Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001725.1 Hibiscus syriacus cultivar Beakdansim tig00003488_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: 51964
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:239 original size:18 final size:18
Alignment explanation
Indices: 203--240 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
193 TCATAACAAT
*
203 TAAATAATTTTTATCATA
1 TAAATAATTTTTATAATA
221 TAAATAATTCTTT-TAATA
1 TAAATAATT-TTTATAATA
239 TA
1 TA
241 GTACTCTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATAATTTTTATAATA
Found at i:1559 original size:14 final size:13
Alignment explanation
Indices: 1527--1551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1517 TTTGTTTAAT
1527 AATTTTAAAAATA
1 AATTTTAAAAATA
1540 AATTTTAAAAAT
1 AATTTTAAAAAT
1552 TCATTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTTTAAAAATA
Found at i:2399 original size:20 final size:21
Alignment explanation
Indices: 2376--2417 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
2366 ATAGTATATT
*
2376 AAAATATATAATATATT-TAA
1 AAAATATATAAAATATTCTAA
2396 AAAATATATAAAATATTCTAA
1 AAAATATATAAAATATTCTAA
2417 A
1 A
2418 TTTAATAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATATATAAAATATTCTAA
Found at i:6408 original size:31 final size:31
Alignment explanation
Indices: 6370--6431 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
6360 GTTAACCAAC
6370 CCATCTCCTAAACATTCCTCTTTACTTTGGG
1 CCATCTCCTAAACATTCCTCTTTACTTTGGG
6401 CCATCTCCTAAACATTCCTCTTTACTTTGGG
1 CCATCTCCTAAACATTCCTCTTTACTTTGGG
6432 TTAATACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.32, G:0.10, T:0.39
Consensus pattern (31 bp):
CCATCTCCTAAACATTCCTCTTTACTTTGGG
Found at i:13013 original size:24 final size:24
Alignment explanation
Indices: 12983--13040 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
12973 ATTGTAAAAA
12983 TGTGTATAAATAGGCAATGTGGAG
1 TGTGTATAAATAGGCAATGTGGAG
13007 TGTGTATAAATAGGCAATGTGGAG
1 TGTGTATAAATAGGCAATGTGGAG
13031 TGTGTATAAA
1 TGTGTATAAA
13041 GAAGAGAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.31
Consensus pattern (24 bp):
TGTGTATAAATAGGCAATGTGGAG
Found at i:13134 original size:18 final size:18
Alignment explanation
Indices: 13111--13161 Score: 63
Period size: 16 Copynumber: 3.0 Consensus size: 18
13101 AAATTTGGCA
13111 AGTTGGAAAATTCATCTT
1 AGTTGGAAAATTCATCTT
* *
13129 AGTTGG-TAA-TCAACTT
1 AGTTGGAAAATTCATCTT
13145 A-TTGGAAAATTCATCTT
1 AGTTGGAAAATTCATCTT
13162 TATTGGTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
15 4 0.15
16 9 0.33
17 8 0.30
18 6 0.22
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (18 bp):
AGTTGGAAAATTCATCTT
Found at i:13166 original size:18 final size:17
Alignment explanation
Indices: 13113--13167 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
13103 ATTTGGCAAG
13113 TTGGAAAATTCATCTTA
1 TTGGAAAATTCATCTTA
* *
13130 GTTGG-TAA-TCAACTTA
1 -TTGGAAAATTCATCTTA
13146 TTGGAAAATTCATCTTTA
1 TTGGAAAATTCATC-TTA
13164 TTGG
1 TTGG
13168 TGGCCAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 4 0.13
16 9 0.30
17 6 0.20
18 11 0.37
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (17 bp):
TTGGAAAATTCATCTTA
Found at i:13209 original size:34 final size:33
Alignment explanation
Indices: 13113--13211 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
13103 ATTTGGCAAG
* ***
13113 TTGGAAAATTCATCTTAGTTGGTAATCAACTTA
1 TTGGAAAATTCATCTTTGTTGGTGGCCAACTTA
*
13146 TTGGAAAATTCATCTTTATTGGTGGCCAACTTA
1 TTGGAAAATTCATCTTTGTTGGTGGCCAACTTA
*
13179 TTGGAAAATTCATCTTTGGTAGGTGGCCAACTT
1 TTGGAAAATTCATCTTT-GTTGGTGGCCAACTT
13212 TGCATATGTG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
33 45 0.78
34 13 0.22
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGGAAAATTCATCTTTGTTGGTGGCCAACTTA
Found at i:14757 original size:28 final size:28
Alignment explanation
Indices: 14715--14797 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
14705 GTGTAAACAC
*
14715 CATTTTTCAAACATCAACACCCACCATCT
1 CATTTTTC-AACATCAACACCCACCATCA
*
14744 CATTTTTCAACATCAATACCCACCA-CA
1 CATTTTTCAACATCAACACCCACCATCA
* *
14771 CTATTTTTCAACACCAAC-CCCATCATC
1 C-ATTTTTCAACATCAACACCCACCATC
14798 CCTTGTTCCC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.17
28 31 0.66
29 8 0.17
ACGTcount: A:0.34, C:0.39, G:0.00, T:0.28
Consensus pattern (28 bp):
CATTTTTCAACATCAACACCCACCATCA
Found at i:21702 original size:39 final size:37
Alignment explanation
Indices: 21633--21742 Score: 134
Period size: 39 Copynumber: 2.9 Consensus size: 37
21623 ATTTTTCTTA
* * *
21633 AAACAAGATTTTGTCTCACTTGAGATAGTTTCTCTCG
1 AAACAAGATTTTGTCTCGCTTTAGACAGTTTCTCTCG
* *
21670 AAACAGAAGATTTTGTCTCGCTTTAGACAGTTTCCCTTG
1 AAAC--AAGATTTTGTCTCGCTTTAGACAGTTTCTCTCG
21709 AAACAA-ATTTTGTCTCG-TTTGAGACAGTTTCTCT
1 AAACAAGATTTTGTCTCGCTTT-AGACAGTTTCTCT
21743 TAAAACACAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
35 3 0.05
36 23 0.36
37 6 0.09
39 32 0.50
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (37 bp):
AAACAAGATTTTGTCTCGCTTTAGACAGTTTCTCTCG
Found at i:21734 original size:36 final size:35
Alignment explanation
Indices: 21633--21952 Score: 196
Period size: 36 Copynumber: 9.1 Consensus size: 35
21623 ATTTTTCTTA
* * * *
21633 AAACAAGATTTTGTCTCACTTGAGATAGTTTCTCTCG
1 AAACAA-ATTTTGTCTC-TTTGAGACAGTTTCCCTTG
21670 AAACAGAAGATTTTGTCTCGCTTT-AGACAGTTTCCCTTG
1 AAAC--AA-ATTTTGTCT--CTTTGAGACAGTTTCCCTTG
* *
21709 AAACAAATTTTGTCTCGTTTGAGACAGTTTCTCTTA
1 AAACAAATTTTGTCTC-TTTGAGACAGTTTCCCTTG
** * **
21745 AAACACAA---AATC-C-TTGA-ATATGTTTCTATTG
1 AAACA-AATTTTGTCTCTTTGAGACA-GTTTCCCTTG
* * * *
21776 AAATAAATTTTGTCTCCCTTAAGACAGTTTCTCTTG
1 AAACAAATTTTGTCT-CTTTGAGACAGTTTCCCTTG
** * * *
21812 AAACAAA-----AATCTTTCAGACCGTTTCCATTG
1 AAACAAATTTTGTCTCTTTGAGACAGTTTCCCTTG
*
21842 AAACAAATTTTTTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCT-TTGAGACAGTTTCCCTTG
* * * *
21878 AAACGAGTTTTGTCTCTCTTGAGACAATCTCCCTTG
1 AAACAAATTTTGTCTCT-TTGAGACAGTTTCCCTTG
*
21914 AAACAAATTTTGTCTCTATTAAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCT-TTGAGACAGTTTCCCTTG
21950 AAA
1 AAA
21953 GAAGAAATGT
Statistics
Matches: 221, Mismatches: 41, Indels: 43
0.72 0.13 0.14
Matches are distributed among these distances:
30 26 0.12
31 17 0.08
33 3 0.01
34 3 0.01
35 7 0.03
36 124 0.56
37 10 0.05
39 28 0.13
40 2 0.01
41 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (35 bp):
AAACAAATTTTGTCTCTTTGAGACAGTTTCCCTTG
Found at i:21867 original size:66 final size:66
Alignment explanation
Indices: 21690--21881 Score: 228
Period size: 66 Copynumber: 2.9 Consensus size: 66
21680 TTTTGTCTCG
* *
21690 CTTTAGACAGTTTCCCTTGAAACAAATTTTGTCTCGT-TTGAGACAGTTTCTCTTAAAACACAAA
1 CTTTAGACAGTTTCCATTGAAACAAATTTTGTCTC-TCTTGAGACAGTTTCTCTTGAAACACAAA
21754 AT
65 AT
* * * * * *
21756 CCTT-GAATATGTTTCTATTGAAATAAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACA-AA
1 CTTTAG-ACA-GTTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAA
21819 AAT
64 AAT
* * *
21822 CTTTCAGACCGTTTCCATTGAAACAAATTTTTTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 CTTT-AGACAGTTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
21882 GAGTTTTGTC
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
65 1 0.01
66 57 0.55
67 45 0.43
68 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.38
Consensus pattern (66 bp):
CTTTAGACAGTTTCCATTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAAA
T
Found at i:22489 original size:44 final size:42
Alignment explanation
Indices: 22419--22575 Score: 147
Period size: 44 Copynumber: 3.7 Consensus size: 42
22409 GATGTCTCGT
* *
22419 TCAATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGC
1 TCAAATCCATCGCAGAAGGAGGTGGATCGACA-TTTT-TTTCGC
* * * *
22463 TCAAATCCATCGTAGAAGGAGTTGGATCAGCGTCAATTTTTT-GC
1 TCAAATCCATCGCAGAAGGAGGTGGAT---CGACATTTTTTTCGC
* * * * *
22507 TCGATTCTATCACAGAAGGAGGTGGATCGACA-TTTGTTCGC
1 TCAAATCCATCGCAGAAGGAGGTGGATCGACATTTTTTTCGC
*
22548 TCAAATCCATCGCAGAAGGAGTTGGATC
1 TCAAATCCATCGCAGAAGGAGGTGGATC
22576 AGCGTCAACT
Statistics
Matches: 90, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
40 5 0.06
41 29 0.32
44 46 0.51
45 3 0.03
46 3 0.03
47 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (42 bp):
TCAAATCCATCGCAGAAGGAGGTGGATCGACATTTTTTTCGC
Found at i:22575 original size:85 final size:87
Alignment explanation
Indices: 22422--22619 Score: 301
Period size: 85 Copynumber: 2.3 Consensus size: 87
22412 GTCTCGTTCA
* * *
22422 ATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGTAGAAGGAGTTG
1 ATTCTATCACAGAAGGAGGTGGATCGACA-TTTTAGTTCGCTCAAATCCATCGCAGAAGGAGTTG
*
22487 GATCAGCGTCAATTTTTTGCTCG
65 GATCAGCGTCAACTTTTTGCTCG
22510 ATTCTATCACAGAAGGAGGTGGATCGACA-TTT-GTTCGCTCAAATCCATCGCAGAAGGAGTTGG
1 ATTCTATCACAGAAGGAGGTGGATCGACATTTTAGTTCGCTCAAATCCATCGCAGAAGGAGTTGG
22573 ATCAGCGTCAACTTTTTGCTCG
66 ATCAGCGTCAACTTTTTGCTCG
* * * *
22595 TTTCTATAACGGAAGGAGGTAGATC
1 ATTCTATCACAGAAGGAGGTGGATC
22620 AGCATCGACA
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
85 71 0.70
86 3 0.03
88 28 0.27
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (87 bp):
ATTCTATCACAGAAGGAGGTGGATCGACATTTTAGTTCGCTCAAATCCATCGCAGAAGGAGTTGG
ATCAGCGTCAACTTTTTGCTCG
Found at i:22611 original size:44 final size:43
Alignment explanation
Indices: 22476--23588 Score: 175
Period size: 44 Copynumber: 25.3 Consensus size: 43
22466 AATCCATCGT
*
22476 AGAAGGAGTTGGATCAGCGTCAATTTTTTGCTCGATTCTATCAC
1 AGAAGGAGGTGGATCAGCGTCAA-TTTTTGCTCGATTCTATCAC
* * * * *
22520 AGAAGGAGGTGGAT---CGAC-ATTTGTTCGCTCAAATCCATCGC
1 AGAAGGAGGTGGATCAGCGTCAATTT-TT-GCTCGATTCTATCAC
* * *
22561 AGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGTTTCTATAAC
1 AGAAGGAGGTGGATCAGCGTCAA-TTTTTGCTCGATTCTATCAC
* * * * * * * * *
22605 GGAAGGAGGTAGATCAGCATCGACA-TCTCGTTTGACTCCATCAC
1 AGAAGGAGGTGGATCAGCGTC-A-ATTTTTGCTCGATTCTATCAC
* * * ** * * * *
22649 AAAAGGAGGTGGAT-TGACAT-TTTTATCTTCGCTCAAATCCATCGC
1 AGAAGGAGGTGGATCAG-CGTCAATT-T-TT-GCTCGATTCTATCAC
* *
22694 AGAAGGAGTTGGATCAGCGTCAATTTTTTGCTTGATTCTATCAC
1 AGAAGGAGGTGGATCAGCGTCAA-TTTTTGCTCGATTCTATCAC
* * * * * * *
22738 AGAAGAAGGTAGATCAGCATCGACA-TCTCGTTCGATTCCATCAC
1 AGAAGGAGGTGGATCAGCGTC-A-ATTTTTGCTCGATTCTATCAC
* * * * * * **
22782 AGAAGGAAGTGGGT---CGAC-ATTTGTTCGCTCAAATCCATCGT
1 AGAAGGAGGTGGATCAGCGTCAATTT-TT-GCTCGATTCTATCAC
* * * *
22823 AGAAGGAGTTGGATCATCGTCAACTTTTTACTCG-TGTCTATCAT
1 AGAAGGAGGTGGATCAGCGTCAA-TTTTTGCTCGAT-TCTATCAC
* * * * * *
22867 AGAAGGAGGTAGATCAGCATCAATATCTCGTTCGATT-TCATAAC
1 AGAAGGAGGTGGATCAGCGTCAAT-TTTTGCTCGATTCT-ATCAC
* * * * *
22911 AGAAGGAGGTGGATC-G-AT--ATTTTTATCTTCGTACAAATCCATCGC
1 AGAAGGAGGTGGATCAGCGTCAATTTTT-GC-TCG----ATTCTATCAC
* * *
22956 AGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTCTATCAT
1 AGAAGGAGGTGGATCAGCGTCAA-TTTTTGCTCGATTCTATCAC
* * *** * * * * *
23000 AGAAGGAGATAGATCAATATTGACA-TATCGTTCGATTTCCATCAC
1 AGAAGGAGGTGGATC-AGCGTCA-ATTTTTGCTCGA-TTCTATCAC
* * ** * * * *
23045 AGAAGAAGGTGGATC-GACAT-TTTTATCTTCGCTCAAATCCATCGC
1 AGAAGGAGGTGGATCAG-CGTCAATT-T-TT-GCTCGATTCTATCAC
* * * ** *
23090 AAAAAGAGTTGGATCAGCGTCAACTTTTTGCTCTTTTCTATCAT
1 AGAAGGAGGTGGATCAGCGTCAA-TTTTTGCTCGATTCTATCAC
* * * * *
23134 AGAAGGAGGTAGATCAGCATCGACA-TCTCGTTCGATT-TCATCAC
1 AGAAGGAGGTGGATCAGCGTC-A-ATTTTTGCTCGATTCT-ATCAC
* *** ** * * * * *
23178 AGAAGGAGCTGGATCGATATTTTTATCTTTGCTCAAATCCATCGC
1 AGAAGGAGGTGGATC-A-GCGTCAATTTTTGCTCGATTCTATCAC
* *
23223 AGAAGGAGTTGGATCAGTGTCAACTTTTTG-TGCGATTCTATCAC
1 AGAAGGAGGTGGATCAGCGTCAA-TTTTTGCT-CGATTCTATCAC
* * * ** * * *
23267 AGAAAGAGGTAGATCAACACCAATATTT-CATTTGATTCCATCAC
1 AGAAGGAGGTGGATCAGCGTCAATTTTTGC--TCGATTCTATCAC
* * * * * *
23311 AGAAGGAGGTGGATCA---ACATTTGTTTGCTCAAATCCATCAT
1 AGAAGGAGGTGGATCAGCGTCAATT-TTTGCTCGATTCTATCAC
* * *
23352 AGAAGGAGTTGGATGAGCGTCAACTTTTTGCTCGTTTCTATCAC
1 AGAAGGAGGTGGATCAGCGTCAA-TTTTTGCTCGATTCTATCAC
* * * * * * *
23396 AGAAAGAGGTAGATCAACATCGACA-TCTCGTTCGATT-TCATCAC
1 AGAAGGAGGTGGATCAGCGTC-A-ATTTTTGCTCGATTCT-ATCAC
* * * ** * * * **
23440 AGAATGAGGTTGATC-GACAT-TTTTATCTTCGCTCAAATCCATCGT
1 AGAAGGAGGTGGATCAG-CGTCAATT-T-TT-GCTCGATTCTATCAC
* * *
23485 AGAAGGAGTTGGATCAGCGCCAACTTTTAGCTCGATTCTATCAC
1 AGAAGGAGGTGGATCAGCGTCAA-TTTTTGCTCGATTCTATCAC
* * * * * * *
23529 AGAAGGAGGTAGATCAGCATCGATATATCGTTCGATTTCCATCAC
1 AGAAGGAGGTGGATCAGCGTCAAT-TTTTGCTCGA-TTCTATCAC
23574 AGAAGGAGGTGGATC
1 AGAAGGAGGTGGATC
23589 GACATTTTTA
Statistics
Matches: 727, Mismatches: 256, Indels: 171
0.63 0.22 0.15
Matches are distributed among these distances:
38 1 0.00
39 6 0.01
40 6 0.01
41 79 0.11
42 7 0.01
43 17 0.02
44 399 0.55
45 173 0.24
46 23 0.03
47 7 0.01
48 3 0.00
49 2 0.00
50 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (43 bp):
AGAAGGAGGTGGATCAGCGTCAATTTTTGCTCGATTCTATCAC
Found at i:22714 original size:133 final size:133
Alignment explanation
Indices: 22507--23662 Score: 1525
Period size: 133 Copynumber: 8.8 Consensus size: 133
22497 AATTTTTTGC
* *
22507 TCGATTCTATCACAGAAGGAGGTGGATCGACA---TT-TGTTCGCTCAAATCCATCGCAGAAGGA
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGA
* * *
22568 GTTGGATCAGCGTCAACTTTTTGCTCGTTTCTATAACGGAAGGAGGTAGATCAGCATCGACATCT
66 GTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCT
22633 CGT
131 CGT
* * * *
22636 TTGACTCCATCACAAAAGGAGGTGGATTGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGA
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGA
* * *
22701 GTTGGATCAGCGTCAATTTTTTGCTTGATTCTATCACAGAAGAAGGTAGATCAGCATCGACATCT
66 GTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCT
22766 CGT
131 CGT
* * * *
22769 TCGATTCCATCACAGAAGGAAGTGGGTCGACA---TT-TGTTCGCTCAAATCCATCGTAGAAGGA
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGA
* * * * *
22830 GTTGGATCATCGTCAACTTTTTACTCG-TGTCTATCATAGAAGGAGGTAGATCAGCATCAATATC
66 GTTGGATCAGCGTCAACTTTTTGCTCGAT-TCTATCACAGAAGGAGGTAGATCAGCATCGACATC
22894 TCGT
130 TCGT
* * *
22898 TCGATTTCATAACAGAAGGAGGTGGATCGATATTTTTATCTTCG-TACAAATCCATCGCAGAAGG
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCT-CAAATCCATCGCAGAAGG
* * * ** * *
22962 AGTTGGATCAGCGTCAACTTTTAGCTCGATTCTATCATAGAAGGAGATAGATCAATATTGACATA
65 AGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATC
23027 TCGT
130 TCGT
* * *
23031 TCGATTTCCATCACAGAAGAAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAAAAAG
1 TCGA-TTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGG
** *
23096 AGTTGGATCAGCGTCAACTTTTTGCTCTTTTCTATCATAGAAGGAGGTAGATCAGCATCGACATC
65 AGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATC
23161 TCGT
130 TCGT
* * * *
23165 TCGATTTCATCACAGAAGGAGCTGGATCGATATTTTTATCTTTGCTCAAATCCATCGCAGAAGGA
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGA
* * * * * * *
23230 GTTGGATCAGTGTCAACTTTTTG-TGCGATTCTATCACAGAAAGAGGTAGATCAACACCAATATT
66 GTTGGATCAGCGTCAACTTTTTGCT-CGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATC
*
23294 TCAT
130 TCGT
* * * **
23298 TTGATTCCATCACAGAAGGAGGTGGATCAACA--TTTGT-TT-GCTCAAATCCATCATAGAAGGA
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGA
* * * *
23359 GTTGGATGAGCGTCAACTTTTTGCTCGTTTCTATCACAGAAAGAGGTAGATCAACATCGACATCT
66 GTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCT
23424 CGT
131 CGT
* * * *
23427 TCGATTTCATCACAGAATGAGGTTGATCGACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGA
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGA
* * * *
23492 GTTGGATCAGCGCCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGATATAT
66 GTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCT
23557 CGT
131 CGT
*
23560 TCGATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGG
1 TCGA-TTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGG
* * *
23625 AGTTGGATCAACATCAACTTCTTGCTCGATTC-ATCACA
65 AGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACA
23663 TATGGAGTTG
Statistics
Matches: 889, Mismatches: 118, Indels: 36
0.85 0.11 0.03
Matches are distributed among these distances:
128 1 0.00
129 242 0.27
130 5 0.01
131 8 0.01
132 8 0.01
133 424 0.48
134 200 0.22
135 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (133 bp):
TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGA
GTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCT
CGT
Found at i:22897 original size:262 final size:262
Alignment explanation
Indices: 22507--23662 Score: 1582
Period size: 262 Copynumber: 4.4 Consensus size: 262
22497 AATTTTTTGC
*
22507 TCGATTCTATCACAGAAGGAGGTGGATCGACATTTGTTCGCTCAAATCCATCGCAGAAGGAGTTG
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTGTTCGCTCAAATCCATCGCAGAAGGAGTTG
* *
22572 GATCAGCGTCAACTTTTTGCTCGTTTCTATAACGGAAGGAGGTAGATCAGCATCGACATCTCGTT
66 GATCAGCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTT
* * * * *
22637 TGACTCCATCACAAAAGGAGGTGGATTGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAG
131 CGATTTCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAG
* * * * *
22702 TTGGATCAGCGTCAATTTTTTGCTTGATTCTATCACAGAAGAAGGTAGATCAGCATCGACATCTC
196 TTGGATCAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGAAGGTAGATCAACATCGACATATC
22767 GT
261 GT
* * *
22769 TCGATTCCATCACAGAAGGAAGTGGGTCGACATTTGTTCGCTCAAATCCATCGTAGAAGGAGTTG
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTGTTCGCTCAAATCCATCGCAGAAGGAGTTG
* * * * * *
22834 GATCATCGTCAACTTTTTACTCGTGTCTATCATAGAAGGAGGTAGATCAGCATCAATATCTCGTT
66 GATCAGCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTT
* *
22899 CGATTTCATAACAGAAGGAGGTGGATCGATATTTTTATCTTCG-TACAAATCCATCGCAGAAGGA
131 CGATTTCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCT-CAAATCCATCGCAGAAGGA
* * * * *
22963 GTTGGATCAGCGTCAACTTTTAGCTCGATTCTATCATAGAAGGAGATAGATCAATATTGACATAT
195 GTTGGATCAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGAAGGTAGATCAACATCGACATAT
23028 CGT
260 CGT
* * * *
23031 TCGATTTCCATCACAGAAGAAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAAAAAG
1 TCGA-TTCCATCACAGAAGGAGGTGGATCGACA---TT-TGTTCGCTCAAATCCATCGCAGAAGG
* *
23096 AGTTGGATCAGCGTCAACTTTTTGCTCTTTTCTATCATAGAAGGAGGTAGATCAGCATCGACATC
61 AGTTGGATCAGCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCATCGACATC
* * *
23161 TCGTTCGATTTCATCACAGAAGGAGCTGGATCGATATTTTTATCTTTGCTCAAATCCATCGCAGA
126 TCGTTCGATTTCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGA
* * * *
23226 AGGAGTTGGATCAGTGTCAACTTTTTG-TGCGATTCTATCACAGAA-AGAGGTAGATCAACACCA
191 AGGAGTTGGATCAGCGTCAACTTTTAGCT-CGATTCTATCACAGAAGA-AGGTAGATCAACATCG
* * *
23289 ATATTTCAT
254 ACATATCGT
* * * **
23298 TTGATTCCATCACAGAAGGAGGTGGATCAACATTTGTTTGCTCAAATCCATCATAGAAGGAGTTG
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTGTTCGCTCAAATCCATCGCAGAAGGAGTTG
* * *
23363 GATGAGCGTCAACTTTTTGCTCGTTTCTATCACAGAAAGAGGTAGATCAACATCGACATCTCGTT
66 GATCAGCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTT
* * *
23428 CGATTTCATCACAGAATGAGGTTGATCGACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGAG
131 CGATTTCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAG
* * * *
23493 TTGGATCAGCGCCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGATATATC
196 TTGGATCAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGAAGGTAGATCAACATCGACATATC
23558 GT
261 GT
*
23560 TCGATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGG
1 TCGA-TTCCATCACAGAAGGAGGTGGATCGACA---TT-TGTTCGCTCAAATCCATCGCAGAAGG
* * * *
23625 AGTTGGATCAACATCAACTTCTTGCTCGATTC-ATCACA
61 AGTTGGATCAGCGTCAACTTTTTGCTCGTTTCTATCACA
23663 TATGGAGTTG
Statistics
Matches: 781, Mismatches: 97, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
261 1 0.00
262 437 0.56
263 55 0.07
266 37 0.05
267 250 0.32
268 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (262 bp):
TCGATTCCATCACAGAAGGAGGTGGATCGACATTTGTTCGCTCAAATCCATCGCAGAAGGAGTTG
GATCAGCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTT
CGATTTCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAG
TTGGATCAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGAAGGTAGATCAACATCGACATATC
GT
Found at i:23544 original size:529 final size:528
Alignment explanation
Indices: 22507--23652 Score: 1696
Period size: 529 Copynumber: 2.2 Consensus size: 528
22497 AATTTTTTGC
* *
22507 TCGA-TTCTATCACAGAAGGAGGTGGATCGACA---TT-TGTTCGCTCAAATCCATCGCAGAAGG
1 TCGATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGG
*
22567 AGTTGGATCAGCGTCAACTTTTTGCTCGTTTCTATAACGGAAGGAGGTAGATCAGCATCGACATC
66 AGTTGGATCAGCGTCAACTTTTTGCTCGTTTCTATAACAGAAGGAGGTAGATCAGCATCGACATC
* * *
22632 TCGTTTGACTCCATCACAAAAGGAGGTGGATTGACATTTTTATCTTCGCTCAAATCCATCGCAGA
131 TCGTTCGACTCCATCACAAAAGGAGCTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGA
* * *
22697 AGGAGTTGGATCAGCGTCAATTTTTTGCTTGATTCTATCACAGAAGAAGGTAGATCAGCATCGAC
196 AGGAGTTGGATCAGCGTCAATTTTTTGC-TGATTCTATCACAGAAGAAGGTAGATCAACACCAAC
* * * *
22762 ATCTCGTTCGATTCCATCACAGAAGGAAGTGGGTCGACATTTGTTCGCTCAAATCCATCGTAGAA
260 ATCTCATTCGATTCCATCACAGAAGGAAGTGGATCAACATTTGTTCGCTCAAATCCATCATAGAA
* * * * *
22827 GGAGTTGGATCATCGTCAACTTTTTACTCGTGTCTATCATAGAAGGAGGTAGATCAGCATCAATA
325 GGAGTTGGATCAGCGTCAACTTTTTACTCGTGTCTATCACAGAAAGAGGTAGATCAACATCAACA
*
22892 TCTCGTTCGATTTCATAACAGAAGGAGGTGGATCGATATTTTTATCTTCGTACAAATCCATCGCA
390 TCTCGTTCGATTTCATAACAGAAGGAGGTGGATCGACATTTTTATCTTCGTACAAATCCATCGCA
* * * *
22957 GAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTCTATCATAGAAGGAGATAGATCAATATTG
455 GAAGGAGTTGGATCAGCGCCAACTTTTAGCTCGATTCTATCACAGAAGGAGATAGATCAACATCG
23022 ACATATCGT
520 ACATATCGT
* * *
23031 TCGATTTCCATCACAGAAGAAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAAAAAG
1 TCGATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGG
* * *
23096 AGTTGGATCAGCGTCAACTTTTTGCTCTTTTCTATCATAGAAGGAGGTAGATCAGCATCGACATC
66 AGTTGGATCAGCGTCAACTTTTTGCTCGTTTCTATAACAGAAGGAGGTAGATCAGCATCGACATC
* * * * *
23161 TCGTTCGATTTCATCACAGAAGGAGCTGGATCGATATTTTTATCTTTGCTCAAATCCATCGCAGA
131 TCGTTCGACTCCATCACAAAAGGAGCTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGA
*
23226 AGGAGTTGGATCAGTGTCAACTTTTTGTGC-GATTCTATCACAGAA-AGAGGTAGATCAACACCA
196 AGGAGTTGGATCAGCGTCAA-TTTTT-TGCTGATTCTATCACAGAAGA-AGGTAGATCAACACCA
* * * * *
23289 ATATTTCATTTGATTCCATCACAGAAGGAGGTGGATCAACATTTGTTTGCTCAAATCCATCATAG
258 ACATCTCATTCGATTCCATCACAGAAGGAAGTGGATCAACATTTGTTCGCTCAAATCCATCATAG
* * * *
23354 AAGGAGTTGGATGAGCGTCAACTTTTTGCTCGTTTCTATCACAGAAAGAGGTAGATCAACATCGA
323 AAGGAGTTGGATCAGCGTCAACTTTTTACTCGTGTCTATCACAGAAAGAGGTAGATCAACATCAA
* * *
23419 CATCTCGTTCGATTTCATCACAGAATGAGGTTGATCGACATTTTTATCTTCGCT-CAAATCCATC
388 CATCTCGTTCGATTTCATAACAGAAGGAGGTGGATCGACATTTTTATCTTCG-TACAAATCCATC
* * *
23483 GTAGAAGGAGTTGGATCAGCGCCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCA
452 GCAGAAGGAGTTGGATCAGCGCCAACTTTTAGCTCGATTCTATCACAGAAGGAGATAGATCAACA
*
23548 TCGATATATCGT
517 TCGACATATCGT
*
23560 TCGATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGG
1 TCGATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGG
* * *
23625 AGTTGGATCAACATCAACTTCTTGCTCG
66 AGTTGGATCAGCGTCAACTTTTTGCTCG
23653 ATTCATCACA
Statistics
Matches: 554, Mismatches: 59, Indels: 13
0.88 0.09 0.02
Matches are distributed among these distances:
524 4 0.01
525 26 0.05
528 3 0.01
529 512 0.92
530 6 0.01
531 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (528 bp):
TCGATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGG
AGTTGGATCAGCGTCAACTTTTTGCTCGTTTCTATAACAGAAGGAGGTAGATCAGCATCGACATC
TCGTTCGACTCCATCACAAAAGGAGCTGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGA
AGGAGTTGGATCAGCGTCAATTTTTTGCTGATTCTATCACAGAAGAAGGTAGATCAACACCAACA
TCTCATTCGATTCCATCACAGAAGGAAGTGGATCAACATTTGTTCGCTCAAATCCATCATAGAAG
GAGTTGGATCAGCGTCAACTTTTTACTCGTGTCTATCACAGAAAGAGGTAGATCAACATCAACAT
CTCGTTCGATTTCATAACAGAAGGAGGTGGATCGACATTTTTATCTTCGTACAAATCCATCGCAG
AAGGAGTTGGATCAGCGCCAACTTTTAGCTCGATTCTATCACAGAAGGAGATAGATCAACATCGA
CATATCGT
Found at i:24002 original size:28 final size:27
Alignment explanation
Indices: 23959--24046 Score: 106
Period size: 28 Copynumber: 3.2 Consensus size: 27
23949 ACTGTAAACA
23959 CCATTTTTCAAACATCAACACCCACCAT
1 CCATTTTTC-AACATCAACACCCACCAT
* *
23987 CTCATTTTTCAACATCAATACCCACCACA
1 C-CATTTTTCAACATCAACACCCACCA-T
* *
24016 CCATTTTTCAACACCAAC-CCCATCAT
1 CCATTTTTCAACATCAACACCCACCAT
24042 CCATT
1 CCATT
24047 GTTCCCTGCG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.10
27 6 0.12
28 32 0.62
29 9 0.17
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.27
Consensus pattern (27 bp):
CCATTTTTCAACATCAACACCCACCAT
Found at i:26605 original size:14 final size:14
Alignment explanation
Indices: 26586--26614 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26576 AAGGGCATCA
26586 AAAAAATAATTTGT
1 AAAAAATAATTTGT
26600 AAAAAATAATTTGT
1 AAAAAATAATTTGT
26614 A
1 A
26615 TTACTACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AAAAAATAATTTGT
Found at i:29452 original size:33 final size:33
Alignment explanation
Indices: 29411--29499 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
29401 TGGCAAGTTG
29411 GAAAATTCATCTTGGTTGGTGGACAACTTATT-
1 GAAAATTCATCTTGGTTGGTGGACAACTTATTA
*
29443 GAAAAATTCATCTTGGTTGGTGGTCAACTTATTA
1 G-AAAATTCATCTTGGTTGGTGGACAACTTATTA
*
29477 GAAAATTCATCTTTGGTAGGTGG
1 GAAAATTCATC-TTGGTTGGTGG
29500 CTAACTTTGC
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
32 1 0.02
33 40 0.77
34 11 0.21
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (33 bp):
GAAAATTCATCTTGGTTGGTGGACAACTTATTA
Found at i:32300 original size:42 final size:42
Alignment explanation
Indices: 32241--32325 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
32231 CCTCCGTCTT
32241 TAGTGATTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGG
1 TAGTGATTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGG
32283 TAGTGATTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGG
1 TAGTGATTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGG
32325 T
1 T
32326 GTACTTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (42 bp):
TAGTGATTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGG
Found at i:35541 original size:16 final size:16
Alignment explanation
Indices: 35517--35550 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35507 TATCGCCGAC
*
35517 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
*
35533 CGAAATTCACTGTTCA
1 CGAAATTCACTATTCA
35549 CG
1 CG
35551 TGAATAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:39429 original size:20 final size:20
Alignment explanation
Indices: 39404--39449 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
39394 CACACGTTGC
39404 ATATTCTGGAATGCACAAGT
1 ATATTCTGGAATGCACAAGT
39424 ATATTCTGGAATGCACAAGT
1 ATATTCTGGAATGCACAAGT
39444 ATATTC
1 ATATTC
39450 CAGACTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (20 bp):
ATATTCTGGAATGCACAAGT
Found at i:44215 original size:178 final size:179
Alignment explanation
Indices: 43916--44269 Score: 656
Period size: 178 Copynumber: 2.0 Consensus size: 179
43906 TACACCTAGT
*
43916 TTATATAGAAGTTTATACCTTCAAGCTTACTCTACATTTCTAACAGATTCTTAACAAACTTTATA
1 TTATATAGAAGCTTATACCTTCAAGCTTACTCTACATTTCTAACAGATTCTTAACAAACTTTATA
*
43981 ACAAATTCTAATATTCATAACTGACTCACGCACACAATGCCCTTAATAGGAGCTCATGCACACGT
66 ACAAATTCTAATATTCATAACTGACTCACGCACACAATGCCCTTAATAGGAGCTCATGCACACAT
44046 TGC-TATTCTGGAATGCACAAGTATATTCCAGACTTCATATTCCAAAGC
131 TGCATATTCTGGAATGCACAAGTATATTCCAGACTTCATATTCCAAAGC
*
44094 TTATATAGAAGCTTATACCTTCAAGCTTACTCTACCTTTCTAACAGATTCTTAACAAACTTTATA
1 TTATATAGAAGCTTATACCTTCAAGCTTACTCTACATTTCTAACAGATTCTTAACAAACTTTATA
*
44159 ACAAATTCTAATATTTATAACTGACTCACGCACACAATGCCCTTAATAGGAGCTCATGCACACAT
66 ACAAATTCTAATATTCATAACTGACTCACGCACACAATGCCCTTAATAGGAGCTCATGCACACAT
*
44224 TGCATATTCTGGAATGCACAAGTATATTCCATACTTCATATTCCAA
131 TGCATATTCTGGAATGCACAAGTATATTCCAGACTTCATATTCCAA
44270 TAGAGGTAAA
Statistics
Matches: 170, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
178 129 0.76
179 41 0.24
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.32
Consensus pattern (179 bp):
TTATATAGAAGCTTATACCTTCAAGCTTACTCTACATTTCTAACAGATTCTTAACAAACTTTATA
ACAAATTCTAATATTCATAACTGACTCACGCACACAATGCCCTTAATAGGAGCTCATGCACACAT
TGCATATTCTGGAATGCACAAGTATATTCCAGACTTCATATTCCAAAGC
Found at i:46978 original size:15 final size:16
Alignment explanation
Indices: 46958--46994 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
46948 CATTCATGTC
46958 TATATTTAAATTGAA-
1 TATATTTAAATTGAAT
46973 TATATTTAAATTGAAT
1 TATATTTAAATTGAAT
46989 TATATT
1 TATATT
46995 ACTAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TATATTTAAATTGAAT
Found at i:48256 original size:2 final size:2
Alignment explanation
Indices: 48249--48280 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
48239 CACATATTTA
48249 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
48281 CATTCTATTA
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:49505 original size:41 final size:41
Alignment explanation
Indices: 49460--49546 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
49450 GCTAGGCGGG
* *
49460 AGGGGGAGACGCGCCACATTAGACATGCCTTTGTAGGGTGA
1 AGGGGGAGACGCGCCACATGAGACACGCCTTTGTAGGGTGA
** * *
49501 AGGGGGAGGTGCGCCACGTGGGACACGCCTTTGTAGGGTGA
1 AGGGGGAGACGCGCCACATGAGACACGCCTTTGTAGGGTGA
49542 AGGGG
1 AGGGG
49547 AGGTACTTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.21, C:0.18, G:0.44, T:0.17
Consensus pattern (41 bp):
AGGGGGAGACGCGCCACATGAGACACGCCTTTGTAGGGTGA
Found at i:49559 original size:40 final size:41
Alignment explanation
Indices: 49481--49572 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 41
49471 CGCCACATTA
* *
49481 GACATGCCTTTGTAGGGTGAAGGGGGAGGTGCGCCACGTGG
1 GACACGCCTTTGTAGGGTGAAGGGGGAGGTACGCCACGTGG
**
49522 GACACGCCTTTGTAGGGTGAA-GGGGAGGTACTTCACGTGG
1 GACACGCCTTTGTAGGGTGAAGGGGGAGGTACGCCACGTGG
*
49562 GACACGTCTTT
1 GACACGCCTTT
49573 TACGGTGGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 26 0.57
41 20 0.43
ACGTcount: A:0.18, C:0.18, G:0.40, T:0.23
Consensus pattern (41 bp):
GACACGCCTTTGTAGGGTGAAGGGGGAGGTACGCCACGTGG
Done.