Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008353.1 Hibiscus syriacus cultivar Beakdansim tig00111088_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: 2583621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 11 of 13
Found at i:2182552 original size:15 final size:15
Alignment explanation
Indices: 2182534--2182563 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2182524 TATATTAGTA
2182534 AAAAAAAAATTAAAG
1 AAAAAAAAATTAAAG
*
2182549 AAAAGAAAATTAAAG
1 AAAAAAAAATTAAAG
2182564 GTAGCTCCGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAAAAAAATTAAAG
Found at i:2184287 original size:28 final size:27
Alignment explanation
Indices: 2184256--2184345 Score: 74
Period size: 29 Copynumber: 3.2 Consensus size: 27
2184246 TAAACATTTT
2184256 TATATTTTTAATTTTGTAAAAAAAATTA
1 TATATTTTTAATTTTGTAAAAAAAA-TA
* * * *
2184284 TATAAATTTAAATTTTTTAAAGAAAATA
1 TAT-ATTTTTAATTTTGTAAAAAAAATA
* *
2184312 TA-ATATTTTCATTTTGTTAAAAAAACAAA
1 TATAT-TTTTAATTTTG-TAAAAAAA-ATA
2184341 TATAT
1 TATAT
2184346 AATAAGGACA
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
26 1 0.02
27 8 0.17
28 14 0.30
29 22 0.47
30 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (27 bp):
TATATTTTTAATTTTGTAAAAAAAATA
Found at i:2184739 original size:21 final size:21
Alignment explanation
Indices: 2184715--2184776 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
2184705 GCAAATTCGC
2184715 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
2184736 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
2184756 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
2184777 ATCTACAGTT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:2184795 original size:22 final size:22
Alignment explanation
Indices: 2184767--2184880 Score: 94
Period size: 22 Copynumber: 5.4 Consensus size: 22
2184757 TTCCATTTCG
*
2184767 CGTTGCGATAATCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * * **
2184789 CGTTGCGAT-TTTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
** *
2184809 CGTTGCGATTTTCTA-A-AT-T
1 CGTTGCGATAGTCTACAGTTGT
2184828 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
2184850 TGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
2184872 CGTTACGAT
1 CGTTGCGAT
2184881 TTTCCAAATT
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
19 16 0.21
20 12 0.16
21 9 0.12
22 38 0.51
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:2184813 original size:20 final size:20
Alignment explanation
Indices: 2184788--2184836 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
2184778 TCTACAGTTG
2184788 TCGTTGCGATTTTTCCAAAT
1 TCGTTGCGATTTTTCCAAAT
*
2184808 TCGTTGCGA-TTTTCTAAAT
1 TCGTTGCGATTTTTCCAAAT
2184827 TCGTTGCGAT
1 TCGTTGCGAT
2184837 AGTCTACAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (20 bp):
TCGTTGCGATTTTTCCAAAT
Found at i:2184842 original size:19 final size:19
Alignment explanation
Indices: 2184804--2184842 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2184794 CGATTTTTCC
**
2184804 AAATTCGTTGCGATTTTCT
1 AAATTCGTTGCGATAGTCT
2184823 AAATTCGTTGCGATAGTCT
1 AAATTCGTTGCGATAGTCT
2184842 A
1 A
2184843 CAGTTGTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (19 bp):
AAATTCGTTGCGATAGTCT
Found at i:2185410 original size:22 final size:22
Alignment explanation
Indices: 2185381--2185433 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
2185371 AATTTGGAAA
2185381 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
2185403 ATTGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
2185425 ATCGCAACG
1 ATCGCAACG
2185434 CGAAATGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:2185450 original size:20 final size:20
Alignment explanation
Indices: 2185425--2185579 Score: 98
Period size: 20 Copynumber: 7.6 Consensus size: 20
2185415 ACTGTAGACT
*
2185425 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATTGAAA
** * *
2185445 ATCGCAACGCGATCTTCAACT
1 ATCGCAACGCGAAATTGAA-A
* *
2185466 ATGGCAACGCGAAATAGAAA
1 ATCGCAACGCGAAATTGAAA
** * *
2185486 AGT-GCAACGCGATCTTCAACT
1 A-TCGCAACGCGAAATTGAA-A
*
2185507 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATTGAAA
** * *
2185527 ATCGCAACGCGATCTTCAACT
1 ATCGCAACGCGAAATTGAA-A
*
2185548 ATCGCAACCCGAAA-TGATAA
1 ATCGCAACGCGAAATTGA-AA
2185568 ATCGCAACGCGA
1 ATCGCAACGCGA
2185580 TTTTCAACTA
Statistics
Matches: 97, Mismatches: 32, Indels: 12
0.69 0.23 0.09
Matches are distributed among these distances:
20 57 0.59
21 40 0.41
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATTGAAA
Found at i:2185473 original size:41 final size:41
Alignment explanation
Indices: 2185422--2185601 Score: 292
Period size: 41 Copynumber: 4.4 Consensus size: 41
2185412 ACAACTGTAG
2185422 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTTCA
* *
2185463 ACTATGGCAACGCGAAATAGAAAAGT-GCAACGCGATCTTCA
1 ACTATCGCAACGCGAAATGGAAAA-TCGCAACGCGATCTTCA
2185504 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTTCA
* *
2185545 ACTATCGCAACCCGAAAT-GATAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGA-AAATCGCAACGCGATCTTCA
2185586 ACTATCGCAACGCGAA
1 ACTATCGCAACGCGAA
2185602 TTTGCGATAG
Statistics
Matches: 129, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
40 3 0.02
41 125 0.97
42 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTTCA
Found at i:2185474 original size:21 final size:21
Alignment explanation
Indices: 2185445--2185600 Score: 108
Period size: 21 Copynumber: 7.6 Consensus size: 21
2185435 GAAATGGAAA
2185445 ATCGCAACGCGATCTTCAACT
1 ATCGCAACGCGATCTTCAACT
* ** ** *
2185466 ATGGCAACGCGAAATAGAA-A
1 ATCGCAACGCGATCTTCAACT
2185486 AGT-GCAACGCGATCTTCAACT
1 A-TCGCAACGCGATCTTCAACT
** ** *
2185507 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATCTTCAACT
2185527 ATCGCAACGCGATCTTCAACT
1 ATCGCAACGCGATCTTCAACT
* **
2185548 ATCGCAACCCGAAATGAT-AA--
1 ATCGCAACGCG--ATCTTCAACT
*
2185568 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATCTTCAACT
2185589 ATCGCAACGCGA
1 ATCGCAACGCGA
2185601 ATTTGCGATA
Statistics
Matches: 99, Mismatches: 27, Indels: 18
0.69 0.19 0.12
Matches are distributed among these distances:
18 3 0.03
19 2 0.02
20 39 0.39
21 50 0.51
22 2 0.02
23 3 0.03
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGATCTTCAACT
Found at i:2185946 original size:7 final size:7
Alignment explanation
Indices: 2185934--2185963 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
2185924 TCACCCAAAA
2185934 CATCATC
1 CATCATC
2185941 CATCATC
1 CATCATC
2185948 CATCATC
1 CATCATC
2185955 CATCATC
1 CATCATC
2185962 CA
1 CA
2185964 AATTATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.43, G:0.00, T:0.27
Consensus pattern (7 bp):
CATCATC
Found at i:2186256 original size:21 final size:21
Alignment explanation
Indices: 2186227--2186267 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2186217 AAGGTAAATT
*
2186227 ATATGATTGATCACTTTTGTC
1 ATATAATTGATCACTTTTGTC
*
2186248 ATATAATTGATCATTTTTGT
1 ATATAATTGATCACTTTTGT
2186268 TTGAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (21 bp):
ATATAATTGATCACTTTTGTC
Found at i:2187342 original size:17 final size:18
Alignment explanation
Indices: 2187309--2187344 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2187299 ATATATACAT
*
2187309 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
2187327 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
2187344 A
1 A
2187345 AATATCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:2187783 original size:37 final size:35
Alignment explanation
Indices: 2187740--2187841 Score: 170
Period size: 34 Copynumber: 2.9 Consensus size: 35
2187730 ATAGTATAAC
2187740 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA--AAAAT
*
2187777 TTTATCCTATTTTTAGGAGTTTGAATCCT-AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAAAT
2187811 TCTATCCTATTTTTAGGAGTTTGAATCCTAA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAA
2187842 TAGGACGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 33 0.53
35 1 0.02
37 28 0.45
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAAAT
Found at i:2188671 original size:105 final size:105
Alignment explanation
Indices: 2188376--2189141 Score: 1078
Period size: 105 Copynumber: 7.3 Consensus size: 105
2188366 CATTGTTCCA
* * * * ** * * *
2188376 AGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * *
2188441 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
2188482 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
2188542 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * ** *
2188582 AATCCAATATCCTTCGTTGTGAATTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
2188647 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2188687 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
2188752 AGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2188792 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTAAAATTAAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
2188857 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
2188897 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
2188962 AGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2189002 AGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT-GTTGTTGACAAG
* * *
2189067 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2189108 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
2189142 CGCAGATGGC
Statistics
Matches: 601, Mismatches: 48, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
99 1 0.00
100 81 0.13
101 1 0.00
102 4 0.01
103 4 0.01
104 3 0.00
105 401 0.67
106 81 0.13
107 4 0.01
109 21 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:2189918 original size:65 final size:65
Alignment explanation
Indices: 2189745--2190204 Score: 341
Period size: 65 Copynumber: 6.8 Consensus size: 65
2189735 AAGATATCTG
* * * * **
2189745 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTCAAGGGAAATAAATTCAAAGA-
2189810 TT
64 TT
* * *
2189812 TGTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATAAATTCAAAGAT
2189877 T
65 T
* ** * * *
2189878 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAA-----T--A-A-AT
* *
2189943 ACAAA-ACT
57 TCAAAGATT
* * * * * * * * *
2189951 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATAAATTCAAAGATT
* * * *
2190016 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAA-----T--A-A-AT
*
2190081 ACAAA-ATT
57 TCAAAGATT
* * * * * *** *
2190089 TTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAATG-TT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATAAATTCAAAGATT
2190153 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAA
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAA
2190205 CTGTCTCAAG
Statistics
Matches: 313, Mismatches: 58, Indels: 46
0.75 0.14 0.11
Matches are distributed among these distances:
64 11 0.04
65 131 0.42
66 4 0.01
67 24 0.08
68 33 0.11
70 1 0.00
72 2 0.01
73 97 0.31
74 10 0.03
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATAAATTCAAAGATT
Found at i:2189929 original size:36 final size:36
Alignment explanation
Indices: 2189877--2190224 Score: 325
Period size: 36 Copynumber: 10.0 Consensus size: 36
2189867 ATTCAAAGAT
* *
2189877 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
2189913 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * *
2189949 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * * *
2189986 TTTGTTTCAAAGAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
2190015 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
2190051 TTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
2190087 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
2190124 TTTATTTCAAGGGAAA-TGTTTTC-A-A-TG-----T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
* *
2190152 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
2190189 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
2190225 CTCTTCTAGT
Statistics
Matches: 252, Mismatches: 38, Indels: 44
0.75 0.11 0.13
Matches are distributed among these distances:
28 4 0.02
29 33 0.13
30 4 0.02
31 1 0.00
32 1 0.00
33 1 0.00
34 2 0.01
35 3 0.01
36 135 0.54
37 68 0.27
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:2189988 original size:138 final size:138
Alignment explanation
Indices: 2189823--2190226 Score: 558
Period size: 138 Copynumber: 2.9 Consensus size: 138
2189813 GTGTTTCAAG
* * * * *
2189823 AGAAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAG
* * *
2189888 GGAAACTGTCTCAAGATAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTA
2189953 GTTCCAAA
131 GTTCCAAA
* * * *
2189961 AGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAG
* * *
2190026 GGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTT
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTA
* *
2190091 GTTTCAAG
131 GTTCCAAA
* * * * * * *
2190099 GGAAACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAATG-TTTATGTTTCAA
1 AGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTT-TGTTTCAA
* *
2190163 GAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
65 GGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
2190227 CTTCTAGTGA
Statistics
Matches: 233, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
137 3 0.01
138 230 0.99
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAG
GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTA
GTTCCAAA
Found at i:2190037 original size:102 final size:102
Alignment explanation
Indices: 2189913--2190097 Score: 291
Period size: 102 Copynumber: 1.8 Consensus size: 102
2189903 ATAGACGAAA
*
2189913 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA-TTCCAAAAGAAACTGTCTCAAGAG
*
2189978 AGACGAAA-TTTGTTTCAAAGAAAACATATTCAAATAT
65 AGACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
* * * **
2190015 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
2190080 GACAAAATTTTGTTTCAA
66 GACAAAATTTTGTTTCAA
2190098 GGGAAACTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
101 27 0.36
102 48 0.64
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
GACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
Found at i:2190132 original size:73 final size:73
Alignment explanation
Indices: 2190008--2190224 Score: 274
Period size: 73 Copynumber: 3.1 Consensus size: 73
2189998 AAAACATATT
2190008 CAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCT
1 CAAA-ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCT
2190073 CAAGAGAGA
65 CAAGAGAGA
* * *
2190082 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAA-TGTTTT
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTG-TCT
*
2190146 C-A-A-TG-
65 CAAGAGAGA
* * *
2190151 -----TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCT
1 CAAAATTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCT
2190211 CAAGAGAGA
65 CAAGAGAGA
2190220 CAAAA
1 CAAAA
2190225 CTCTTCTAGT
Statistics
Matches: 120, Mismatches: 11, Indels: 24
0.77 0.07 0.15
Matches are distributed among these distances:
64 3 0.03
65 48 0.40
66 3 0.03
67 1 0.01
68 1 0.01
70 1 0.01
71 1 0.01
72 3 0.03
73 55 0.46
74 4 0.03
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (73 bp):
CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTC
AAGAGAGA
Found at i:2190274 original size:35 final size:35
Alignment explanation
Indices: 2189878--2190274 Score: 176
Period size: 36 Copynumber: 11.4 Consensus size: 35
2189868 TTCAAAGATT
* *
2189878 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAT-
1 TTGTTTCAA-GAAAACTGTCTCAAGAGAGAC-AAATC
*
2189914 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAAGA-AAACTGTCTCAAGAGAGACAAATC
* * *
2189950 TTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAAT-
1 TT-GTTTCAAGA-AAACTGTCTCAAGAGAGAC-AAATC
* * *
2189987 TTGTTTCAAAGAAAACATAT-TC-----A-A-ATATT
1 TTGTTTC-AAGAAAAC-TGTCTCAAGAGAGACAAATC
*
2190016 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT-
1 TTGTTTCAA-GAAAACTGTCTCAAGAGAGAC-AAATC
* * *
2190052 TTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TTGTTTCAA-GAAAACTGTCTCAAGAGAGAC-AAATC
* *
2190089 TTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAAT-
1 TTGTTTCAA-GAAAACTGTCTCAAGAGAGAC-AAATC
* * * * *
2190125 TTATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TT
1 TTGTTTCAA-GAAAACTG-TCTCAAGAGAGACAAATC
*
2190153 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT-
1 T-TGTTTCAAGA-AAACTGTCTCAAGAGAGAC-AAATC
* *
2190190 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAA-GAAAACTGTCTCAAGAGAGACAAATC
* * * *
2190226 -T-CTTCTAGTGAAAACGGTCTCAAGCGAGACAAATC
1 TTGTTTC-A-AGAAAACTGTCTCAAGAGAGACAAATC
*
2190261 TTGTTTTAAGAAAA
1 TTGTTTCAAGAAAA
2190275 ACAATCATGA
Statistics
Matches: 284, Mismatches: 39, Indels: 77
0.71 0.10 0.19
Matches are distributed among these distances:
27 1 0.00
28 9 0.03
29 27 0.10
30 4 0.01
31 1 0.00
32 1 0.00
33 1 0.00
34 5 0.02
35 39 0.14
36 119 0.42
37 73 0.26
38 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (35 bp):
TTGTTTCAAGAAAACTGTCTCAAGAGAGACAAATC
Found at i:2191806 original size:21 final size:21
Alignment explanation
Indices: 2191756--2191824 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
2191746 CTTTTTGTTC
* * *
2191756 CCTTTTTTATTTTTGTTCTTT
1 CCTTTTTTGTTCTTGTTTTTT
*
2191777 CTTTTTTTGTTCTTGTTTTTT
1 CCTTTTTTGTTCTTGTTTTTT
2191798 CCTTTTTTGCTTCTT-TTTTTT
1 CCTTTTTTG-TTCTTGTTTTTT
2191819 -CTTTTT
1 CCTTTTT
2191825 GCCCTTTTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.14
21 31 0.74
22 5 0.12
ACGTcount: A:0.01, C:0.14, G:0.06, T:0.78
Consensus pattern (21 bp):
CCTTTTTTGTTCTTGTTTTTT
Found at i:2195569 original size:2 final size:2
Alignment explanation
Indices: 2195559--2195589 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2195549 AAAAGGAAAA
2195559 AT AT A- 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
2195590 CAAAGTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2196069 original size:2 final size:2
Alignment explanation
Indices: 2196062--2196100 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2196052 AAATAATTTA
2196062 AT 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 AT A
2196101 ATAACATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2196569 original size:37 final size:35
Alignment explanation
Indices: 2196526--2196627 Score: 170
Period size: 34 Copynumber: 2.9 Consensus size: 35
2196516 ATAGTATAAC
2196526 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA--AAAAT
*
2196563 TTTATCCTATTTTTAGGAGTTTGAATCCT-AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAAAT
2196597 TCTATCCTATTTTTAGGAGTTTGAATCCTAA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAA
2196628 TAGGACGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 33 0.53
35 1 0.02
37 28 0.45
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAAAT
Found at i:2205023 original size:19 final size:19
Alignment explanation
Indices: 2204999--2205041 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2204989 TAGGTCTCCA
2204999 GGAGCACACGACGACCTAT
1 GGAGCACACGACGACCTAT
** *
2205018 GGAGCACTTGGCGACCTAT
1 GGAGCACACGACGACCTAT
2205037 GGAGC
1 GGAGC
2205042 TGCAACAACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.14
Consensus pattern (19 bp):
GGAGCACACGACGACCTAT
Found at i:2209786 original size:19 final size:21
Alignment explanation
Indices: 2209764--2209802 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2209754 GGAGTTGTCA
*
2209764 ATTT-AATTT-TAGAAAATAC
1 ATTTCAATTTATAAAAAATAC
2209783 ATTTCAATTTATAAAAAATA
1 ATTTCAATTTATAAAAAATA
2209803 TCTAGGAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (21 bp):
ATTTCAATTTATAAAAAATAC
Found at i:2210912 original size:184 final size:184
Alignment explanation
Indices: 2210625--2210994 Score: 634
Period size: 184 Copynumber: 2.0 Consensus size: 184
2210615 AAATTAAATG
* * *
2210625 TTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATATTATATAATTATAAAATAAAAATTTCAG
1 TTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
*
2210690 ATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAATCTTAAATTATTAATT
66 ATAAATTTTTTAATTAATTAATATTGAATTAGGTTTAAAAGTTATTGAATCTTAAATTATTAATT
* * *
2210755 GGGTTTTAAATGGTTTGGGCTTAGCCCATATGTTATATATAATATATTTAATAT
131 GAGTTTTAAATGATTTGGGCTGAGCCCATATGTTATATATAATATATTTAATAT
*
2210809 TTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTA
1 TTTTTAATTAAAAAAA-AGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCA
* *
2210874 TAT-AATTTTTTAATTAATTAATATTGAATTAGGTTTAAAAGTTATTGGATCTTAAATTATTAAT
65 GATAAATTTTTTAATTAATTAATATTGAATTAGGTTTAAAAGTTATTGAATCTTAAATTATTAAT
2210938 TGAGTTTTAAATGATTTGGGCTGAGCCCATATGTTATATATAATATATTTAATAT
130 TGAGTTTTAAATGATTTGGGCTGAGCCCATATGTTATATATAATATATTTAATAT
2210993 TT
1 TT
2210995 AAATTTTAAT
Statistics
Matches: 175, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
184 128 0.73
185 47 0.27
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (184 bp):
TTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
ATAAATTTTTTAATTAATTAATATTGAATTAGGTTTAAAAGTTATTGAATCTTAAATTATTAATT
GAGTTTTAAATGATTTGGGCTGAGCCCATATGTTATATATAATATATTTAATAT
Found at i:2211880 original size:15 final size:15
Alignment explanation
Indices: 2211860--2211892 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2211850 TTAGCTGGGT
2211860 GGGCGGATGCGGGGC
1 GGGCGGATGCGGGGC
*
2211875 GGGCGGATGTGGGGC
1 GGGCGGATGCGGGGC
2211890 GGG
1 GGG
2211893 TAATGTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.15, G:0.70, T:0.09
Consensus pattern (15 bp):
GGGCGGATGCGGGGC
Found at i:2213033 original size:24 final size:24
Alignment explanation
Indices: 2213006--2213054 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
2212996 GGTTCAGTGA
*
2213006 TGAACTCCATGATCTCGTGTCCAT
1 TGAACTCCATGATCTCGAGTCCAT
2213030 TGAACTCCATGATCTCGAGTCCAT
1 TGAACTCCATGATCTCGAGTCCAT
2213054 T
1 T
2213055 CAGGTAAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (24 bp):
TGAACTCCATGATCTCGAGTCCAT
Found at i:2222699 original size:20 final size:20
Alignment explanation
Indices: 2222676--2222722 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
2222666 GTTTCCAATT
2222676 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
* *
2222696 TCGCAACGCGTATTTGTAAA
1 TCGCAACGCGAATCTGTAAA
2222716 TCGCAAC
1 TCGCAAC
2222723 ACAGAAGTCA
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:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:2222753 original size:20 final size:20
Alignment explanation
Indices: 2222716--2222802 Score: 111
Period size: 20 Copynumber: 4.3 Consensus size: 20
2222706 TATTTGTAAA
*
2222716 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
* * * *
2222736 TCGTAACGCGATAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
2222756 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
* *
2222776 TCGCAATATAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
2222796 TCGCAAC
1 TCGCAAC
2222803 GCGAACAGTA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.44, C:0.23, G:0.14, T:0.20
Consensus pattern (20 bp):
TCGCAACACAAAAGTCAAAT
Found at i:2222838 original size:20 final size:20
Alignment explanation
Indices: 2222796--2222885 Score: 117
Period size: 21 Copynumber: 4.4 Consensus size: 20
2222786 AAAGTCAAAT
* *
2222796 TCGCAACGCGAACAGTAAAAA
1 TCGCAACGTGAATAGT-AAAA
*
2222817 TCGCAACATGAATAGTAAAA
1 TCGCAACGTGAATAGTAAAA
*
2222837 TCGCAATGTGAATAGTAAAAA
1 TCGCAACGTGAATAGT-AAAA
2222858 TCGCAACGTGAATAGTAAAA
1 TCGCAACGTGAATAGTAAAA
*
2222878 TTGCAACG
1 TCGCAACG
2222886 AATCCATATG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
20 29 0.48
21 32 0.52
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAACGTGAATAGTAAAA
Found at i:2222841 original size:41 final size:41
Alignment explanation
Indices: 2222796--2222885 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
2222786 AAAGTCAAAT
2222796 TCGCAACGCGAACAGTAAAAATCGCAACATGAATAGTAAAA
1 TCGCAACGCGAACAGTAAAAATCGCAACATGAATAGTAAAA
* * * *
2222837 TCGCAATGTGAATAGTAAAAATCGCAACGTGAATAGTAAAA
1 TCGCAACGCGAACAGTAAAAATCGCAACATGAATAGTAAAA
*
2222878 TTGCAACG
1 TCGCAACG
2222886 AATCCATATG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (41 bp):
TCGCAACGCGAACAGTAAAAATCGCAACATGAATAGTAAAA
Found at i:2223355 original size:21 final size:20
Alignment explanation
Indices: 2223235--2223346 Score: 136
Period size: 20 Copynumber: 5.5 Consensus size: 20
2223225 CAACGCGATT
*
2223235 TTGCGATTTTCTAAATTCGCG
1 TTGCGATTTT-TTAATTCGCG
*
2223256 TTGCGATTTTTTAATTCGCA
1 TTGCGATTTTTTAATTCGCG
2223276 TTGCGATTTTTTAATTCGCG
1 TTGCGATTTTTTAATTCGCG
* *
2223296 TTGCGATTTTCTAATTCGGG
1 TTGCGATTTTTTAATTCGCG
* * *
2223316 TTGTGATTTTACT-ATTCACG
1 TTGCGATTTT-TTAATTCGCG
2223336 TTGCGATTTTT
1 TTGCGATTTTT
2223347 ACTATTCACA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
20 68 0.85
21 12 0.15
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.49
Consensus pattern (20 bp):
TTGCGATTTTTTAATTCGCG
Found at i:2223361 original size:21 final size:21
Alignment explanation
Indices: 2223322--2223366 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
2223312 CGGGTTGTGA
**
2223322 TTTTACTATTCACGTTGCGAT
1 TTTTACTATTCACACTGCGAT
2223343 TTTTACTATTCACACTGCGAT
1 TTTTACTATTCACACTGCGAT
2223364 TTT
1 TTT
2223367 GGAAACTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (21 bp):
TTTTACTATTCACACTGCGAT
Found at i:2223399 original size:20 final size:20
Alignment explanation
Indices: 2223376--2223421 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
2223366 TGGAAACTGA
*
2223376 GTTGCGAAATTGGAGTTCGC
1 GTTGCGAAATTCGAGTTCGC
**
2223396 GTTGCG-AATTCGAGTTTTC
1 GTTGCGAAATTCGAGTTCGC
2223415 GTTGCGA
1 GTTGCGA
2223422 TTTTGTTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.17, C:0.15, G:0.33, T:0.35
Consensus pattern (20 bp):
GTTGCGAAATTCGAGTTCGC
Found at i:2225775 original size:21 final size:21
Alignment explanation
Indices: 2225749--2225788 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2225739 TTGCTTATTA
*
2225749 ATTATTATTATTATCATCATC
1 ATTATTACTATTATCATCATC
*
2225770 ATTATTACTATTATTATCA
1 ATTATTACTATTATCATCA
2225789 ATTCTGCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTATTACTATTATCATCATC
Found at i:2238024 original size:22 final size:21
Alignment explanation
Indices: 2237969--2238027 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
2237959 TTAATAAAAA
2237969 TAAATTTATTTTAT-ACTTTT
1 TAAATTTATTTTATAACTTTT
* *
2237989 TGAATATTAATTTATAACTTTT
1 TAAAT-TTATTTTATAACTTTT
2238011 TAAATTTATTTTTATAA
1 TAAATTTA-TTTTATAA
2238028 TTAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 4 0.12
21 11 0.34
22 17 0.53
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (21 bp):
TAAATTTATTTTATAACTTTT
Found at i:2239913 original size:19 final size:19
Alignment explanation
Indices: 2239889--2239950 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
2239879 TGGTGAGCTC
2239889 AACGAGCAACGAGGCAAGT
1 AACGAGCAACGAGGCAAGT
* *
2239908 AACGAGCATC-AAGC---T
1 AACGAGCAACGAGGCAAGT
*
2239923 CAATGAGCAACGAGGCAAGT
1 -AACGAGCAACGAGGCAAGT
2239943 AACGAGCA
1 AACGAGCA
2239951 TCAAGCTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
15 1 0.03
16 8 0.25
17 3 0.09
18 3 0.09
19 16 0.50
20 1 0.03
ACGTcount: A:0.42, C:0.23, G:0.27, T:0.08
Consensus pattern (19 bp):
AACGAGCAACGAGGCAAGT
Found at i:2239931 original size:35 final size:35
Alignment explanation
Indices: 2239884--2239968 Score: 152
Period size: 35 Copynumber: 2.4 Consensus size: 35
2239874 AATTTTGGTG
*
2239884 AGCTCAACGAGCAACGAGGCAAGTAACGAGCATCA
1 AGCTCAATGAGCAACGAGGCAAGTAACGAGCATCA
2239919 AGCTCAATGAGCAACGAGGCAAGTAACGAGCATCA
1 AGCTCAATGAGCAACGAGGCAAGTAACGAGCATCA
*
2239954 AGCTTAATGAGCAAC
1 AGCTCAATGAGCAAC
2239969 AAGTCGAGCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.40, C:0.24, G:0.25, T:0.12
Consensus pattern (35 bp):
AGCTCAATGAGCAACGAGGCAAGTAACGAGCATCA
Found at i:2243810 original size:17 final size:19
Alignment explanation
Indices: 2243770--2243810 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
2243760 GTAAAAATAT
*
2243770 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
2243790 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
2243807 GATA
1 GATA
2243811 TCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:2243818 original size:180 final size:182
Alignment explanation
Indices: 2243367--2243838 Score: 705
Period size: 180 Copynumber: 2.6 Consensus size: 182
2243357 GATCCAAATT
* * * * **
2243367 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
2243432 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
2243497 GTGAATTTAAAAGAGAAGCAGTTTTAAATCTTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
* *
2243549 AAAAATATATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGATATCAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * *
2243614 AAACTGGTAAAACGTTACCGGATATATTGAAAGTGTCAATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
2243678 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
* *
2243730 AAAAA-ATATCGATCCACAACGGTATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
2243794 AAACCGGTAAAACGATATCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
2243839 CGTAAGTACG
Statistics
Matches: 261, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
180 96 0.37
181 70 0.27
182 95 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
Found at i:2246045 original size:21 final size:21
Alignment explanation
Indices: 2246019--2246083 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
2246009 AAGATAATCA
*
2246019 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
2246040 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
2246061 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2246082 AG
1 AG
2246084 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:2246159 original size:33 final size:33
Alignment explanation
Indices: 2246117--2246182 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2246107 AAATAGATGG
*
2246117 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
2246150 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2246183 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2248551 original size:24 final size:24
Alignment explanation
Indices: 2248523--2248596 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
2248513 TCCCCCTTAC
2248523 TTTAACACTTCTCCCATTTATCAT
1 TTTAACACTTCTCCCATTTATCAT
* * **
2248547 TTTAAAAAC-ACTCCCCCTTA-C--
1 TTT-AACACTTCTCCCATTTATCAT
2248568 TTTAACACTTCTCCCATTTATCAT
1 TTTAACACTTCTCCCATTTATCAT
2248592 TTTAA
1 TTTAA
2248597 AAACACACTT
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
20 4 0.11
21 11 0.30
22 1 0.03
23 1 0.03
24 16 0.43
25 4 0.11
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTAACACTTCTCCCATTTATCAT
Found at i:2248558 original size:27 final size:27
Alignment explanation
Indices: 2248526--2248602 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
2248516 CCCTTACTTT
2248526 AACACTTCTCCCATTTATCATTTTAAA
1 AACACTTCTCCCATTTATCATTTTAAA
*
2248553 AACAC-TC-CCC-CTTA-C--TTT---
1 AACACTTCTCCCATTTATCATTTTAAA
2248571 AACACTTCTCCCATTTATCATTTTAAA
1 AACACTTCTCCCATTTATCATTTTAAA
2248598 AACAC
1 AACAC
2248603 ACTTAAAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
18 5 0.13
19 2 0.05
20 3 0.08
21 6 0.15
22 1 0.03
23 1 0.03
24 6 0.15
25 3 0.08
26 2 0.05
27 10 0.26
ACGTcount: A:0.32, C:0.31, G:0.00, T:0.36
Consensus pattern (27 bp):
AACACTTCTCCCATTTATCATTTTAAA
Found at i:2248562 original size:45 final size:45
Alignment explanation
Indices: 2248511--2248602 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
2248501 TTTTGAAATT
2248511 ACTCCCCCTTACTTTAACACTTCTCCCATTTATCATTTTAAAAAC
1 ACTCCCCCTTACTTTAACACTTCTCCCATTTATCATTTTAAAAAC
2248556 ACTCCCCCTTACTTTAACACTTCTCCCATTTATCATTTTAAAAAC
1 ACTCCCCCTTACTTTAACACTTCTCCCATTTATCATTTTAAAAAC
2248601 AC
1 AC
2248603 ACTTAAAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (45 bp):
ACTCCCCCTTACTTTAACACTTCTCCCATTTATCATTTTAAAAAC
Found at i:2248581 original size:21 final size:21
Alignment explanation
Indices: 2248512--2248582 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
2248502 TTTGAAATTA
2248512 CTCCCCCTTACTTTAACACTT
1 CTCCCCCTTACTTTAACACTT
** * *
2248533 CTCCCATTTATCATTTTAAAAAC-A
1 CTCCCCCTTA-C--TTT-AACACTT
2248557 CTCCCCCTTACTTTAACACTT
1 CTCCCCCTTACTTTAACACTT
2248578 CTCCC
1 CTCCC
2248583 ATTTATCATT
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
20 4 0.11
21 16 0.43
22 1 0.03
23 1 0.03
24 11 0.30
25 4 0.11
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.37
Consensus pattern (21 bp):
CTCCCCCTTACTTTAACACTT
Found at i:2255030 original size:117 final size:117
Alignment explanation
Indices: 2254808--2255031 Score: 292
Period size: 117 Copynumber: 1.9 Consensus size: 117
2254798 AACTTTCAAA
* *
2254808 TTGAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGAT
1 TTGAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACAT
* *
2254873 TTCATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAAT
66 TTCATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAAT
* * * *
2254925 TTGAAAATTTCTTTTTCAA-AGTTTTCAGATTTTATTTTTGAAAGCTCTAACTCCTT-TCTCAAC
1 TTGAAAATTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT-TCAAC
* * **
2254988 ATTTCATTTTGATTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAG
64 ATTTCATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
2255032 ATCATTTTTA
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
116 2 0.02
117 86 0.93
118 4 0.04
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (117 bp):
TTGAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACAT
TTCATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAAT
Found at i:2257282 original size:19 final size:19
Alignment explanation
Indices: 2257258--2257306 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2257248 AATGTAGGGT
2257258 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
* *
2257277 TAATTTTGTATACGATTTT
1 TAATTTTGTATAAGATTTA
2257296 TAATTTTGTAT
1 TAATTTTGTAT
2257307 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2258322 original size:200 final size:200
Alignment explanation
Indices: 2257540--2258303 Score: 1343
Period size: 200 Copynumber: 3.8 Consensus size: 200
2257530 AATTTACAAT
* * *
2257540 ATGGAAAACAGGGTGTAACCATAAAGTGTCGATCCATATATAAAAAGTTGTCGATCCCATAAACA
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAG-TGTCGATCCCATAAACA
* *
2257605 TCGAAACCCAAAAATATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTT
65 TCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
2257670 TATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
130 TATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
2257735 GAATGA
195 GAATGA
*
2257741 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
2257805 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
2257870 ATGAGAGAATAGGTCTAAATAATGTATCAACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
2257935 AATGA
196 AATGA
2257940 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
2258005 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
2258070 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
2258135 AATGA
196 AATGA
*
2258140 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
2258205 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACTGGTATAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
2258270 ATGGGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTATCGACACT
2258304 GTTTAATGTT
Statistics
Matches: 541, Mismatches: 20, Indels: 5
0.96 0.04 0.01
Matches are distributed among these distances:
199 189 0.35
200 311 0.57
201 41 0.08
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:2259775 original size:12 final size:12
Alignment explanation
Indices: 2259753--2259798 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
2259743 CAAGCGGTCA
*
2259753 ATGAAGATGAAG
1 ATGACGATGAAG
*
2259765 CTGACGATGAAG
1 ATGACGATGAAG
2259777 ATGACGATGAAG
1 ATGACGATGAAG
*
2259789 ATGATGATGA
1 ATGACGATGA
2259799 TGATCCAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.33, T:0.20
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:2259802 original size:6 final size:6
Alignment explanation
Indices: 2259753--2259798 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
2259743 CAAGCGGTCA
* * * *
2259753 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
2259799 TGATCCAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.41, C:0.07, G:0.33, T:0.20
Consensus pattern (6 bp):
ATGAAG
Found at i:2261320 original size:183 final size:182
Alignment explanation
Indices: 2261012--2261610 Score: 941
Period size: 183 Copynumber: 3.2 Consensus size: 182
2261002 CAAAGTTTTC
* *
2261012 ACACTTTTTAATATTGTGTCGGTACTTTATGTCTAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
2261077 CAAAAAGTGTCG--ATTGAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAAT
66 CAAAAAGTGTCGACATT--TACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAAT
2261140 ATAATAGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 ATAAT-GGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
2261195 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
2261260 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
2261325 AACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AA-TGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
2261378 ACACTTTTTAATATTGTGTCAATATTGTGTCGGTACTTTATCTCCAGAATGGAAGAAAAATGTGT
1 ACAC-------T-TT-T-T-AATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGT
*
2261443 CGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAA
55 CGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAA
* *
2261508 TTTTGTAATATAACCGGTAAAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
120 TTTTGTAATATAA-TGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
2261572 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
2261611 TATAATGTAC
Statistics
Matches: 388, Mismatches: 14, Indels: 28
0.90 0.03 0.07
Matches are distributed among these distances:
183 202 0.52
184 2 0.01
185 4 0.01
186 2 0.01
187 1 0.00
190 1 0.00
191 2 0.01
192 1 0.00
193 1 0.00
194 172 0.44
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (182 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
AATGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:2261534 original size:194 final size:194
Alignment explanation
Indices: 2261204--2261591 Score: 713
Period size: 194 Copynumber: 2.0 Consensus size: 194
2261194 GACACTTTTT
* *
2261204 AATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTG
1 AATATTGTGTCGGTACTTTATCTCCAGAATGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTA
* *
2261269 TCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACTGGTAT
66 TCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTAA
2261334 AAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTC
131 AAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTC
*
2261398 AATATTGTGTCGGTACTTTATCTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTA
1 AATATTGTGTCGGTACTTTATCTCCAGAATGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTA
*
2261463 TCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTAA
66 TCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTAA
*
2261528 AAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTC
131 AAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTC
2261592 GGTACTTTAT
Statistics
Matches: 187, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
194 187 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (194 bp):
AATATTGTGTCGGTACTTTATCTCCAGAATGGAAGAAAAATATGTCGATACCTTGTCAAAAAGTA
TCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTAA
AAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTC
Found at i:2261701 original size:120 final size:120
Alignment explanation
Indices: 2261488--2261730 Score: 396
Period size: 120 Copynumber: 2.0 Consensus size: 120
2261478 CGGAACCCAT
* *
2261488 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTAAAAATATACCGGTTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCAGTAAAAATATACCGATTTTATGAGCGAAT
* * *
2261553 AGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATATCCAG
* * * *
2261608 AATTATAATGTACTAGATAATTTTGTAATATAACCAGTATAAGTATACCGATTTTATTAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCAGTAAAAATATACCGATTTTATGAGCGAAT
*
2261673 AGGTCTACAACCTATGTCAACACTTTTTAATATTGTGTCGGTACTTTATATCCAG
66 AGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATATCCAG
2261728 AAT
1 AAT
2261731 GGAAGAAAAA
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 113 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (120 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCAGTAAAAATATACCGATTTTATGAGCGAAT
AGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATATCCAG
Found at i:2261848 original size:303 final size:310
Alignment explanation
Indices: 2261290--2261913 Score: 1019
Period size: 303 Copynumber: 2.0 Consensus size: 310
2261280 ACATCGGAAC
** *
2261290 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGATTTTATGAGC
*
2261355 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCAATATTGTGTCGGTACTTTATC
66 GAATAGGTCTACAACCTATATCGACAC----TAATATTGTGTCAATATTGTGTCGGTACTTTATA
2261420 TCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACC
127 TCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACC
* *
2261485 CATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTAAAAATATACCGGTTTTATGAGCG
192 CAGAATTATAATGTAAAAGATAATTTTGTAATATAACCGGTAAAAATATACCGGTTTTATGAGCG
*
2261550 AATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
257 AATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * *
2261604 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCAGTATAAGTATACCGATTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGATTTTATGAGC
* *
2261669 GAATAGGTCTACAACCTATGTC-A-AC-ACT-TT-T-T-AATATTGTGTCGGTACTTTATATCCA
66 GAATAGGTCTACAACCTATATCGACACTAATATTGTGTCAATATTGTGTCGGTACTTTATATCCA
* *
2261727 GAATGGAAGAAAAATGTGTCGATGCCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGA
131 GAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGA
*
2261792 ATTATAATGTAAAAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
196 ATTATAATGTAAAAGATAATTTTGTAATATAACCGGTAAAAATATACCGGTTTTATGAGCGAATA
*
2261857 TGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
261 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
2261907 CCAGAAT
1 CCAGAAT
2261914 GGAAGAAAAA
Statistics
Matches: 294, Mismatches: 16, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
303 205 0.70
304 1 0.00
305 1 0.00
306 2 0.01
307 2 0.01
312 2 0.01
313 1 0.00
314 80 0.27
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (310 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGATTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTAATATTGTGTCAATATTGTGTCGGTACTTTATATCCA
GAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGA
ATTATAATGTAAAAGATAATTTTGTAATATAACCGGTAAAAATATACCGGTTTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:2261912 original size:183 final size:183
Alignment explanation
Indices: 2261604--2262096 Score: 860
Period size: 183 Copynumber: 2.7 Consensus size: 183
2261594 TACTTTATGT
* * * * *
2261604 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCAGTATAAGTATACCGATTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
* * *
2261669 GAATAGGTCTACAACCTATGTCAACACTTTTTAATATTGTGTCGGTACTTTATATCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
* *
2261734 AGAAAAATGTGTCGATGCCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
131 AGAAAAAGGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
*
2261787 CCAGAATTATAATGTAAAAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
2261852 GAATATGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
2261917 AGAAAAAGGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
131 AGAAAAAGGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
*
2261970 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
2262035 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
2262097 TATAATGTAC
Statistics
Matches: 294, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 294 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAAGGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
Found at i:2262096 original size:303 final size:303
Alignment explanation
Indices: 2261787--2262381 Score: 1046
Period size: 303 Copynumber: 2.0 Consensus size: 303
2261777 ACATCGGAAC
*
2261787 CCAGAATTATAATGTAAAAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAAAAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
2261852 GAATATGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
2261917 AGAAAAAGGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAAGGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
* * * *
2261982 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTAC
196 TATAAAAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
*
2262047 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
** * * *
2262090 CCAGAATTATAATGTACTAGATAATTTTGTAATATAGCCGGTATAAGTATACCGATTTTATTAGC
1 CCAGAATTATAATGTAAAAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
* *
2262155 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTTCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
* *
2262220 AGAAAAATGTGTCTATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAAGGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
2262285 TATAAAAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TATAAAAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
2262350 AACCTATATCGACACTTTTTAATATTGTGTCG
261 AACCTATATCGACACTTTTTAATATTGTGTCG
2262382 CTAATTTTAA
Statistics
Matches: 276, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
303 276 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (303 bp):
CCAGAATTATAATGTAAAAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAAGGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
TATAAAAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:2262137 original size:486 final size:486
Alignment explanation
Indices: 2261111--2262381 Score: 2209
Period size: 486 Copynumber: 2.6 Consensus size: 486
2261101 CGGAACCCAT
* ** * * *
2261111 AATTATAATGTAATAGATAATTTTGTAATATAATAGGTATAAATATACCGGTTTTATGAGCGAAT
1 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGATTTTATTAGCGAAT
*
2261176 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
*
2261241 AAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
* *
2261306 ATAGATAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
196 AAAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
2261371 TATATCGACACTTTTTAATATTGTGTCAATATTGTGTCGGTACTTTATCTCCAGAATGGAAGAAA
261 TATATCGACAC-------T-TT-T-T-AATATTGTGTCGGTACTTTATCTCCAGAATGGAAGAAA
* *
2261436 AATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCATAATTATAATGTAA
315 AAGGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTAA
2261501 TAGATAATTTTGTAATATAACCGGTAAAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCT
380 TAGATAATTTTGTAATATAACCGGTAAAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCT
2261566 ATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAG
445 ATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAG
*
2261608 AATTATAATGTACTAGATAATTTTGTAATATAACCAGTATAAGTATACCGATTTTATTAGCGAAT
1 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGATTTTATTAGCGAAT
* *
2261673 AGGTCTACAACCTATGTCAACACTTTTTAATATTGTGTCGGTACTTTATATCCAGAATGGAAGAA
66 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
*
2261738 AAATGTGTCGATGCCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
*
2261803 AAAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATATGTCTACAACC
196 AAAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
*
2261868 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAAGGTGTCGAT
261 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATCTCCAGAATGGAAGAAAAAGGTGTCGAT
*
2261933 ACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTT
326 ACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTT
* *
2261998 GTAATATAACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACT
391 GTAATATAACCGGTAAAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACT
2262063 TTTTAATTTTGTGTCGGTACTTTATGTCCAG
456 TTTTAATTTTGTGTCGGTACTTTATGTCCAG
*
2262094 AATTATAATGTACTAGATAATTTTGTAATATAGCCGGTATAAGTATACCGATTTTATTAGCGAAT
1 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGATTTTATTAGCGAAT
*
2262159 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTTCAGAATGGAAGAA
66 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
* *
2262224 AAATGTGTCTATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATATA
131 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
*
2262289 AAAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
196 AAAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
2262354 TATATCGACACTTTTTAATATTGTGTCG
261 TATATCGACACTTTTTAATATTGTGTCG
2262382 CTAATTTTAA
Statistics
Matches: 743, Mismatches: 31, Indels: 11
0.95 0.04 0.01
Matches are distributed among these distances:
486 482 0.65
487 1 0.00
488 1 0.00
489 2 0.00
490 1 0.00
497 256 0.34
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (486 bp):
AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGATTTTATTAGCGAAT
AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
AAAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCGGTACTTTATCTCCAGAATGGAAGAAAAAGGTGTCGAT
ACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTT
GTAATATAACCGGTAAAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACT
TTTTAATTTTGTGTCGGTACTTTATGTCCAG
Found at i:2262183 original size:120 final size:120
Alignment explanation
Indices: 2261970--2262216 Score: 413
Period size: 120 Copynumber: 2.1 Consensus size: 120
2261960 ACATCGGAAC
* *
2261970 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
2262035 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
2262090 CCAGAATTATAATGTACTAGATAATTTTGTAATATAGCCGGTATAAGTATACCGATTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
2262155 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
*
2262210 TCAGAAT
1 CCAGAAT
2262217 GGAAGAAAAA
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:2265755 original size:23 final size:23
Alignment explanation
Indices: 2265726--2265773 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
2265716 AAATAGGTCA
*
2265726 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAATATATT
*
2265749 ATATAAGCGCTACCTAATATGTT
1 ATATAAGCGCTACCTAATATATT
2265772 AT
1 AT
2265774 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATATATT
Found at i:2265824 original size:87 final size:87
Alignment explanation
Indices: 2265726--2265975 Score: 455
Period size: 87 Copynumber: 2.9 Consensus size: 87
2265716 AAATAGGTCA
* * *
2265726 ATATAAGCGCTACCTATTATATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
2265791 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
2265813 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
2265878 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
2265900 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
**
2265965 CTGGTTAAATA
66 CCCGTTAAATA
2265976 ATATAACATA
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 158 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATACCTATTTTATT
Found at i:2265860 original size:23 final size:23
Alignment explanation
Indices: 2265810--2265854 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2265800 TACCTATTTT
* *
2265810 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
2265833 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
2265855 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:2265947 original size:23 final size:23
Alignment explanation
Indices: 2265897--2265941 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2265887 TACCTATTTT
* *
2265897 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
2265920 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
2265942 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:2270139 original size:81 final size:81
Alignment explanation
Indices: 2270014--2271044 Score: 1530
Period size: 81 Copynumber: 12.8 Consensus size: 81
2270004 TAGCCTTTCT
* * * * * *
2270014 TCTAACTTGCATATTTGATACTTTTCTGCCAAATGCACAACTAGGCCATTAATTTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
* *
2270079 GGTATTTAACTGTTCT
66 GGTATTTAACCGTTCA
* *
2270095 TATAACTGGCATAATTGACACATTTCTGCCAAATGTACAGCTAGGCCATTAATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
*
2270160 GGTATTTAACCGTTTA
66 GGTATTTAACCGTTCA
* * * *
2270176 TCTAACAGGCATAATTGACATC-TTTCTGCCAAATGCACAACTAGACCATTAATCTTTTGCTCAA
1 TCTAACTGGCATAATTGACA-CATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAA
*
2270240 CGGTAGTTAACCGTTCA
65 CGGTATTTAACCGTTCA
* * *
2270257 TCTAACTGGCCTAATTGACACATTTATGCCAAATGCAC-GACTATGCCATTAATCTTTTACTCAA
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAG-CTAGGCCATTAATCTTTTACTCAA
* *
2270321 CGATATTTAACTGTTCA
65 CGGTATTTAACCGTTCA
* *
2270338 TCTAACTGGTATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
*
2270403 GGTATTTAACTGTTCA
66 GGTATTTAACCGTTCA
* * * * * *
2270419 TCTAACTAGCATAATTGTCACATTTCTACCAAATGTACAGCTAGGCTATTAATCTTTTACTCAGC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
* * *
2270484 GATATTTAATCATTCA
66 GGTATTTAACCGTTCA
* * * *
2270500 TCTAACT-ACATAATTAACACATTTCTACCAAATGGACAGCTAGGCCATTAATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
2270564 GGTATTTAACCGTTCA
66 GGTATTTAACCGTTCA
* *
2270580 TCTAACTGGCATAATTAACACATTTCTGCCAAATGCATAGCTAGGCCATTAATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
2270645 GGTATTTAACCGTTCA
66 GGTATTTAACCGTTCA
*
2270661 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
2270726 GGTATTTAACCGTTCA
66 GGTATTTAACCGTTCA
* *
2270742 TCTAACTGACATAATTGACACATTTCTGCTAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
*
2270807 GGTATTTAACTGTTCA
66 GGTATTTAACCGTTCA
* * *
2270823 TCTAACTGGCATAATTGACAC-GTTATGCCAAATGCACTGCTAGGCCATTAATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
2270887 GGTATTTAACCGTTCA
66 GGTATTTAACCGTTCA
** * * *
2270903 TCTAACTGGCATAATTGATTCCTTTCTGCTAAATGCACTGCTAGGCCATTAATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
*
2270968 GGTATTTAATCGTTCA
66 GGTATTTAACCGTTCA
* *
2270984 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGACCATTAATCTTTTACT
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACT
2271045 TTAGAACTGT
Statistics
Matches: 860, Mismatches: 84, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
80 145 0.17
81 713 0.83
82 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
GGTATTTAACCGTTCA
Found at i:2270668 original size:323 final size:319
Alignment explanation
Indices: 2270014--2271044 Score: 1533
Period size: 323 Copynumber: 3.2 Consensus size: 319
2270004 TAGCCTTTCT
* * * * *
2270014 TCTAACTTGCATATTTGATACTTTTCTGCCAAATGCACAACTAGGCCATTAATTTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAAC
* *
2270079 GGTATTTAACTGTTCTTATAACTGGCATAATTGACACATTTCTGCCAAATGTACAGCTAGGCCAT
66 GGTATTTAACTGTTCATCTAACT-GCATAATTGACACATTTCTGCCAAATGTACAGCTAGGCCAT
*
2270144 TAATCTTTTACTCAACGGTATTTAACCGTTTATCTAAC-AGGCATAATTGACATCTTTCTGCCAA
130 TAATCTTTTACTCAACGGTATTTAA-CGTTCATCTAACTA--CATAATTGACA-CTTTCTGCCAA
* * * * *
2270208 ATGCACAACTAGACCATTAATCTTTTGCTCAACGGTAGTTAACCGTTCATCTAACTGGCCTAATT
191 ATGCACAGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATT
* * * * *
2270273 GACACATTTATGCCAAATGCACGACTATGCCATTAATCTTTTACTCAACGATATTTAACTGTTCA
256 GACACATTTCTGCCAAATGCATG-CTAGGCCATTAATCTTTTACTCAACGGTATTTAACCGTTCA
* * *
2270338 TCTAACTGGTATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAAC
* * *
2270403 GGTATTTAACTGTTCATCTAACTAGCATAATTGTCACATTTCTACCAAATGTACAGCTAGGCTAT
66 GGTATTTAACTGTTCATCTAACT-GCATAATTGACACATTTCTGCCAAATGTACAGCTAGGCCAT
* * * * *
2270468 TAATCTTTTACTCAGCGATATTTAATCATTCATCTAACTACATAATTAACACATTTCTACCAAAT
130 TAATCTTTTACTCAACGGTATTTAA-CGTTCATCTAACTACATAATTGACAC-TTTCTGCCAAAT
* *
2270533 GGACAGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTAA
193 GCACAGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGA
2270598 CACATTTCTGCCAAATGCATAGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACCGTTCA
258 CACATTTCTGCCAAATGCAT-GCTAGGCCATTAATCTTTTACTCAACGGTATTTAACCGTTCA
2270661 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAAC
* * *
2270726 GGTATTTAACCGTTCATCTAACTGACATAATTGACACATTTCTGCTAAATGCACAGCTAGGCCAT
66 GGTATTTAACTGTTCATCTAACTG-CATAATTGACACATTTCTGCCAAATGTACAGCTAGGCCAT
* * *
2270791 TAATCTTTTACTCAACGGTATTTAACTGTTCATCTAACTGGCATAATTGACACGTTATGCCAAAT
130 TAATCTTTTACTCAACGGTATTTAAC-GTTCATCTAACT-ACATAATTGACACTTTCTGCCAAAT
*
2270856 GCACTGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGA
193 GCACAGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGA
** * * *
2270921 TTCCTTTCTGCTAAATGCACTGCTAGGCCATTAATCTTTTACTCAACGGTATTTAATCGTTCA
258 CACATTTCTGCCAAATGCA-TGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACCGTTCA
*
2270984 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGACCATTAATCTTTTACT
1 TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
2271045 TTAGAACTGT
Statistics
Matches: 641, Mismatches: 59, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
322 3 0.00
323 475 0.74
324 162 0.25
325 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (319 bp):
TCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAAC
GGTATTTAACTGTTCATCTAACTGCATAATTGACACATTTCTGCCAAATGTACAGCTAGGCCATT
AATCTTTTACTCAACGGTATTTAACGTTCATCTAACTACATAATTGACACTTTCTGCCAAATGCA
CAGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACAC
ATTTCTGCCAAATGCATGCTAGGCCATTAATCTTTTACTCAACGGTATTTAACCGTTCA
Found at i:2271953 original size:122 final size:126
Alignment explanation
Indices: 2271705--2271966 Score: 424
Period size: 134 Copynumber: 2.0 Consensus size: 126
2271695 TTTATAATTT
2271705 TAAAAAGTACAACATATTATTTATAATCATTTGTATGATTATATTTTCTTTATTGTTCTTTAAAT
1 TAAAAAGTACAACATATTATTTATAATCATTTGTATGATTATATTTTCTTTATTGTTCTTTAAAT
2271770 TACTTGTAACCCCTTTAGATATTTAAAAATAAAAATTGAAATAAAAATTATTTTTGACACTAAAA
66 TACTTGTAACCCCTTTAGATATTT----AT--AAA-T-AAATAAAAATTATTTTTGACACTAAAA
2271835 GTAA
123 GTAA
2271839 TAAAAAGTACAACATATTATTTATAATCATTTGTATGATTATATTTTCTTTATTGTTCTTTAAAT
1 TAAAAAGTACAACATATTATTTATAATCATTTGTATGATTATATTTTCTTTATTGTTCTTTAAAT
2271904 TACTTGTAACCCCTTTAGATA-TT-T-AA-AAATAAAAATTATTTTTGACACTAAAAGTAA
66 TACTTGTAACCCCTTTAGATATTTATAAATAAATAAAAATTATTTTTGACACTAAAAGTAA
2271961 TAAAAA
1 TAAAAA
2271967 TAATATTTTT
Statistics
Matches: 128, Mismatches: 0, Indels: 12
0.91 0.00 0.09
Matches are distributed among these distances:
122 37 0.29
125 2 0.02
128 1 0.01
133 2 0.02
134 86 0.67
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (126 bp):
TAAAAAGTACAACATATTATTTATAATCATTTGTATGATTATATTTTCTTTATTGTTCTTTAAAT
TACTTGTAACCCCTTTAGATATTTATAAATAAATAAAAATTATTTTTGACACTAAAAGTAA
Found at i:2284606 original size:2 final size:2
Alignment explanation
Indices: 2284599--2284624 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2284589 ATTTAAACAA
2284599 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
2284625 TTACAAGACT
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:2286011 original size:3 final size:3
Alignment explanation
Indices: 2286003--2286096 Score: 95
Period size: 3 Copynumber: 32.0 Consensus size: 3
2285993 CCTGTATTTT
* * * * *
2286003 TAA TAA TAA TAA T-A TATA TAA TAT TAA TAA TTA TAA TTA TAT TTA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
2286048 TAA TAA TAA TAA TAA TAA TAA TAA TAA TTT TAA -AA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2286094 TAA
1 TAA
2286097 AAGAAAACTG
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
2 6 0.08
3 65 0.88
4 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:2286407 original size:23 final size:25
Alignment explanation
Indices: 2286373--2286429 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
2286363 CCCGAACCTG
* *
2286373 AAAATATTTTATATATAATTAATAT
1 AAAAAATTATATATATAATTAATAT
2286398 AAAAAATTATATATATAATTAATAT
1 AAAAAATTATATATATAATTAATAT
2286423 AAAAAAT
1 AAAAAAT
2286430 ATAAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAAAATTATATATATAATTAATAT
Found at i:2286438 original size:25 final size:25
Alignment explanation
Indices: 2286385--2286439 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
2286375 AATATTTTAT
*
2286385 ATATAATTAATATAAAAAATTATAT
1 ATATAATTAATATAAAAAATTATAA
2286410 ATATAATTAATATAAAAAA-TATAAA
1 ATATAATTAATATAAAAAATTAT-AA
2286435 ATATA
1 ATATA
2286440 TATATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATAATTAATATAAAAAATTATAA
Found at i:2286705 original size:45 final size:45
Alignment explanation
Indices: 2286633--2286775 Score: 207
Period size: 45 Copynumber: 3.2 Consensus size: 45
2286623 TTGAGTAGGA
* *
2286633 TTTGAAAACATCCTGCAT-TGTAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGC-TCTGAAGGGCTTACAGATGACCCGAAGGT
* * *
2286678 TTTGAAAACATCATGCTCTGAAAGGCTTACAGATGACCCGATGGC
1 TTTGAAAACATCATGCTCTGAAGGGCTTACAGATGACCCGAAGGT
* *
2286723 TTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGT
1 TTTGAAAACATCATGCTCTGAAGGGCTTACAGATGACCCGAAGGT
2286768 TTTGAAAA
1 TTTGAAAA
2286776 TATTAAAAAG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
44 1 0.01
45 86 0.99
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (45 bp):
TTTGAAAACATCATGCTCTGAAGGGCTTACAGATGACCCGAAGGT
Found at i:2286854 original size:45 final size:45
Alignment explanation
Indices: 2286788--2286896 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
2286778 TTAAAAAGCT
* *
2286788 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACATATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
2286835 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
2286880 ACCGAAGGTTTTGAAAA
1 CCCGAAGGTTTTGAAAA
2286897 TATTAAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 50 0.86
47 8 0.14
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:2286891 original size:121 final size:121
Alignment explanation
Indices: 2286669--2287138 Score: 741
Period size: 121 Copynumber: 3.9 Consensus size: 121
2286659 TTACAGATGA
* * * * *
2286669 CCCGAAGG--TTTTGAAAACATCATGCTCTGAAAGG-CTTACAGATGACCCGATGGCTTTGAAAA
1 CCCGAAGGCTTTTTGAAAACATCATACACTG-TAGGACTTACAGATGACCCGAAGGTTTTGAAAA
* *
2286731 CATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTGAAAATATTAAAAAGCT
65 CATCATGCACTGAAGGGCTTACAGATGAACCGAAGGTTTTGAAAATATTAAAAAGCT
* *
2286788 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACATATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATACACTGTAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
*
2286853 ATCATGCACTGAAGGGCTTACAGATGAACCGAAGGTTTTGAAAATATTAAAAATCT
66 ATCATGCACTGAAGGGCTTACAGATGAACCGAAGGTTTTGAAAATATTAAAAAGCT
*
2286909 CCCGAAGGCTTTTTGAAAACATCCTACACTGTAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATACACTGTAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
* *
2286974 ATCATGCACTGAAGGGCTTACAGATG-ACCTGAAGGCTTTGAAAATATCAAAAAGCT
66 ATCATGCACTGAAGGGCTTACAGATGAACC-GAAGGTTTTGAAAATATTAAAAAGCT
* *
2287030 CCGGAAGGCTTTTTGAAAACATCCTACACTGTAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATACACTGTAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
*
2287095 ATCATGGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAA
66 ATCAT-GCACTGAAGGGCTTACAGATGAACCGAAGGTTTTGAAA
2287139 GCATCATGCA
Statistics
Matches: 328, Mismatches: 17, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
119 8 0.02
120 6 0.02
121 279 0.85
122 33 0.10
123 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (121 bp):
CCCGAAGGCTTTTTGAAAACATCATACACTGTAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
ATCATGCACTGAAGGGCTTACAGATGAACCGAAGGTTTTGAAAATATTAAAAAGCT
Found at i:2286960 original size:47 final size:47
Alignment explanation
Indices: 2286909--2287012 Score: 149
Period size: 45 Copynumber: 2.3 Consensus size: 47
2286899 TTAAAAATCT
* *
2286909 CCCGAAGGCTTTTTGAAAACATCCTACACTGTAGGACTTACAGATGA
1 CCCGAAGGCTTTTTGAAAACATCATACACTGAAGGACTTACAGATGA
* *
2286956 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGCTTTTTGAAAACATCATACACTGAAGGACTTACAGATGA
*
2287001 CCTGAAGGCTTT
1 CCCGAAGGCTTT
2287013 GAAAATATCA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 40 0.80
47 10 0.20
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (47 bp):
CCCGAAGGCTTTTTGAAAACATCATACACTGAAGGACTTACAGATGA
Found at i:2287165 original size:45 final size:45
Alignment explanation
Indices: 2287040--2287166 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 45
2287030 CCGGAAGGCT
* * *
2287040 TTTTGAAAACATCCTACACTGTAGGACTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
*
2287085 TTTTGAAAACATCATGGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCAT-GCACTGAAGGACTTACAGATGACCCGAAGG
* *
2287131 TTTTGAAAGCATCATGCACTGAAGGTCTTACAGATG
1 TTTTGAAAACATCATGCACTGAAGGACTTACAGATG
2287167 TGGGAAATAG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 34 0.45
46 41 0.55
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
Found at i:2287864 original size:22 final size:22
Alignment explanation
Indices: 2287839--2287893 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
2287829 AAAAAAGTGT
*
2287839 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAAAATCTA
2287861 TCATCTTTGAAAAGAAAATCTA
1 TCATCTTTGAAAAGAAAATCTA
2287883 TCATCTTTGAA
1 TCATCTTTGAA
2287894 GAGTGTAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAAAATCTA
Found at i:2298495 original size:18 final size:18
Alignment explanation
Indices: 2298469--2298506 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2298459 ATATCAAAAA
*
2298469 TAAATAAATAT-TATTATT
1 TAAACAAATATATA-TATT
2298487 TAAACAAATATATATATT
1 TAAACAAATATATATATT
2298505 TA
1 TA
2298507 CAAGACTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAACAAATATATATATT
Found at i:2299898 original size:21 final size:21
Alignment explanation
Indices: 2299872--2299931 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
2299862 TTTTTTAATA
2299872 ATAATAAT-ATATATAATATAT
1 ATAATAATAATA-ATAATATAT
* * *
2299893 ATAATATTAATAATTATATTT
1 ATAATAATAATAATAATATAT
*
2299914 ATAATAATAATGATAATA
1 ATAATAATAATAATAATA
2299932 ATTTTTTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 29 0.91
22 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATAATAATAATAATAATATAT
Found at i:2299953 original size:3 final size:3
Alignment explanation
Indices: 2299867--2299933 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
2299857 CTGTATTTTT
* * *
2299867 TAA TAA TAA TAA T-A TATA TAA T-A TATA TAA TAT TAA TAA TTA TAT
1 TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* *
2299912 TTA TAA TAA TAA TGA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
2299934 TTTTTTAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
2 4 0.08
3 40 0.80
4 6 0.12
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:2305551 original size:20 final size:20
Alignment explanation
Indices: 2305526--2305563 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2305516 TTCCCCTTGA
2305526 AGTGCATCGATGCATTCTAT
1 AGTGCATCGATGCATTCTAT
2305546 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
2305564 TTAACATGTG
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:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAT
Found at i:2305579 original size:24 final size:20
Alignment explanation
Indices: 2305526--2305583 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
2305516 TTCCCCTTGA
*
2305526 AGTGCATCGATGCATTCTAT
1 AGTGCATCGATGCATTCTAC
2305546 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
2305569 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
2305584 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:2305648 original size:64 final size:63
Alignment explanation
Indices: 2305571--2305731 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 63
2305561 TCTTTAACAT
* * *
2305571 GTGCATCGATGCACTACCCATGCATCGATACACTAATCACCTTCAATGTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACTAATCACATTCAATGTTTCCATTTTTAA-GGG
* ** *
2305635 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCAATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACTAATCACATTCAATGTTTCCATTTTTAAGGG
* *
2305699 GTGCATTGATGCACTTCCTGTGCATCGATACAC
1 GTGCATCGATGCAC-TCCTATGCATCGATACAC
2305732 ACTGAACAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.02
64 73 0.87
65 9 0.11
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACTAATCACATTCAATGTTTCCATTTTTAAGGG
Found at i:2312668 original size:41 final size:40
Alignment explanation
Indices: 2312623--2312837 Score: 222
Period size: 41 Copynumber: 5.4 Consensus size: 40
2312613 GATTCTGACT
**
2312623 ATCGCATTGCGATTTTCCAAATTCGTGTTGCGATTACGTAA
1 ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTACGT-A
* * *** * *
2312664 ATCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTA
1 ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTACGTA
* *
2312704 TTCGCATTGCGA-TTTACATAATTCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTTCCA-AATTCGCATTGCGA-TTACGTA
* * *
2312745 ATCGCATTGCAATTTTCCTAATTCGCATTGCGATTTATGTA
1 ATCGCATTGCGATTTTCCAAATTCGCATTGCGA-TTACGTA
*
2312786 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATT---TA
1 ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTACGTA
*
2312823 TTCGCATTGCGATTT
1 ATCGCATTGCGATTT
2312838 ACGTAATCGC
Statistics
Matches: 148, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
37 16 0.11
39 3 0.02
40 25 0.17
41 100 0.68
42 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (40 bp):
ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTACGTA
Found at i:2312679 original size:21 final size:21
Alignment explanation
Indices: 2312650--2312856 Score: 134
Period size: 21 Copynumber: 10.4 Consensus size: 21
2312640 CAAATTCGTG
2312650 TTGCG-ATTACGTAAATCGCA
1 TTGCGAATTACGTAAATCGCA
* * *
2312670 ATGCGAATTAGGAAAATCGCA
1 TTGCGAATTACGTAAATCGCA
* *
2312691 ATGCG-ATTACGT-ATTCGCA
1 TTGCGAATTACGTAAATCGCA
* * *
2312710 TTGCGATTTACATAATTCGCA
1 TTGCGAATTACGTAAATCGCA
*
2312731 TTGCGATTTACGT-AATCGCA
1 TTGCGAATTACGTAAATCGCA
* * *
2312751 TTGC-AATTTTCCTAATTCGCA
1 TTGCGAA-TTACGTAAATCGCA
* *
2312772 TTGCGATTTATGT-AATCGCA
1 TTGCGAATTACGTAAATCGCA
* * * *
2312792 TTGCGATTTTCCTAATTCGCA
1 TTGCGAATTACGTAAATCGCA
*
2312813 TTGCG-ATT---T-ATTCGCA
1 TTGCGAATTACGTAAATCGCA
*
2312829 TTGCGATTTACGT-AATCGCA
1 TTGCGAATTACGTAAATCGCA
2312849 TTGC-AATT
1 TTGCGAATT
2312857 TTCCTAATTC
Statistics
Matches: 148, Mismatches: 28, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
16 12 0.08
17 3 0.02
19 14 0.09
20 57 0.39
21 61 0.41
22 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (21 bp):
TTGCGAATTACGTAAATCGCA
Found at i:2312827 original size:16 final size:16
Alignment explanation
Indices: 2312765--2312838 Score: 67
Period size: 16 Copynumber: 4.1 Consensus size: 16
2312755 AATTTTCCTA
2312765 ATTCGCATTGCGATTT
1 ATTCGCATTGCGATTT
2312781 ATGTAATCGCATTGCGATTTTCCT
1 A--T--TCGCATTGCGA--TT--T
2312805 AATTCGCATTGCGATTT
1 -ATTCGCATTGCGATTT
2312822 ATTCGCATTGCGATTT
1 ATTCGCATTGCGATTT
2312838 A
1 A
2312839 CGTAATCGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 18
0.73 0.00 0.27
Matches are distributed among these distances:
16 18 0.37
17 1 0.02
18 1 0.02
19 2 0.04
20 11 0.22
21 11 0.22
22 2 0.04
23 1 0.02
24 1 0.02
25 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.42
Consensus pattern (16 bp):
ATTCGCATTGCGATTT
Found at i:2312879 original size:57 final size:57
Alignment explanation
Indices: 2312702--2312867 Score: 208
Period size: 57 Copynumber: 2.8 Consensus size: 57
2312692 TGCGATTACG
* * * * *
2312702 TATTCGCATTGCGATTTACATAATTCGCATTGCGATTTACGTAA-TCGCATTGCAATTTT
1 TATTCGCATTGCGATTTACGTAA-TCGCATTGCAATTTTCCTAATTCGCATTGCGA--TT
* *
2312761 CCTAATTCGCATTGCGATTTATGTAATCGCATTGCGATTTTCCTAATTCGCATTGCGATT
1 --T-ATTCGCATTGCGATTTACGTAATCGCATTGCAATTTTCCTAATTCGCATTGCGATT
2312821 TATTCGCATTGCGATTTACGTAATCGCATTGCAATTTTCCTAATTCG
1 TATTCGCATTGCGATTTACGTAATCGCATTGCAATTTTCCTAATTCG
2312868 TGCTTCGATT
Statistics
Matches: 96, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
57 44 0.46
58 1 0.01
60 2 0.02
61 19 0.20
62 30 0.31
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.40
Consensus pattern (57 bp):
TATTCGCATTGCGATTTACGTAATCGCATTGCAATTTTCCTAATTCGCATTGCGATT
Found at i:2312907 original size:98 final size:98
Alignment explanation
Indices: 2312724--2312910 Score: 281
Period size: 98 Copynumber: 1.9 Consensus size: 98
2312714 GATTTACATA
*
2312724 ATTCGCATTGCGATTTACGTAATCGCATTGCAATTTTCCTAATTCGCATTGCGATTTATGTAATC
1 ATTCGCATTGCGATTTACGTAATCGCATTGCAATTTTCCTAATTCGCATTGCGATTTACGTAATC
* * * *
2312789 GCATTGCGATTTTCCTAATTCGCATTGCGATTT
66 GCAATACGAATTTCCAAATTCGCATTGCGATTT
2312822 ATTCGCATTGCGATTTACGTAATCGCATTGCAATTTTCCTAATTCGTGC-TT-CGATTTACGTAA
1 ATTCGCATTGCGATTTACGTAATCGCATTGCAATTTTCCTAATTC--GCATTGCGATTTACGTAA
2312885 TCGCAATACTGAATTT-CAAATTCGCA
64 TCGCAATAC-GAATTTCCAAATTCGCA
2312911 ACTCGATTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
98 72 0.89
99 7 0.09
100 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (98 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCAATTTTCCTAATTCGCATTGCGATTTACGTAATC
GCAATACGAATTTCCAAATTCGCATTGCGATTT
Found at i:2313760 original size:24 final size:24
Alignment explanation
Indices: 2313733--2313786 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2313723 GTATTCGAAA
2313733 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
2313757 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
2313781 TTTGAT
1 TTTGAT
2313787 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:2316338 original size:19 final size:19
Alignment explanation
Indices: 2316296--2316358 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
2316286 CAATCATCTT
*
2316296 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
2316316 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
2316335 AATGAAAATCGCAACGCGA
1 AATGACTATCGCAACGCGA
2316354 AATGA
1 AATGA
2316359 AAATCGAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
19 23 0.61
20 15 0.39
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:2316359 original size:19 final size:19
Alignment explanation
Indices: 2316303--2316439 Score: 114
Period size: 19 Copynumber: 7.7 Consensus size: 19
2316293 CTTAATGTCT
**
2316303 ATCGCAACGCGGAAATGACT
1 ATCGCAACGC-GAAATGAAA
*
2316323 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
2316342 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* *
2316361 ATCG-AA-ACG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
2316375 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
**
2316394 ATCGCAA--CG--A-GGGA
1 ATCGCAACGCGAAATGAAA
*
2316408 ATCGCAAAGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
2316427 ATCGCAACGCGAA
1 ATCGCAACGCGAA
2316440 TTTAGTTTCG
Statistics
Matches: 94, Mismatches: 13, Indels: 21
0.73 0.10 0.16
Matches are distributed among these distances:
14 16 0.17
15 4 0.04
16 4 0.04
17 4 0.04
18 4 0.04
19 53 0.56
20 9 0.10
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:2316378 original size:33 final size:33
Alignment explanation
Indices: 2316341--2316435 Score: 154
Period size: 33 Copynumber: 2.9 Consensus size: 33
2316331 GCGAAATGAA
* *
2316341 AATCGCAACGCGAAATGAAAATCGAAACGAGAG
1 AATCGCAAAGCGAAATGAAAATCGCAACGAGAG
* *
2316374 AATCGCAATGCGAAATGAAAATCGCAACGAGGG
1 AATCGCAAAGCGAAATGAAAATCGCAACGAGAG
2316407 AATCGCAAAGCGAAATGAAAATCGCAACG
1 AATCGCAAAGCGAAATGAAAATCGCAACG
2316436 CGAATTTAGT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
AATCGCAAAGCGAAATGAAAATCGCAACGAGAG
Found at i:2316430 original size:52 final size:51
Alignment explanation
Indices: 2316303--2316439 Score: 150
Period size: 52 Copynumber: 2.6 Consensus size: 51
2316293 CTTAATGTCT
* **
2316303 ATCGCAACGCGGAAATGACTATCGCAATGCGAAATGAAAATCGCAACGCGAA
1 ATCGCAAAGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAA
* * * * *
2316355 AT-GAAAATCGAAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAAAGCGAAATGA-A-AATCGCAATGCGAAATGAAAATCGCAACG-CGAA
*
2316408 ATCGCAAAGCGAAATGAAAATCGCAACGCGAA
1 ATCGCAAAGCGAAATGAAAATCGCAATGCGAA
2316440 TTTAGTTTCG
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
50 6 0.09
51 4 0.06
52 43 0.62
53 5 0.07
54 11 0.16
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.12
Consensus pattern (51 bp):
ATCGCAAAGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAA
Found at i:2316467 original size:14 final size:14
Alignment explanation
Indices: 2316445--2316490 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
2316435 GCGAATTTAG
*
2316445 TTTCGCGTTGCGAT
1 TTTCTCGTTGCGAT
*
2316459 TTTGTCGTTGCGAT
1 TTTCTCGTTGCGAT
* *
2316473 TCTCTCATTGCGAT
1 TTTCTCGTTGCGAT
2316487 TTTC
1 TTTC
2316491 ATTTCGCATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.48
Consensus pattern (14 bp):
TTTCTCGTTGCGAT
Found at i:2316631 original size:14 final size:14
Alignment explanation
Indices: 2316612--2316648 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2316602 CATCAATTAA
2316612 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2316626 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2316640 ACAAATCAA
1 ACAAATCAA
2316649 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2318060 original size:21 final size:21
Alignment explanation
Indices: 2317994--2318060 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2317984 GTGAATCGGG
*
2317994 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
2318014 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
2318036 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
2318057 CTCT
1 CTCT
2318061 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:2318079 original size:42 final size:41
Alignment explanation
Indices: 2317994--2318116 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
2317984 GTGAATCGGG
* * * *
2317994 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
2318036 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
2318078 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
2318117 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:2318582 original size:39 final size:41
Alignment explanation
Indices: 2318513--2318604 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 41
2318503 TCTGGAACTT
* ** **
2318513 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAA-TG
1 AAAATCGCAACGAGAAAAATGAAAATCGCAACGCGAAACCA
*
2318553 AAAATCGCAACGAG-AGAATGAAAATCGCAACGCGAAACCA
1 AAAATCGCAACGAGAAAAATGAAAATCGCAACGCGAAACCA
2318593 AAAATCGCAACG
1 AAAATCGCAACG
2318605 CGATTATAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 20 0.44
40 25 0.56
ACGTcount: A:0.48, C:0.22, G:0.20, T:0.11
Consensus pattern (41 bp):
AAAATCGCAACGAGAAAAATGAAAATCGCAACGCGAAACCA
Found at i:2318605 original size:20 final size:19
Alignment explanation
Indices: 2318513--2318607 Score: 100
Period size: 20 Copynumber: 4.8 Consensus size: 19
2318503 TCTGGAACTT
*
2318513 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
2318534 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
2318553 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
**
2318573 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAA-TG
2318593 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
2318608 TTATAGTTTC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
19 19 0.30
20 33 0.52
21 11 0.17
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:2318626 original size:19 final size:19
Alignment explanation
Indices: 2318604--2318700 Score: 71
Period size: 19 Copynumber: 5.3 Consensus size: 19
2318594 AAATCGCAAC
2318604 GCGATTAT-AGTTTCGCGTT
1 GCGATTATCA-TTTCGCGTT
* *
2318623 GCGATTTTCATTTTGCGTT
1 GCGATTATCATTTCGCGTT
*
2318642 GCGA-T-TC-TAT--CGTT
1 GCGATTATCATTTCGCGTT
* *
2318656 GCGATTTTCATTTCGTGTT
1 GCGATTATCATTTCGCGTT
* *
2318675 GCGATTTTCATTCTCTCGTT
1 GCGATTATCATT-TCGCGTT
2318695 GCGATT
1 GCGATT
2318701 TTTATTTTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
14 8 0.12
15 1 0.02
16 4 0.06
17 4 0.06
18 1 0.02
19 34 0.53
20 12 0.19
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (19 bp):
GCGATTATCATTTCGCGTT
Found at i:2318697 original size:20 final size:20
Alignment explanation
Indices: 2318645--2318702 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 20
2318635 TTGCGTTGCG
*
2318645 ATTCTATCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
2318665 ATT-TCGT-GTTGCGATTTTC
1 ATTCTC-TCGTTGCGATTTTC
2318684 ATTCTCTCGTTGCGATTTT
1 ATTCTCTCGTTGCGATTTT
2318703 TATTTTAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.12, C:0.19, G:0.17, T:0.52
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:2318907 original size:94 final size:94
Alignment explanation
Indices: 2318803--2319174 Score: 592
Period size: 94 Copynumber: 4.0 Consensus size: 94
2318793 ATTGCATTGC
* *
2318803 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
* *
2318868 AGAATTGACAGCAAACGAACAAATTTACT
66 AGAATTGGCAGCAACCGAACAAATTTACT
2318897 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
2318962 AGAATTGGCAGCAACCGAACAAATTTACT
66 AGAATTGGCAGCAACCGAACAAATTTACT
*
2318991 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTCCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
*
2319056 AGAATTGGCAGCAACCGAATAAATTTAC-
66 AGAATTGGCAGCAACCGAACAAATTTACT
* * *
2319084 TTCAACCAAAAGAAAAAACAAAAGACAAATACTAATTTCACAGTGTT----AATAAACAGTTTAG
1 TTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAG
* * *
2319145 CAGTATTGGCAACAACCGAATAAATTTACT
65 CAGAATTGGCAGCAACCGAACAAATTTACT
2319175 AAGCAATCTA
Statistics
Matches: 264, Mismatches: 12, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
90 40 0.15
93 18 0.07
94 206 0.78
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (94 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
AGAATTGGCAGCAACCGAACAAATTTACT
Found at i:2320955 original size:19 final size:19
Alignment explanation
Indices: 2320866--2321011 Score: 132
Period size: 19 Copynumber: 8.1 Consensus size: 19
2320856 TCTTTTGGTT
*
2320866 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
2320885 GAGAATGAAAATCGCAACCC
1 GA-AATGAAAATCGCAACGC
**
2320905 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
2320923 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2320939 GAAATGAAAATCACAA--C
1 GAAATGAAAATCGCAACGC
*
2320956 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2320972 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2320991 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
2321010 GA
1 GA
2321012 TTTTGGTTTC
Statistics
Matches: 103, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
14 18 0.17
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 44 0.43
20 27 0.26
21 2 0.02
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2320956 original size:33 final size:33
Alignment explanation
Indices: 2320866--2320989 Score: 149
Period size: 33 Copynumber: 3.5 Consensus size: 33
2320856 TCTTTTGGTT
*
2320866 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACCC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
**
2320905 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
2320939 GAAATGAAAATCACAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2320972 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
2320990 CGAAATGAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
33 47 0.61
34 10 0.13
36 1 0.01
37 1 0.01
38 3 0.04
40 15 0.19
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2321029 original size:19 final size:20
Alignment explanation
Indices: 2321007--2321054 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
2320997 AAAATCGCAA
**
2321007 TGCGATTTTGGTTT-CGCGT
1 TGCGATTTTCATTTCCGCGT
**
2321026 TGCGATAGTCATTTCCGCGT
1 TGCGATTTTCATTTCCGCGT
2321046 TGCGATTTT
1 TGCGATTTT
2321055 AATTCTCGAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.10, C:0.19, G:0.27, T:0.44
Consensus pattern (20 bp):
TGCGATTTTCATTTCCGCGT
Found at i:2321655 original size:20 final size:20
Alignment explanation
Indices: 2321632--2321682 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
2321622 ATAGTCAGAT
2321632 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
*
2321652 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAA
2321672 TCGCATTGCGA
1 TCGCATTGCGA
2321683 ATTAGGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAA
Found at i:2321703 original size:21 final size:21
Alignment explanation
Indices: 2321679--2321724 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2321669 TATTCGCATT
2321679 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * * *
2321700 GCGAATTTGGGAAATTGCAAT
1 GCGAATTAGGAAAATCGCAAC
2321721 GCGA
1 GCGA
2321725 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:2324490 original size:6 final size:6
Alignment explanation
Indices: 2322551--2324489 Score: 3613
Period size: 6 Copynumber: 326.3 Consensus size: 6
2322541 TCTTTAATAC
*
2322551 GTGTAT ATGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2322599 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2322647 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2322695 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2322743 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2322791 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2322839 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2322887 GTGTAT GTGTA- -TGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2322933 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2322981 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323029 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323077 GTGTAT GTGTATGT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTA--T GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323127 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323175 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323223 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323271 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323319 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323367 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTA-
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323414 -TGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323461 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323509 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323557 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323605 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323653 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323701 GTGTAT GTGTAT GTGTAT GTATGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT G--TGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323751 GTGTA- -TGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323797 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323845 GTGTAT GTGTAT GTGTAT GTGTA- -TGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323891 GTGTA- -TGTAT GTGTAT GTGTAT GTGTA- -TGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2323935 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
*
2323983 GTGTAT GTGTAT GTGTATGT GTGTGT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTA--T GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2324033 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTA- -TGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2324079 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2324127 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTG--T G-GTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2324172 GTGTAT GTGTA- -TGTAT GTGTAT GTGTAT GTGTAT GTGTA- -TGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2324216 GTGTAT GTGTAT GTGTAT GTGTAT GTGTA- -TGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2324262 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2324310 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
*
2324358 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT CTGTAT GTGTA- -TGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
2324404 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
*
2324452 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTATAT GT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GT
2324490 ACTTTCTTTT
Statistics
Matches: 1895, Mismatches: 7, Indels: 62
0.96 0.00 0.03
Matches are distributed among these distances:
3 1 0.00
4 46 0.02
5 2 0.00
6 1829 0.97
8 17 0.01
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
GTGTAT
Found at i:2327719 original size:20 final size:20
Alignment explanation
Indices: 2327696--2327768 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
2327686 TTTGCAAATA
2327696 ATCGATCCCTTTTCAAAAGG
1 ATCGATCCCTTTTCAAAAGG
** ** *
2327716 ATCGATTCCCCGTGAAAAATG
1 ATCGA-TCCCTTTTCAAAAGG
*
2327737 ATCGAT-CCTTTTCAAGAAAGA
1 ATCGATCCCTTTTC-A-AAAGG
2327758 ATCGATCCCTT
1 ATCGATCCCTT
2327769 CGCTGTTTCG
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
19 3 0.08
20 7 0.18
21 24 0.63
22 4 0.11
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (20 bp):
ATCGATCCCTTTTCAAAAGG
Found at i:2334699 original size:17 final size:17
Alignment explanation
Indices: 2334679--2334712 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2334669 TTTGTATACT
2334679 TAAGTTTCAAATTCGAA
1 TAAGTTTCAAATTCGAA
2334696 TAAGTTTCAAATTCGAA
1 TAAGTTTCAAATTCGAA
2334713 CTCGAGTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
TAAGTTTCAAATTCGAA
Found at i:2340874 original size:17 final size:17
Alignment explanation
Indices: 2340852--2340902 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
2340842 ATATGTCCAT
2340852 TGGTCTATTAATTTCTA
1 TGGTCTATTAATTTCTA
* *
2340869 TGGTCTAATAACATATCTA
1 TGGTCT-ATTA-ATTTCTA
2340888 -GG-CTATTAATTTCTA
1 TGGTCTATTAATTTCTA
2340903 GTCTAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 6 0.21
16 3 0.11
17 8 0.29
18 5 0.18
19 6 0.21
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (17 bp):
TGGTCTATTAATTTCTA
Found at i:2351530 original size:22 final size:23
Alignment explanation
Indices: 2351489--2351547 Score: 93
Period size: 22 Copynumber: 2.6 Consensus size: 23
2351479 CTCGTATAAA
2351489 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
2351512 TGCACCGATGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
2351534 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
2351548 ATATAATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:2352265 original size:66 final size:66
Alignment explanation
Indices: 2352149--2352298 Score: 212
Period size: 66 Copynumber: 2.3 Consensus size: 66
2352139 TTTTTCTCAT
* * *
2352149 GGGGGAATCGGTTCCCCCCCTGGGGTATCGATTTCCCACTAGCATTCTGG-AATTCATATTCGTT
1 GGGGGTATCGGTT-CCCCCCTGGGGTATCGATTCCCCACTAGCATACTGGAAATTCATATTCGTT
2352213 GA
65 GA
* * *
2352215 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGTATACTGGAAATTCATATTTGTT
1 GGGGGTATCGGTTCCCCCCT-GGGGTATCGATTCCCCACTAGCATACTGGAAATTCATATTCGTT
2352280 GA
65 GA
*
2352282 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
2352299 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
65 7 0.09
66 37 0.49
67 31 0.41
ACGTcount: A:0.17, C:0.25, G:0.27, T:0.31
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGTATCGATTCCCCACTAGCATACTGGAAATTCATATTCGTTG
A
Found at i:2352308 original size:21 final size:21
Alignment explanation
Indices: 2352278--2352320 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2352268 TTCATATTTG
* *
2352278 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2352299 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2352320 T
1 T
2352321 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2358381 original size:23 final size:23
Alignment explanation
Indices: 2358363--2358421 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
2358353 CTCGTATAAA
2358363 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
2358386 TGCACCGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
2358408 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
2358422 ATATAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.62
23 13 0.38
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:2359142 original size:66 final size:66
Alignment explanation
Indices: 2359025--2359175 Score: 205
Period size: 67 Copynumber: 2.3 Consensus size: 66
2359015 TTTTTCTCAT
* * *
2359025 GGGGGAATCGGTTCCCCCCCCTGGGGTATCGATTCCCCACTAGCATTCTGG-AATTCATATTCGT
1 GGGGGTATCGGTT--CCCCCCTGGGGTATCAATTCCCCACTAGCATACTGGAAATTCATATTCGT
2359089 TGA
64 TGA
* * *
2359092 GGGGGTATCGGTTCCCCCCTGGGGGTATCAATTCCCCTCTAGTATACTGGAAATTCATATTTGTT
1 GGGGGTATCGGTTCCCCCCT-GGGGTATCAATTCCCCACTAGCATACTGGAAATTCATATTCGTT
2359157 GA
65 GA
*
2359159 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
2359176 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 7 0.09
66 25 0.33
67 43 0.57
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGTATCAATTCCCCACTAGCATACTGGAAATTCATATTCGTTG
A
Found at i:2359185 original size:21 final size:21
Alignment explanation
Indices: 2359155--2359197 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2359145 TTCATATTTG
* *
2359155 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2359176 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2359197 T
1 T
2359198 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2361850 original size:27 final size:26
Alignment explanation
Indices: 2361820--2361875 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
2361810 TCGGGCTCGA
* *
2361820 GTCGAGTGGAGGGTATATATTTTTTGG
1 GTCGAATGAAGGGTATATA-TTTTTGG
2361847 GTCGAATGAAGGGTATATATTTTTGG
1 GTCGAATGAAGGGTATATATTTTTGG
2361873 GTC
1 GTC
2361876 AGGTCGAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.21, C:0.05, G:0.34, T:0.39
Consensus pattern (26 bp):
GTCGAATGAAGGGTATATATTTTTGG
Done.