA
207282 ATTGGGGTGT
Statistics
Matches: 330, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
333 330 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (333 bp):
TCACGACGAGAGGTTTGAGGGATTTTGTCCATCGGTCGATAACGAACACGATGGTGGTTTCAGAT
CGATAAACAGTGGCCGGACGGTGGAGAAATCGGAGCTCAAAGTAGTTGACGGGGGGAGAGGGAAT
TGGAAATATTCTGGGAAAACAGACGGGGAGGGGGTTTATAATTCTCCCCTAAAGAAAAATGGGTA
AATTATGAGTTTGGTCTCTAAATTCCTACACTTCCTAAAATAGTCTGTCAACTTTACGATTTTAC
ATTTTAATCCTCAATTTCTTCCAAAATATCACTTAAATTCAATGTTTTATAACTTCTAAAATTTA
GCTTCTAA
Found at i:209268 original size:30 final size:30
Alignment explanation
Indices: 209030--209251 Score: 410
Period size: 30 Copynumber: 7.4 Consensus size: 30
209020 TCCGAAGGAC
*
209030 CTATCCAAAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
209060 CTAT-CAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
209089 CTATCCAGAGGTCATAAAGATCCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
209119 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
209149 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
209179 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
209209 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
209239 CTATCCATAGGTC
1 CTATCCAGAGGTC
209252 CCGAAGAACC
Statistics
Matches: 187, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
29 28 0.15
30 159 0.85
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:209291 original size:31 final size:31
Alignment explanation
Indices: 209237--209329 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
209227 GATCCTCGGT
* *
209237 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
209268 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
209299 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTATCCATATGTCCCGAAGA-ACATAGGTA
209330 GTTCTTCGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:210359 original size:19 final size:20
Alignment explanation
Indices: 210322--210359 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
210312 TTTTTCATTA
*
210322 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
210342 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
210360 TCTAGCATTC
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:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:210411 original size:21 final size:21
Alignment explanation
Indices: 210387--210429 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
210377 TCATATTCGT
* *
210387 TTGAGGGGGGATCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
* *
210408 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
210429 T
1 T
210430 AGCCCAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGGACCGATTCCCC
Done.