Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000013.1 Hibiscus syriacus cultivar Beakdansim tig00000028_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: 124196
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:6750 original size:30 final size:30
Alignment explanation
Indices: 6714--6803 Score: 153
Period size: 30 Copynumber: 3.0 Consensus size: 30
6704 TATGGACAGT
*
6714 TTACCGAGGATCATTATGACCTCTGGATAG
1 TTACCGAGGATCTTTATGACCTCTGGATAG
6744 TTACCGAGGATCTTTATGACCTCTGGATAG
1 TTACCGAGGATCTTTATGACCTCTGGATAG
* *
6774 TTACCAATGATCTTTATGACCTCTGGATAG
1 TTACCGAGGATCTTTATGACCTCTGGATAG
6804 GTCCTTCGGG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (30 bp):
TTACCGAGGATCTTTATGACCTCTGGATAG
Found at i:26502 original size:28 final size:29
Alignment explanation
Indices: 26471--26531 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
26461 AAAAATGGTG
* *
26471 TATCAATTTTTTAAATTAT-AAAATTTAA
1 TATCAATTATATAAATTATGAAAATTTAA
* * *
26499 TATCTATTATATAACTTTTGAAAATTTAA
1 TATCAATTATATAAATTATGAAAATTTAA
26528 TATC
1 TATC
26532 TAAAAAGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.49
Consensus pattern (29 bp):
TATCAATTATATAAATTATGAAAATTTAA
Found at i:28203 original size:14 final size:14
Alignment explanation
Indices: 28184--28213 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
28174 TTTAGATTTT
*
28184 TTAAAATTACATTA
1 TTAAAAATACATTA
28198 TTAAAAATACATTA
1 TTAAAAATACATTA
28212 TT
1 TT
28214 GATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:28315 original size:21 final size:21
Alignment explanation
Indices: 28303--28404 Score: 109
Period size: 21 Copynumber: 4.9 Consensus size: 21
28293 GGGTTTATAG
28303 TTTATGGTTTAGGGTTTAGGA
1 TTTATGGTTTAGGGTTTAGGA
*
28324 TTTA-GGATTTAGGATTTAGGA
1 TTTATGG-TTTAGGGTTTAGGA
* *
28345 TTTAGGGTTTAGGGTTTAAGA
1 TTTATGGTTTAGGGTTTAGGA
* * *
28366 TTCATGATTTATGGTTTATGG-
1 TTTATGGTTTAGGGTTTA-GGA
*
28387 TTTATGGTTTATGGTTTA
1 TTTATGGTTTAGGGTTTA
28405 ATTTATACAC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
20 2 0.03
21 63 0.93
22 3 0.04
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (21 bp):
TTTATGGTTTAGGGTTTAGGA
Found at i:28318 original size:7 final size:7
Alignment explanation
Indices: 28291--28404 Score: 84
Period size: 7 Copynumber: 16.3 Consensus size: 7
28281 AATTATGTGA
28291 TAGGGTT
1 TAGGGTT
**
28298 TATAGTT
1 TAGGGTT
*
28305 TATGGTT
1 TAGGGTT
28312 TAGGGTT
1 TAGGGTT
*
28319 TAGGATT
1 TAGGGTT
*
28326 TAGGATT
1 TAGGGTT
*
28333 TAGGATT
1 TAGGGTT
*
28340 TAGGATT
1 TAGGGTT
28347 TAGGGTT
1 TAGGGTT
28354 TAGGGTT
1 TAGGGTT
* *
28361 TAAGATT
1 TAGGGTT
* * *
28368 CATGATT
1 TAGGGTT
*
28375 TATGGTT
1 TAGGGTT
*
28382 TATGGTT
1 TAGGGTT
*
28389 TATGGTT
1 TAGGGTT
*
28396 TATGGTT
1 TAGGGTT
28403 TA
1 TA
28405 ATTTATACAC
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 95 1.00
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (7 bp):
TAGGGTT
Found at i:28723 original size:17 final size:17
Alignment explanation
Indices: 28694--28726 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
28684 AATTAAAATT
28694 ACAAGACACAATTGAAA
1 ACAAGACACAATTGAAA
28711 ACAAG-CACAAATTGAA
1 ACAAGACAC-AATTGAA
28727 GGAACACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (17 bp):
ACAAGACACAATTGAAA
Found at i:28785 original size:15 final size:15
Alignment explanation
Indices: 28765--28798 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
28755 AAAACTCTTA
28765 CCCTAATTCATTTCC
1 CCCTAATTCATTTCC
*
28780 CCCTAATTCATTTCT
1 CCCTAATTCATTTCC
28795 CCCT
1 CCCT
28799 CAAAACATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.41, G:0.00, T:0.41
Consensus pattern (15 bp):
CCCTAATTCATTTCC
Found at i:29117 original size:22 final size:22
Alignment explanation
Indices: 29092--29144 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
29082 AGCAGTCTCT
29092 TTAAAGTTTCGATCCAAGCTCA
1 TTAAAGTTTCGATCCAAGCTCA
29114 TTAAAGTTTCGATCCAAGCTCA
1 TTAAAGTTTCGATCCAAGCTCA
29136 TTAAAGTTT
1 TTAAAGTTT
29145 TCTCTCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (22 bp):
TTAAAGTTTCGATCCAAGCTCA
Found at i:29921 original size:17 final size:17
Alignment explanation
Indices: 29899--29935 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
29889 ATTCGAGTTT
29899 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
29916 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
29933 GAG
1 GAG
29936 CTCAAAATCG
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:0.24, C:0.16, G:0.32, T:0.27
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:30071 original size:31 final size:31
Alignment explanation
Indices: 30011--30071 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
30001 GTTCGAGCCT
* *
30011 TTTCGAGTTCGAGTCGAGTTTCAATATTTTC
1 TTTCGAGTTCGAGTCGAGCTTCAAAATTTTC
*
30042 TTTCGAGTTCGAGTCGAGCTTGAAAATTTT
1 TTTCGAGTTCGAGTCGAGCTTCAAAATTTT
30072 AGGCTCGCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (31 bp):
TTTCGAGTTCGAGTCGAGCTTCAAAATTTTC
Found at i:45915 original size:35 final size:32
Alignment explanation
Indices: 45875--45958 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 32
45865 ATTGTGTATA
*
45875 TGTTCGTTTATTTATTTTTAAAAATGTTTGTGCTCG
1 TGTTCGTTTATTTATTTTT---AAT-ATTGTGCTCG
* *
45911 -GTTCGTTTA--AATTTTTAATATTGTGTTCG
1 TGTTCGTTTATTTATTTTTAATATTGTGCTCG
45940 TGTTCGTTTATTTATTTTT
1 TGTTCGTTTATTTATTTTT
45959 GAAGGTGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
29 8 0.20
30 12 0.29
32 6 0.15
33 6 0.15
35 9 0.22
ACGTcount: A:0.18, C:0.07, G:0.15, T:0.60
Consensus pattern (32 bp):
TGTTCGTTTATTTATTTTTAATATTGTGCTCG
Found at i:46046 original size:12 final size:12
Alignment explanation
Indices: 46013--46049 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
46003 TTTAACATTC
46013 GTTTATATGTTT
1 GTTTATATGTTT
*
46025 GTTTA-GTGTTT
1 GTTTATATGTTT
46036 GTTTATATGTTT
1 GTTTATATGTTT
46048 GT
1 GT
46050 GAACATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.14, C:0.00, G:0.22, T:0.65
Consensus pattern (12 bp):
GTTTATATGTTT
Found at i:47742 original size:31 final size:31
Alignment explanation
Indices: 47696--47758 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
47686 ACCACAAGGC
*
47696 TGCTTGGTTCATACGATTTTTCTACTATTAT
1 TGCTTAGTTCATACGATTTTTCTACTATTAT
*
47727 TGCTTAGTTCGTACGATTTTTCTACTATTAT
1 TGCTTAGTTCATACGATTTTTCTACTATTAT
47758 T
1 T
47759 CAATTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (31 bp):
TGCTTAGTTCATACGATTTTTCTACTATTAT
Found at i:53077 original size:20 final size:20
Alignment explanation
Indices: 53052--53089 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
53042 AACAGATTTT
53052 TTTTTTATTTCTTCATGTTG
1 TTTTTTATTTCTTCATGTTG
53072 TTTTTTATTTCTTCATGT
1 TTTTTTATTTCTTCATGT
53090 CACGAGGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.08, T:0.71
Consensus pattern (20 bp):
TTTTTTATTTCTTCATGTTG
Found at i:54595 original size:27 final size:28
Alignment explanation
Indices: 54552--54608 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
54542 GAAGGTTTGT
**
54552 ATTAATTTCCTTTTGTTGTGAGG-AAGA
1 ATTAATTTCCTGCTGTTGTGAGGAAAGA
54579 ATTAATTTCCTGCTGTTGTGAGGAAAGA
1 ATTAATTTCCTGCTGTTGTGAGGAAAGA
54607 AT
1 AT
54609 GTCTAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (28 bp):
ATTAATTTCCTGCTGTTGTGAGGAAAGA
Found at i:58582 original size:19 final size:19
Alignment explanation
Indices: 58550--58586 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
58540 GGAAATGATC
*
58550 CCTAAAAATTAGTAACTTT
1 CCTAAAAATCAGTAACTTT
*
58569 CCTAAGAATCAGTAACTT
1 CCTAAAAATCAGTAACTT
58587 AAGATTAGTG
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:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (19 bp):
CCTAAAAATCAGTAACTTT
Found at i:62803 original size:16 final size:16
Alignment explanation
Indices: 62782--62826 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
62772 AAAACAATTA
*
62782 GCACCCAGAGTAACCT
1 GCACCCAGAGCAACCT
*
62798 GCACCC-GAAACAACCT
1 GCACCCAG-AGCAACCT
62814 GCACCCAGAGCAA
1 GCACCCAGAGCAA
62827 TCTTTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.36, C:0.40, G:0.18, T:0.07
Consensus pattern (16 bp):
GCACCCAGAGCAACCT
Found at i:64176 original size:16 final size:16
Alignment explanation
Indices: 64155--64186 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
64145 TCGGGCTAAA
64155 AATTGGAAATTCTGGG
1 AATTGGAAATTCTGGG
64171 AATTGGAAATTCTGGG
1 AATTGGAAATTCTGGG
64187 CACGGGTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.31
Consensus pattern (16 bp):
AATTGGAAATTCTGGG
Found at i:64281 original size:21 final size:21
Alignment explanation
Indices: 64255--64368 Score: 110
Period size: 21 Copynumber: 5.5 Consensus size: 21
64245 CTGTTGAGTA
64255 GTATCGATACCTATTCAAGTG
1 GTATCGATACCTATTCAAGTG
** * *
64276 GTATCGATACC-A-AGAGGGG
1 GTATCGATACCTATTCAAGTG
64295 TGTATCGATACCTATTCAAGTG
1 -GTATCGATACCTATTCAAGTG
** * *
64317 GTATCGATACC-A-AGAGGGG
1 GTATCGATACCTATTCAAGTG
64336 AGTATCGATACCTATTCAAGTG
1 -GTATCGATACCTATTCAAGTG
64358 GTATCGATACC
1 GTATCGATACC
64369 AAGAAGGGAG
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
19 6 0.08
20 24 0.34
21 35 0.49
22 6 0.08
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (21 bp):
GTATCGATACCTATTCAAGTG
Found at i:64300 original size:41 final size:41
Alignment explanation
Indices: 64254--64409 Score: 255
Period size: 41 Copynumber: 3.8 Consensus size: 41
64244 TCTGTTGAGT
64254 AGTATCGATACCTATTCAAGTGGTATCGATACCAAGAGGGG
1 AGTATCGATACCTATTCAAGTGGTATCGATACCAAGAGGGG
*
64295 TGTATCGATACCTATTCAAGTGGTATCGATACCAAGAGGGG
1 AGTATCGATACCTATTCAAGTGGTATCGATACCAAGAGGGG
*
64336 AGTATCGATACCTATTCAAGTGGTATCGATACCAAGAAGGG
1 AGTATCGATACCTATTCAAGTGGTATCGATACCAAGAGGGG
64377 AGTATCGATACC-A-T-AAGAATGGTATCGATACCA
1 AGTATCGATACCTATTCAAG--TGGTATCGATACCA
64410 TTGAACATCG
Statistics
Matches: 110, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
38 3 0.03
39 1 0.01
40 15 0.14
41 91 0.83
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (41 bp):
AGTATCGATACCTATTCAAGTGGTATCGATACCAAGAGGGG
Found at i:64301 original size:20 final size:19
Alignment explanation
Indices: 64275--64409 Score: 101
Period size: 20 Copynumber: 6.7 Consensus size: 19
64265 CTATTCAAGT
*
64275 GGTATCGATACCAAGAGGG
1 GGTATCGATACCAAGAAGG
** *
64294 GTGTATCGATACCTATTCAAGT
1 G-GTATCGATACC-A-AGAAGG
*
64316 GGTATCGATACCAAGAGGG
1 GGTATCGATACCAAGAAGG
** *
64335 GAGTATCGATACCTATTCAAGT
1 G-GTATCGATACC-A-AGAAGG
64357 GGTATCGATACCAAGAAGG
1 GGTATCGATACCAAGAAGG
*
64376 GAGTATCGATACCATAAGAA-T
1 G-GTATCGATACC--AAGAAGG
64397 GGTATCGATACCA
1 GGTATCGATACCA
64410 TTGAACATCG
Statistics
Matches: 91, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
18 1 0.01
19 8 0.09
20 46 0.51
21 25 0.27
22 11 0.12
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (19 bp):
GGTATCGATACCAAGAAGG
Found at i:65183 original size:54 final size:54
Alignment explanation
Indices: 64821--65562 Score: 950
Period size: 54 Copynumber: 13.8 Consensus size: 54
64811 ACCAAACGGA
* *
64821 ACTAGGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
1 ACTAAGTGTGAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* * * *
64875 ACTATGTGTGCAAATACACGGAATTCATCATGAGTTGATGAATAACCGTACAGGC
1 ACTAAGTGTG-AATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
** *
64930 ACTAAGTGTGAATTCCATAGAATTCACCATGAGTTGATGAATAAACCGTACATGC
1 ACTAAGTGTGAATTCCACGGAATTCATCATGAGTTGATGAAT-AACCGTACATGC
* * * *
64985 ACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACAGTACAT--
1 ACTAAGTGTG-AATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* * * *
65038 --T---CGTGCATTCCAAGGAATTCATCATGAGTTGATGAATAACCGAACATGC
1 ACTAAGTGTGAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* *
65087 ACTATGTGTGCAGA-TCCACGGAATTCATCATGAGTTGATGAATAACCGTACATTC
1 ACTAAGTGTG-A-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* *
65142 ACTAAGTGTGAATTCCACGAAATTCATCATGAGTTGATGAATAACCATACA-GAC
1 ACTAAGTGTGAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATG-C
* * *
65196 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAATCGTACAGGC
1 ACTAAGTGTGAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* * * ** *
65250 ACTATGTGTGCAAATCCACGGAATTCAACATGAGTTGATGAATAATTGTACAGGC
1 ACTAAGTGTG-AATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* *
65305 ACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACA-GAC
1 ACTAAGTGTGAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATG-C
* *
65359 ACTATGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
1 ACTAAGTGTGAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* * *
65413 ACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAACAACCGTACA-GAC
1 ACTAAGTGTGAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATG-C
*
65467 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
1 ACTAAGTGTGAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
*
65521 ACTATGTGTGCAAATT-CACGGAATTCATCATGAGTTGATGAA
1 ACTAAGTGTG--AATTCCACGGAATTCATCATGAGTTGATGAA
65563 CTACATGTGC
Statistics
Matches: 608, Mismatches: 58, Indels: 43
0.86 0.08 0.06
Matches are distributed among these distances:
47 36 0.06
48 3 0.00
51 2 0.00
53 3 0.00
54 328 0.54
55 203 0.33
56 33 0.05
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (54 bp):
ACTAAGTGTGAATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
Found at i:65205 original size:109 final size:108
Alignment explanation
Indices: 64821--65562 Score: 1034
Period size: 109 Copynumber: 6.9 Consensus size: 108
64811 ACCAAACGGA
*
64821 ACTAGGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTGC
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTGC
* *
64886 AAATACACGGAATTCATCATGAGTTGATGAATAACCGTACAGGC
66 -AATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGAC
* ** *
64930 ACTAAGTGTGAATTCCATAGAATTCACCATGAGTTGATGAATAAACCGTACATGCACTATGTGTG
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAAT-AACCGTACATGCACTATGTGTG
* *
64995 CAAATCCACAGAATTCATCATGAGTTGATGAATAACAGT----AC
65 C-AATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGAC
* *
65036 A-T---TCGTGCATTCCAAGGAATTCATCATGAGTTGATGAATAACCGAACATGCACTATGTGTG
1 ACTAAGT-GTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTG
**
65097 CAGATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATTC
65 CA-ATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGAC
* * * *
65142 ACTAAGTGTGAATTCCACGAAATTCATCATGAGTTGATGAATAACCATACA-GACACTAAGTGTG
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATG-CACTATGTGTG
* * *
65206 CATTCCACGGAATTCATCATGAGTTGATGAATAATCGTACAGGC
65 CAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGAC
* * * ** * *
65250 ACTATGTGTGCAAATCCACGGAATTCAACATGAGTTGATGAATAATTGTACAGGCACTAAGTGTG
1 ACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTG
* *
65315 CATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGAC
65 CAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGAC
* *
65359 ACTATGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGC
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTGC
* * *
65424 ATTTCACGGAATTCATCATGAGTTGATGAACAACCGTACAGAC
66 AATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGAC
65467 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTGC
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTGC
*
65532 AAATTCACGGAATTCATCATGAGTTGATGAA
66 -AATCCACGGAATTCATCATGAGTTGATGAA
65563 CTACATGTGC
Statistics
Matches: 571, Mismatches: 47, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
101 1 0.00
102 57 0.10
103 31 0.05
105 1 0.00
106 4 0.01
107 1 0.00
108 202 0.35
109 214 0.37
110 60 0.11
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (108 bp):
ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTGC
AATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGAC
Found at i:65236 original size:163 final size:162
Alignment explanation
Indices: 64821--65562 Score: 1020
Period size: 163 Copynumber: 4.6 Consensus size: 162
64811 ACCAAACGGA
*
64821 ACTAGGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATG-CACTATGTGTG
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACA-GACACTATGTGTG
* * **
64885 CAAATACACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTG-AATTCCATA
65 C-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCAA-TCCACG
* *
64949 GAATTCACCATGAGTTGATGAATAAACCGTACATGC
128 GAATTCATCATGAGTTGATGAAT-AACCGTACAGGC
* * * * *
64985 ACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACAGT----ACA-T-T-CGTG
1 ACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGACACTATGTGTG
* * * *
65043 CATTCCAAGGAATTCATCATGAGTTGATGAATAACCGAACATGCACTATGTGTGCAGATCCACGG
65 CATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCA-ATCCACGG
**
65108 AATTCATCATGAGTTGATGAATAACCGTACATTC
129 AATTCATCATGAGTTGATGAATAACCGTACAGGC
* * * *
65142 ACTAAGTGTGAATTCCACGAAATTCATCATGAGTTGATGAATAACCATACAGACACTAAGTGTGC
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGACACTATGTGTGC
* *
65207 ATTCCACGGAATTCATCATGAGTTGATGAATAATCGTACAGGCACTATGTGTGCAAATCCACGGA
66 ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGC-AATCCACGGA
* **
65272 ATTCAACATGAGTTGATGAATAATTGTACAGGC
130 ATTCATCATGAGTTGATGAATAACCGTACAGGC
*
65305 ACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGACACTATGTGTGC
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGACACTATGTGTGC
* * *
65370 ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCATTTCACGGAA
66 ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCAATCCACGGAA
* *
65435 TTCATCATGAGTTGATGAACAACCGTACAGAC
131 TTCATCATGAGTTGATGAATAACCGTACAGGC
65467 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACATG-CACTATGTGTG
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACA-GACACTATGTGTG
65531 CAAATT-CACGGAATTCATCATGAGTTGATGAA
65 C--ATTCCACGGAATTCATCATGAGTTGATGAA
65563 CTACATGTGC
Statistics
Matches: 514, Mismatches: 49, Indels: 31
0.87 0.08 0.05
Matches are distributed among these distances:
156 32 0.06
157 67 0.13
158 31 0.06
159 2 0.00
160 4 0.01
161 3 0.01
162 98 0.19
163 229 0.45
164 14 0.03
165 34 0.07
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (162 bp):
ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGACACTATGTGTGC
ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCAATCCACGGAA
TTCATCATGAGTTGATGAATAACCGTACAGGC
Found at i:65784 original size:81 final size:80
Alignment explanation
Indices: 65682--66017 Score: 375
Period size: 81 Copynumber: 4.2 Consensus size: 80
65672 TAGTCCAAAA
* * * *
65682 TAAAAGGATAATAGCTTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCTAGTTAGATGAACG
1 TAAAAGGATAATGGCCTAACTGTGCAATTGGCAAAAATGTGTCAATTATGCCAGTTA-ATGAACG
*
65747 ATTAAATACTGTTGAG
65 GTTAAATACTGTTGAG
* * *
65763 TAAAAGGATAATGGCCTAACTGTGCAATTAGCAAAAATGTGTCAATGATTCCAGTTAAATGAACG
1 TAAAAGGATAATGGCCTAACTGTGCAATTGGCAAAAATGTGTCAATTATGCCAGTT-AATGAACG
*
65828 GTTAAATACCGTTGAG
65 GTTAAATACTGTTGAG
* * * * *
65844 TAAAAGGATATTGGCCTAACTGTGCAATTGGAAAAAATGTGTCAATTATGCCGGTTAACTAAATG
1 TAAAAGGATAATGGCCTAACTGTGCAATTGGCAAAAATGTGTCAATTATGCCAGTTAA-TGAACG
** *
65909 GTTAAGCACTGTTGGG
65 GTTAAATACTGTTGAG
* * * * * * * *
65925 TAAAAAGATAATGGCATAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCGGTTAGCTAAATG
1 TAAAAGGATAATGGCCTAACTGTGCAATTGGCAAAAATGTGTCAATTATGCCAGTTA-ATGAACG
** *
65990 GTTAAGCATTGTTGAG
65 GTTAAATACTGTTGAG
*
66006 TAAAAGAATAAT
1 TAAAAGGATAAT
66018 AGACTAGCTA
Statistics
Matches: 220, Mismatches: 32, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
80 2 0.01
81 217 0.99
82 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (80 bp):
TAAAAGGATAATGGCCTAACTGTGCAATTGGCAAAAATGTGTCAATTATGCCAGTTAATGAACGG
TTAAATACTGTTGAG
Found at i:66049 original size:81 final size:81
Alignment explanation
Indices: 65698--66055 Score: 244
Period size: 81 Copynumber: 4.4 Consensus size: 81
65688 GATAATAGCT
* ** ** * * * **
65698 TAACTGTGCAATTGGCAGAAATGTGTCAATTATGCTAGTTAGA-TGAACGATTAAATACTGTTGA
1 TAACTATGCAATTGGCAGAAAAATGTCAATTATGCCGGTTA-ACTAAATGGTTAAGCACTGTTGA
* * *
65762 GTAAAAGGATAATGGCC
65 GTAAAAAGATAATGACA
* * * * * * * * * ** *
65779 TAACTGTGCAATTAGCA-AAAATGTGTCAATGATTCCAGTTAAATGAACGGTTAAATACCGTTGA
1 TAACTATGCAATTGGCAGAAAA-ATGTCAATTATGCCGGTTAACTAAATGGTTAAGCACTGTTGA
* * * *
65843 GTAAAAGGATATTGGCC
65 GTAAAAAGATAATGACA
*
65860 TAACTGTGCAATTGG-A-AAAAATGTGTCAATTATGCCGGTTAACTAAATGGTTAAGCACTGTTG
1 TAACTATGCAATTGGCAGAAAAA--TGTCAATTATGCCGGTTAACTAAATGGTTAAGCACTGTTG
* *
65923 GGTAAAAAGATAATGGCA
64 AGTAAAAAGATAATGACA
* ** * *
65941 TAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCGGTTAGCTAAATGGTTAAGCATTGTTGAG
1 TAACTATGCAATTGGCAGAAAAATGTCAATTATGCCGGTTAACTAAATGGTTAAGCACTGTTGAG
66006 T-AAAAGAATAATAGAC-
66 TAAAAAG-ATAAT-GACA
* * *
66022 TAGCTATGC-CTTGGACAGAAAAATGTCAAATATG
1 TAACTATGCAATTGG-CAGAAAAATGTCAATTATG
66056 TAAGTTAAGT
Statistics
Matches: 233, Mismatches: 35, Indels: 18
0.81 0.12 0.06
Matches are distributed among these distances:
80 18 0.08
81 209 0.90
82 3 0.01
83 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (81 bp):
TAACTATGCAATTGGCAGAAAAATGTCAATTATGCCGGTTAACTAAATGGTTAAGCACTGTTGAG
TAAAAAGATAATGACA
Found at i:70688 original size:54 final size:54
Alignment explanation
Indices: 70536--71305 Score: 1013
Period size: 54 Copynumber: 14.1 Consensus size: 54
70526 GATTACCAAA
70536 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
** ** * * * * *
70590 AAACACTATTTGTGAAAATCCACGGAATTCATCGTTAGTTGATGAATAATCGTAC
1 AGGCACTAAGTGTG-CATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
70645 ATGCACTAAGTGTTCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
70699 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATATCCGTAC
1 AGGCACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
*
70754 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAATCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
70808 ATGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
70863 AGGCACTAAGTGTGAATTCAATGGAATTCATCATGAGTTGATGAATAATCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
70917 AAGCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGGTGAATAACCGTAC
1 AGGCACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
70972 AAGCACTAAGTGTGCATTCCACGGAATTCATAATGAGTTTATGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
71026 ATGCACTATGTGTGCAAATCCACGGAATTTATCATGAGTTGATGAATAACTGTAC
1 AGGCACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
71081 AGGCACTAAGTGTGCGTTCCAAGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
71135 ATGCACTAAGTGTGCATTCCACGAAATTCATCATGAGTTGATGAATAATCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
71189 AGGCACTAAGTTTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCTTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * ** * *
71243 AAGCACTATGTGTGCAAATT-CACAAAATTCATCATGAGTTGATGAACT-ACCATAT
1 AGGCACTAAGTGTGC--ATTCCACGGAATTCATCATGAGTTGATGAA-TAACCGTAC
71298 AGGCACTA
1 AGGCACTA
71306 CATTTGCATC
Statistics
Matches: 622, Mismatches: 86, Indels: 15
0.86 0.12 0.02
Matches are distributed among these distances:
54 343 0.55
55 275 0.44
56 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (54 bp):
AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:70729 original size:109 final size:109
Alignment explanation
Indices: 70536--71288 Score: 1152
Period size: 109 Copynumber: 6.9 Consensus size: 109
70526 GATTACCAAA
* *
70536 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAACACTATTT
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGT
* * *
70601 GTGAAAATCCACGGAATTCATCGTTAGTTGATGAATAATCGTAC
66 GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAATCGTAC
* * *
70645 ATGCACTAAGTGTTCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGT
*
70710 GTGCAAATCCACAGAATTCATCATGAGTTGATGAAT-ATCCGTAC
66 GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAAT-CGTAC
* *
70754 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAATCGTACATGCACTATGT
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGT
*
70819 GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
66 GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAATCGTAC
* * * *
70863 AGGCACTAAGTGTGAATTCAATGGAATTCATCATGAGTTGATGAATAATCGTACAAGCACTATGT
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGT
* * *
70928 GTGCAAATCCATGGAATTCATCATGAGTTGGTGAATAACCGTAC
66 GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAATCGTAC
* * * *
70972 AAGCACTAAGTGTGCATTCCACGGAATTCATAATGAGTTTATGAATAACCGTACATGCACTATGT
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGT
*
71037 GTGCAAATCCACGGAATTTATCATGAGTTGATGAATAA-CTGTAC
66 GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAATC-GTAC
* * * *
71081 AGGCACTAAGTGTGCGTTCCAAGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGT
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGT
* *
71146 GTGC-ATTCCACGAAATTCATCATGAGTTGATGAATAATCGTAC
66 GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAATCGTAC
* *
71189 AGGCACTAAGTTTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCTTACAAGCACTATGT
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGT
* **
71254 GTGCAAATTCACAAAATTCATCATGAGTTGATGAA
66 GTGCAAATCCACGGAATTCATCATGAGTTGATGAA
71289 CTACCATATA
Statistics
Matches: 589, Mismatches: 50, Indels: 10
0.91 0.08 0.02
Matches are distributed among these distances:
108 100 0.17
109 488 0.83
110 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (109 bp):
AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGT
GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAATCGTAC
Found at i:71723 original size:81 final size:81
Alignment explanation
Indices: 71588--71769 Score: 278
Period size: 81 Copynumber: 2.2 Consensus size: 81
71578 CGTTGAGTAA
* * *
71588 GTTGAGTAAGAGGATAATGGCCTAACTGTGCAATTAGTAGAAATGTGTCAATTATGCCGGTTAGC
1 GTTGAGTAAAAAGATAATGGCCTAACTATGCAATTAGTAGAAATGTGTCAATTATGCCGGTTAGC
71653 TGAATGGTTAAGCACT
66 TGAATGGTTAAGCACT
* *
71669 GTTGAGTAAAAAGATAATGGCCTAACTATGCAATTGGTAGAAA-GATTTCAATTATGCCGGTTAG
1 GTTGAGTAAAAAGATAATGGCCTAACTATGCAATTAGTAGAAATG-TGTCAATTATGCCGGTTAG
*
71733 TTGAATGGTTAAGCACT
65 CTGAATGGTTAAGCACT
71750 GTTGAGT-AAAAGAATAATGG
1 GTTGAGTAAAAAG-ATAATGG
71770 ACTAGCCATG
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
80 6 0.06
81 87 0.94
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (81 bp):
GTTGAGTAAAAAGATAATGGCCTAACTATGCAATTAGTAGAAATGTGTCAATTATGCCGGTTAGC
TGAATGGTTAAGCACT
Found at i:71806 original size:81 final size:80
Alignment explanation
Indices: 71588--71806 Score: 226
Period size: 81 Copynumber: 2.7 Consensus size: 80
71578 CGTTGAGTAA
* * * ** * * *
71588 GTTGAGTAAGAGGATAATGGCCTAACTGTGCAATTAGTAGAAATGTGTCAATTATGCCGGTTAGC
1 GTTGAGTAAAAAGATAATGGACTAACCATGCAATT-GGAAAAAAGTGTCAATTATGCCGGTTAGC
71653 TGAATGGTTAAGCACT
65 TGAATGGTTAAGCACT
* * * * * *
71669 GTTGAGTAAAAAGATAATGGCCTAACTATGCAATTGGTAGAAAGATTTCAATTATGCCGGTTAGT
1 GTTGAGTAAAAAGATAATGGACTAACCATGCAATTGGAAAAAAG-TGTCAATTATGCCGGTTAGC
71734 TGAATGGTTAAGCACT
65 TGAATGGTTAAGCACT
* * *
71750 GTTGAGT-AAAAGAATAATGGACTAGCCATGC-CTTGGACAAAAAAGTGTCAAATATGC
1 GTTGAGTAAAAAG-ATAATGGACTAACCATGCAATTGG--AAAAAAGTGTCAATTATGC
71807 AAGTTAAGTG
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
80 13 0.11
81 98 0.84
82 5 0.04
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (80 bp):
GTTGAGTAAAAAGATAATGGACTAACCATGCAATTGGAAAAAAGTGTCAATTATGCCGGTTAGCT
GAATGGTTAAGCACT
Found at i:78034 original size:21 final size:23
Alignment explanation
Indices: 78010--78060 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
78000 AGTGAATCGA
*
78010 TCCCCCCATG-A-GGGAAGCGAT
1 TCCCCCCATGAAGGGGAACCGAT
**
78031 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCATGAAGGGGAACCGAT
78054 TCCCCCC
1 TCCCCCC
78061 CACAGGGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 8 0.33
22 1 0.04
23 15 0.62
ACGTcount: A:0.20, C:0.39, G:0.24, T:0.18
Consensus pattern (23 bp):
TCCCCCCATGAAGGGGAACCGAT
Found at i:81467 original size:22 final size:22
Alignment explanation
Indices: 81407--81467 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
81397 TGTGCAATTT
81407 CTTTGAGTTAAATATT--ATAC
1 CTTTGAGTTAAATATTAAATAC
* * *
81427 CAGTT-AGATGAAAGATTAAATAC
1 C-TTTGAG-TTAAATATTAAATAC
81450 CTTTGAGTTAAATATTAA
1 CTTTGAGTTAAATATTAA
81468 TTGCCTAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
20 3 0.10
21 9 0.30
22 11 0.37
23 7 0.23
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (22 bp):
CTTTGAGTTAAATATTAAATAC
Found at i:81529 original size:81 final size:81
Alignment explanation
Indices: 81420--81912 Score: 662
Period size: 81 Copynumber: 6.1 Consensus size: 81
81410 TGAGTTAAAT
* * * *
81420 ATTATACCAGTTAGATGAAAGATTAAATACCTTTGAGTTAAATATTAATTGCCTAGCTGTGCATT
1 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGTGCATT
* *
81485 TGACATAAAGGTGCCA
66 TGACAGAAAGGTGTCA
* *
81501 ATTATGCCAGTTAGATGAAGGGTTAAATACCTTTGAGTAAAATATTAATTGCCTAGCTGTGCATT
1 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGTGCATT
81566 TGACAGAAAGGTGTCA
66 TGACAGAAAGGTGTCA
* * *
81582 ATTATGCCAGTTAGATGAAAGGTTAAATGCATTTGAGTAAAAGATTAACTGCCTAGCTGTGCATT
1 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGTGCATT
*
81647 TGACAGAAATGTGTCA
66 TGACAGAAAGGTGTCA
* *
81663 ATTATGCCAGTTAGATGAAAGGTTAAATGCCTTTGAGTAAAAGATTAATTGTCTAGCTGTGCATT
1 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGTGCATT
* *
81728 TGATAGAAATGTGTCA
66 TGACAGAAAGGTGTCA
* * * * *
81744 ATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTTAAAGATTAAATGCCTAGTTGTGCATT
1 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGTGCATT
*
81809 TGGCAGAAAGGTGTCA
66 TGACAGAAAGGTGTCA
* * * * * * * * * *
81825 ATCATGCAAGTTAGATGAAATGCTAAATACCTTTGGGTAAAAGACTAAATGCTTAACAGTGCATT
1 ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGTGCA-T
*
81890 TTGACATAAATGGTGTCA
65 TTGACAGAAA-GGTGTCA
*
81908 TTTAT
1 ATTAT
81913 TGATTTGACT
Statistics
Matches: 371, Mismatches: 39, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
81 352 0.95
82 9 0.02
83 10 0.03
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (81 bp):
ATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGTGCATT
TGACAGAAAGGTGTCA
Found at i:83235 original size:32 final size:32
Alignment explanation
Indices: 83194--83256 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
83184 CCCAGAAACA
*
83194 ACACTCTAACAAAGTAACTAAATTATAACTAT
1 ACACTCTAACAAAATAACTAAATTATAACTAT
*
83226 ACACTCTAACAAAATAACTGAATTATAACTA
1 ACACTCTAACAAAATAACTAAATTATAACTA
83257 CTTACAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (32 bp):
ACACTCTAACAAAATAACTAAATTATAACTAT
Found at i:85244 original size:32 final size:32
Alignment explanation
Indices: 85203--85265 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
85193 CCCACAAACA
*
85203 ACACTCTAACAAAGTAAATGATTTATAACTAT
1 ACACTCTAACAAAGTAAATGAATTATAACTAT
*
85235 ACACTCTAACAAAGTAACTGAATTATAACTA
1 ACACTCTAACAAAGTAAATGAATTATAACTA
85266 CTTATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (32 bp):
ACACTCTAACAAAGTAAATGAATTATAACTAT
Found at i:85947 original size:16 final size:16
Alignment explanation
Indices: 85928--85964 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
85918 TGAATGGACC
*
85928 TGAATTTAAATTGACT
1 TGAATTTAAAATGACT
*
85944 TGAACTTAAAATGACT
1 TGAATTTAAAATGACT
85960 TGAAT
1 TGAAT
85965 AAGTAATATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38
Consensus pattern (16 bp):
TGAATTTAAAATGACT
Found at i:93805 original size:10 final size:10
Alignment explanation
Indices: 93778--93810 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
93768 TTTTCATATT
93778 TTTATCATTC
1 TTTATCATTC
93788 TTTA-CATTC
1 TTTATCATTC
*
93797 TTTATCATTT
1 TTTATCATTC
93807 TTTA
1 TTTA
93811 CAGTATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATCATTC
Found at i:95355 original size:11 final size:11
Alignment explanation
Indices: 95336--95398 Score: 62
Period size: 10 Copynumber: 6.0 Consensus size: 11
95326 TACCACACTC
*
95336 GAAATAAAAAA
1 GAAAGAAAAAA
95347 GAAAGAAAAAA
1 GAAAGAAAAAA
*
95358 G-AGGAAAAAA
1 GAAAGAAAAAA
95368 GAACA-AAAAAA
1 GAA-AGAAAAAA
*
95379 G-AAGAAGAAA
1 GAAAGAAAAAA
95389 -AAAGAAAAAA
1 GAAAGAAAAAA
95399 AGAATGGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
9 1 0.02
10 23 0.53
11 19 0.44
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (11 bp):
GAAAGAAAAAA
Found at i:95367 original size:21 final size:21
Alignment explanation
Indices: 95341--95398 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
95331 CACTCGAAAT
*
95341 AAAAAAGAAAGAAAAAAGAGG
1 AAAAAAGAAAGAAAAAAGAAG
95362 AAAAAAGAACA-AAAAAAGAAG
1 AAAAAAGAA-AGAAAAAAGAAG
*
95383 AAGAAA-AAAGAAAAAA
1 AAAAAAGAAAGAAAAAA
95399 AGAATGGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 1 0.03
20 8 0.24
21 23 0.70
22 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAGAAAAAAGAAG
Found at i:95381 original size:32 final size:32
Alignment explanation
Indices: 95341--95402 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 32
95331 CACTCGAAAT
95341 AAAAAAG-A-AAGAAAAAAGAGGAAAAAAGAACA
1 AAAAAAGAAGAAGAAAAAAGA--AAAAAAGAACA
95373 AAAAAAGAAGAAGAAAAAAGAAAAAAAGAA
1 AAAAAAGAAGAAGAAAAAAGAAAAAAAGAA
95403 TGGATAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 16 0.57
33 1 0.04
34 11 0.39
ACGTcount: A:0.81, C:0.02, G:0.18, T:0.00
Consensus pattern (32 bp):
AAAAAAGAAGAAGAAAAAAGAAAAAAAGAACA
Found at i:97295 original size:134 final size:134
Alignment explanation
Indices: 97108--97659 Score: 671
Period size: 134 Copynumber: 4.1 Consensus size: 134
97098 TTTAATTTGT
* * * * * * *
97108 AGATCTGATATTTCATTCGGAGAAAGCAAAACAGGT-CCTTTTTGTCCAAGATTTGATATTCCTT
1 AGATCTGATATTCCCTTCAGAGAAAGCAGAAGATGTCCCTCTTT-TCCAAGATTTGATATTCCTT
* * * *
97172 AAGTGACATCGGAATAAGTCTGCCCCGATCCAATCTTCCCTGAGTAATAGCGGAATGGATCAACT
65 AAGTGACAACGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAACT
97237 CCCCC
130 CCCCC
* * * *
97242 ATATTTGATATTCCCTTCAGAGAAAGCAGAAGATGTCCCTCTTTTCCAAGATTTGATATTCCCTG
1 AGATCTGATATTCCCTTCAGAGAAAGCAGAAGATGTCCCTCTTTTCCAAGATTTGATATTCCTTA
* * * * * *
97307 AGTGACAGCGAAACAAGT-TAGCCCCGATTCAATCATCCGTGAGTGATAGCGGAATGGATCAACT
66 AGTGACAACGGAACAAGTCT-GCCCCGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAACT
97371 CCCCC
130 CCCCC
* * * * *
97376 AAATCTGATATTCCCTTCAGAGAAAGCAGAAGAGGTCCCACTTCTCCAAGATTTGATATTCCTTG
1 AGATCTGATATTCCCTTCAGAGAAAGCAGAAGATGTCCCTCTTTTCCAAGATTTGATATTCCTTA
** * * *
97441 AGTGACAAAAGAACAAGTCTGCCCCGATTCAATCTTCCTTGAATAACAGCAGAATGGATCAACTC
66 AGTGACAACGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAACTC
97506 CCCC
131 CCCC
** * * *
97510 AGATCTGATATTCATTTAAGAGAAAGC-GAAACATGTCCCTTTTTTCCAAGATTTGATATTCCTT
1 AGATCTGATATTCCCTTCAGAGAAAGCAG-AAGATGTCCCTCTTTTCCAAGATTTGATATTCCTT
* * * * *
97574 AAGTGATAACGGAACAAGTATGCCTCGATTCAATATTCACTGAGTAACAGCGGAATGGATCAACA
65 AAGTGACAACGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAAC-
97639 T-CCCC
129 TCCCCC
97644 AGATCTGATATTCCCT
1 AGATCTGATATTCCCT
97660 GAGTGACAGC
Statistics
Matches: 357, Mismatches: 56, Indels: 10
0.84 0.13 0.02
Matches are distributed among these distances:
133 2 0.01
134 347 0.97
135 8 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (134 bp):
AGATCTGATATTCCCTTCAGAGAAAGCAGAAGATGTCCCTCTTTTCCAAGATTTGATATTCCTTA
AGTGACAACGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAACTC
CCCC
Found at i:105615 original size:37 final size:37
Alignment explanation
Indices: 105573--105658 Score: 138
Period size: 37 Copynumber: 2.4 Consensus size: 37
105563 AAATGAACAT
105573 ATTTATTTTATTTGTATCATTTACATCTCGTTTGATC
1 ATTTATTTTATTTGTATCATTTACATCTCGTTTGATC
* * *
105610 GTTTATTTTATTTGTATCTTTTACATTTCGTTTGATC
1 ATTTATTTTATTTGTATCATTTACATCTCGTTTGATC
105647 ATTTA-TTTATTT
1 ATTTATTTTATTT
105659 TCTGATTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 7 0.16
37 38 0.84
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.62
Consensus pattern (37 bp):
ATTTATTTTATTTGTATCATTTACATCTCGTTTGATC
Found at i:105643 original size:20 final size:20
Alignment explanation
Indices: 105583--105651 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 20
105573 ATTTATTTTA
*
105583 TTTGTATCATTTACATCTCG
1 TTTGTATCATTTACATTTCG
* **
105603 TTTG-ATCGTTT--ATTTTA
1 TTTGTATCATTTACATTTCG
*
105620 TTTGTATCTTTTACATTTCG
1 TTTGTATCATTTACATTTCG
105640 TTTG-ATCATTTA
1 TTTGTATCATTTA
105652 TTTATTTTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
17 7 0.18
18 6 0.16
19 13 0.34
20 12 0.32
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.58
Consensus pattern (20 bp):
TTTGTATCATTTACATTTCG
Found at i:113186 original size:343 final size:349
Alignment explanation
Indices: 112515--113193 Score: 939
Period size: 352 Copynumber: 2.0 Consensus size: 349
112505 CATGGCATTA
* * * *
112515 GTTCAACCCTCTTAACCACTTATTAAATTTTTTCTTGGATGACATGGATTGGATAAATTTAGGTT
1 GTTCAACCCTCTCAACCACCTATTAAATTTTTTCTTGGATAACATGGATTGGATAAATTCAGGTT
*
112580 CAAGGGCCTGAATTAACTGAAAATTTACAAATTAACCATCAAAGTTTAAAACTATACATCTTGAT
66 CAAGGGCCTGAATTAACTGAAAACTTACAAATTAACCATCAAAGTTTAAAACTATACATCTTGAT
*
112645 CCTTAAATAAAATAATTAATTAATAAAAATAATTAAATTAGAAATTGGAGGGTTGTGACACATTA
131 CCCTAAATAAAATAATTAATTAATAAAAATAATTAAATTAGAAATTGGAGGG-TGTGACACATTA
* *
112710 TGCTGATTTATATTTGATTTGAATTATCGATTGATTCTCTTATATTGATATATATTAGTAATTAT
195 TGCTGATTTATA-TTGATTTGAATTATCGATTGATTATCTCATATTGATATATATTAGTAATTAT
* **
112775 TCAGATATATTATACTTGAGTTGTGATAAGATCTGCTATTAACTTGTCATAATCATTCATCATTA
259 TCAGATATATTATACTTGAGTTGTGATAAAATCTGCTATTAAAATGTCATAATCATTCATCATTA
112840 TTCCTTTTTATGCTAGCATGTCATGG
324 TTCCTTTTTATGCTAGCATGTCATGG
* * * * * *
112866 GTTCAACCCCTCTCAATCACCTATTAATTTTTTTCTTGGCTAACATGGGTTGGATAGATTCGGGT
1 GTTCAA-CCCTCTCAACCACCTATTAAATTTTTTCTTGGATAACATGGATTGGATAAATTCAGGT
* * * * *
112931 TCAAGGG-CTTAGATTGACTGAAAACTTACAAATTAACCCTCAAAGTTTAAAACTATACATTTTT
65 TCAAGGGCCTGA-ATTAACTGAAAACTTACAAATTAACCATCAAAGTTTAAAACTATACATCTTG
* * *
112995 ATCCCTAAATACAATAATTAATTAAATAAAAATAATTAAATTATAAATT-G-GGG-GTGACACTT
129 ATCCCTAAATAAAATAATTAATT-AATAAAAATAATTAAATTAGAAATTGGAGGGTGTGACACAT
* *
113057 TATGCTGA-TT-TA-T-A-TTGAATTATTGATT-AGTTATCTCATATTGATATATTTTAGTAATT
193 TATGCTGATTTATATTGATTTGAATTATCGATTGA-TTATCTCATATTGATATATATTAGTAATT
* * * *
113116 ATTTAGATATATTATACTTGAGTTGTGATAAAATCAT-TTGTTAAAATGTCATAATCATTTATCA
257 ATTCAGATATATTATACTTGAGTTGTGATAAAATC-TGCTATTAAAATGTCATAATCATTCATCA
113180 TTATTCCTTTTTAT
321 TTATTCCTTTTTAT
113194 AATAGTGTAG
Statistics
Matches: 292, Mismatches: 31, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
342 1 0.00
343 108 0.37
344 2 0.01
345 1 0.00
347 2 0.01
348 2 0.01
349 16 0.05
351 12 0.04
352 124 0.42
353 24 0.08
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (349 bp):
GTTCAACCCTCTCAACCACCTATTAAATTTTTTCTTGGATAACATGGATTGGATAAATTCAGGTT
CAAGGGCCTGAATTAACTGAAAACTTACAAATTAACCATCAAAGTTTAAAACTATACATCTTGAT
CCCTAAATAAAATAATTAATTAATAAAAATAATTAAATTAGAAATTGGAGGGTGTGACACATTAT
GCTGATTTATATTGATTTGAATTATCGATTGATTATCTCATATTGATATATATTAGTAATTATTC
AGATATATTATACTTGAGTTGTGATAAAATCTGCTATTAAAATGTCATAATCATTCATCATTATT
CCTTTTTATGCTAGCATGTCATGG
Found at i:114066 original size:22 final size:22
Alignment explanation
Indices: 114041--114088 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
114031 TTTCCTATCC
* *
114041 AATTATAGAACCCTAATTCCCA
1 AATTAGAGAACCATAATTCCCA
* *
114063 AATT-GAGTACCATAATTTCCA
1 AATTAGAGAACCATAATTCCCA
114084 AATTA
1 AATTA
114089 AAACCCCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (22 bp):
AATTAGAGAACCATAATTCCCA
Found at i:116484 original size:16 final size:16
Alignment explanation
Indices: 116463--116497 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
116453 GTTTTATCTT
*
116463 TTAGCATTCATTTGGA
1 TTAGCATCCATTTGGA
116479 TTAGCATCCATTTGGA
1 TTAGCATCCATTTGGA
116495 TTA
1 TTA
116498 AAACAGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (16 bp):
TTAGCATCCATTTGGA
Found at i:119638 original size:40 final size:40
Alignment explanation
Indices: 119583--119665 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
119573 ATTGCAAGGT
119583 TTATTCAATTAAAAATATACTCAATGAATAGAGTAGTAGA
1 TTATTCAATTAAAAATATACTCAATGAATAGAGTAGTAGA
*
119623 TTATTCAATTAAAAATATACTCGATGAATAGAGTAGTAGA
1 TTATTCAATTAAAAATATACTCAATGAATAGAGTAGTAGA
119663 TTA
1 TTA
119666 AGACTAACGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (40 bp):
TTATTCAATTAAAAATATACTCAATGAATAGAGTAGTAGA
Found at i:123707 original size:68 final size:72
Alignment explanation
Indices: 123625--123791 Score: 234
Period size: 68 Copynumber: 2.4 Consensus size: 72
123615 CGGTACCCCT
* * **
123625 TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG-C-AAA-TGTTTAGGGGAATCG
1 TGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGACAAAACCATTTAGGGGAATCG
123687 G-TCCTA
66 GTTCCTA
* *
123693 TGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGGACAAAACCATTTAGGGGAATCG
1 TGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGACAAAACCATTTAGGGGAATCG
123758 GTTCCTA
66 GTTCCTA
*
123765 TGGGGGGGAATCGGTTCCCTCTGAGCA
1 T-GGGGGGAATCGGTTCCCTCCGAGCA
123792 ATCTGTAATT
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
68 39 0.45
69 1 0.01
70 3 0.03
71 14 0.16
72 6 0.07
73 24 0.28
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.24
Consensus pattern (72 bp):
TGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGACAAAACCATTTAGGGGAATCG
GTTCCTA
Done.