Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004417.1 Hibiscus syriacus cultivar Beakdansim tig00009685_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: 97863
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:1544 original size:59 final size:58
Alignment explanation
Indices: 1471--1591 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 58
1461 TTTTAACTTC
* * *
1471 ATCCTCAAAATATGAATCACATTTTAAATTAGT-CTTAAACTTTTGAACATTTCAATTTT
1 ATCCCCAAAATATGAATCACATTGTAAATTAGTCCCTAAACTTTT--ACATTTCAATTTT
* * * *
1530 ATCCCCAAACTATGAATCTCATTGTAAATTAGTCCCTAAACTTTTAGATTTCTATTTT
1 ATCCCCAAAATATGAATCACATTGTAAATTAGTCCCTAAACTTTTACATTTCAATTTT
1588 ATCC
1 ATCC
1592 TAAATCATCA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 15 0.28
59 29 0.54
60 10 0.19
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (58 bp):
ATCCCCAAAATATGAATCACATTGTAAATTAGTCCCTAAACTTTTACATTTCAATTTT
Found at i:1821 original size:60 final size:60
Alignment explanation
Indices: 1750--1877 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 60
1740 AAAGCATGGG
* *
1750 ACTAATTTAGAATGA-AGATCACAGCTCGAGGACGAAAATGAAATGTTCAAAAGTTTAAGA
1 ACTAATTTAGAATGATAG-TCACAGCTCAAGGACGAAAATGAAATGTTCAAAAATTTAAGA
* * * * * * * *
1810 ACTAATTTAGAATGATAGTCATAGTTTAAGGATGAAATTGAAATGTTTAAAAATTTAGGT
1 ACTAATTTAGAATGATAGTCACAGCTCAAGGACGAAAATGAAATGTTCAAAAATTTAAGA
1870 ACTAATTT
1 ACTAATTT
1878 GAAAGAGGGT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 55 0.96
61 2 0.04
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (60 bp):
ACTAATTTAGAATGATAGTCACAGCTCAAGGACGAAAATGAAATGTTCAAAAATTTAAGA
Found at i:3954 original size:60 final size:59
Alignment explanation
Indices: 3876--4015 Score: 151
Period size: 60 Copynumber: 2.4 Consensus size: 59
3866 TAGAAGATCT
* * **
3876 AAAGTTTAGGGACCAATTTAAAATGAGATTCATAGTTTGGA-GATGAAATTCG-AATGTTCA
1 AAAGTTTAAGGACTAATTTAAAATGAGAGCCATA-TTT-GACGATGAAATT-GAAATGTTCA
* * *
3936 GAAGTTTAAGGACTAATTTATAATGAGAGCCATATTTGACGATGAAATTGAAATGTTTA
1 AAAGTTTAAGGACTAATTTAAAATGAGAGCCATATTTGACGATGAAATTGAAATGTTCA
* *
3995 AAAG-TTAAAGAATAATTTAAA
1 AAAGTTTAAGGACTAATTTAAA
4016 TGAAAGTCAT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
58 17 0.25
59 22 0.33
60 28 0.42
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (59 bp):
AAAGTTTAAGGACTAATTTAAAATGAGAGCCATATTTGACGATGAAATTGAAATGTTCA
Found at i:4000 original size:59 final size:59
Alignment explanation
Indices: 3858--4018 Score: 152
Period size: 59 Copynumber: 2.7 Consensus size: 59
3848 TACATGTTTG
* * * * * **
3858 GATGAAATTAGAA-GATCTAAAGTTTAGGGACCAATTTAAAATGAGATTCATAGTTTGGA
1 GATGAAATTCGAATGTTCAAAAGTTTAAGGACTAATTT-AAATGAGAGCCATAGTTTGGA
*
3917 GATGAAATTCGAATGTTCAGAAGTTTAAGGACTAATTTATAATGAGAGCCATA-TTT-GA
1 GATGAAATTCGAATGTTCAAAAGTTTAAGGACTAATTTA-AATGAGAGCCATAGTTTGGA
* * *
3975 CGATGAAATT-GAAATGTTTAAAAG-TTAAAGAATAATTTAAATGA
1 -GATGAAATTCG-AATGTTCAAAAGTTTAAGGACTAATTTAAATGA
4019 AAGTCATAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
57 5 0.06
58 16 0.19
59 35 0.41
60 30 0.35
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (59 bp):
GATGAAATTCGAATGTTCAAAAGTTTAAGGACTAATTTAAATGAGAGCCATAGTTTGGA
Found at i:7382 original size:2 final size:2
Alignment explanation
Indices: 7375--7404 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7365 CGACCCTTCA
7375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7405 TGTGTTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15473 original size:38 final size:37
Alignment explanation
Indices: 15208--15473 Score: 276
Period size: 38 Copynumber: 7.2 Consensus size: 37
15198 TGAAAATACG
* * *
15208 TATATAATATATAATTTCTAAAAACA--TTTTAAAAAT
1 TATATAATATATAGTTT-TTAAAACATTTTTTGAAAAT
* * *
15244 GTATATAATATATGGTTTTTAAAACA---CTTGAAAAC
1 -TATATAATATATAGTTTTTAAAACATTTTTTGAAAAT
* **
15279 TATATAATATATAGTTTTTAAAATATTTTAGGAAAA-
1 TATATAATATATAGTTTTTAAAACATTTTTTGAAAAT
*
15315 TATATAATATATAGTTTTTAAAATCATTTTTGGAAAACT
1 TATATAATATATAGTTTTTAAAA-CATTTTTTGAAAA-T
* *
15354 TATATAATATATAGTTTTTAAAAATATTTTTTGAAATT
1 TATATAATATATAGTTTTT-AAAACATTTTTTGAAAAT
15392 TATATAATATATAGTTTTTAAAAACA-TTTTTGAAAACT
1 TATATAATATATAGTTTTT-AAAACATTTTTTGAAAA-T
* *
15430 TATATAAAATATAATTTTTGAAAACATTTTTTGAAAAT
1 TATATAATATATAGTTTTT-AAAACATTTTTTGAAAAT
*
15468 CATATA
1 TATATA
15474 GTTTTTAAAA
Statistics
Matches: 198, Mismatches: 22, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
34 23 0.12
35 6 0.03
36 30 0.15
37 40 0.20
38 56 0.28
39 39 0.20
40 4 0.02
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
TATATAATATATAGTTTTTAAAACATTTTTTGAAAAT
Found at i:15537 original size:33 final size:32
Alignment explanation
Indices: 15450--15539 Score: 128
Period size: 33 Copynumber: 2.8 Consensus size: 32
15440 ATAATTTTTG
*
15450 AAAACATTTTTTGAAAATCATATAGTTTTTAA
1 AAAACATTTTTTGAAAATTATATAGTTTTTAA
*
15482 AAAAGTATTTTTTGAAAATTATATAGTTTTTTAA
1 AAAA-CATTTTTTGAAAATTATATAG-TTTTTAA
15516 AAAACATTTTTT-AAAATTTATATA
1 AAAACATTTTTTGAAAA-TTATATA
15540 TAATATGAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
32 8 0.15
33 33 0.63
34 11 0.21
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (32 bp):
AAAACATTTTTTGAAAATTATATAGTTTTTAA
Found at i:15643 original size:10 final size:10
Alignment explanation
Indices: 15605--15660 Score: 67
Period size: 10 Copynumber: 5.2 Consensus size: 10
15595 TTTTAATATA
15605 ATTATTTATT
1 ATTATTTATT
15615 ATTTATTTATT
1 A-TTATTTATT
15626 ATTGTTATTTATT
1 A---TTATTTATT
15639 ATTATTTATT
1 ATTATTTATT
*
15649 ATTATTTCTT
1 ATTATTTATT
15659 AT
1 AT
15661 CCATTTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
10 21 0.51
11 10 0.24
13 10 0.24
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTATTTATT
Found at i:15660 original size:13 final size:12
Alignment explanation
Indices: 15594--15654 Score: 52
Period size: 13 Copynumber: 4.9 Consensus size: 12
15584 ATATATAGTT
* *
15594 TTTTTAATATAA
1 TTTTTATTATTA
15606 TTATTTATTATT-
1 TT-TTTATTATTA
* *
15618 TATTTATTATTG
1 TTTTTATTATTA
15630 TTATTTATTATTA
1 TT-TTTATTATTA
15643 TTTATTATTATT
1 TTT-TTATTATT
15655 TCTTATCCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
11 9 0.22
12 5 0.12
13 26 0.65
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTTATTATTA
Found at i:16941 original size:22 final size:23
Alignment explanation
Indices: 16914--16962 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
16904 CTGCATTTGT
*
16914 TTTCCTTTGATTTATCTTTTC-A
1 TTTCCTTTGATTTATCCTTTCTA
* *
16936 TTTCCTTTTATTTTTCCTTTCTA
1 TTTCCTTTGATTTATCCTTTCTA
16959 TTTC
1 TTTC
16963 TATTTTTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.10, C:0.20, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTCCTTTGATTTATCCTTTCTA
Found at i:16968 original size:19 final size:19
Alignment explanation
Indices: 16944--16980 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16934 CATTTCCTTT
* *
16944 TATTTTTCCTTTCTATTTC
1 TATTTTTACTTTATATTTC
16963 TATTTTTACTTTATATTT
1 TATTTTTACTTTATATTT
16981 TCTTTTCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTTTACTTTATATTTC
Found at i:17081 original size:24 final size:25
Alignment explanation
Indices: 17048--17107 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 25
17038 ATTTATTTAA
* *
17048 TTATCATTATTTTTTTCTTTTGTTT
1 TTATCATTATTTTGTTCTTATGTTT
17073 TTATC-TTATTTTGTTCTTATGTTT
1 TTATCATTATTTTGTTCTTATGTTT
*
17097 TT-TCTTTATTT
1 TTATCATTATTT
17108 AAATATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 2 0.06
24 25 0.78
25 5 0.16
ACGTcount: A:0.12, C:0.08, G:0.05, T:0.75
Consensus pattern (25 bp):
TTATCATTATTTTGTTCTTATGTTT
Found at i:17105 original size:13 final size:11
Alignment explanation
Indices: 17054--17107 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 11
17044 TTAATTATCA
17054 TTATTTTTTTC
1 TTATTTTTTTC
*
17065 TTTTGTTTTTATC
1 TTAT-TTTTT-TC
*
17078 TTATTTTGTTC
1 TTATTTTTTTC
17089 TTATGTTTTTTC
1 TTAT-TTTTTTC
17101 TTTATTT
1 -TTATTT
17108 AAATATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
11 9 0.26
12 17 0.49
13 9 0.26
ACGTcount: A:0.09, C:0.07, G:0.06, T:0.78
Consensus pattern (11 bp):
TTATTTTTTTC
Found at i:22486 original size:84 final size:83
Alignment explanation
Indices: 22332--23205 Score: 760
Period size: 84 Copynumber: 10.5 Consensus size: 83
22322 TTTAAGACAA
* * * * * * * * *
22332 CATTTACAGTATAACATAAGTCGAGAAAGGTTATCTGCTAACAAAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTG-TCACCAAAGACCTTCGAGTTCGACTAC
* *
22397 ACTCAGCTTCGAAGGCATAT
65 GCTCAGC-TCGAAGGCACAT
* * *
22417 CATTTACAGCATAACTAAAGGCTTGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* *
22482 CTCAGCTCCAAGGCATAT
66 CTCAGCTCGAAGGCACAT
* * * * * * *
22500 CATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACACACGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCA-AAGACCTTCGAGTTCGACTAC
* * *
22565 GCTCATCTC-AACAGCATAT
65 GCTCAGCTCGAA-GGCACAT
* * * * * ** *
22584 CATTTGCAGTATAGCTTAA-GTTGAGAAGGGCTATATG---CCAAAGACCCCCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGGCT-AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTAC
* * *
22645 ACTCAGCTTCGATGGCACGT
65 GCTCAGC-TCGAAGGCACAT
* * * * *
22665 CATTTGCAGCAAAACTTAAGTCAAGAAGGGTTATCT-TCCAACCAAAGACTTTCGAGTTTGACTA
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGT-C-ACCAAAGACCTTCGAGTTCGACTA
* *
22729 CGCTCAGCTCCAAGGCATAT
64 CGCTCAGCTCGAAGGCACAT
* *
22749 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTAC
* * *
22814 GTTCTGCTCAAAGGCACAT
65 GCTCAGCTCGAAGGCACAT
* * * * ** * *
22833 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT-T--CCAAAGACCCCCGAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* *
22895 CTCAGCTTTGAGGGCACAT
66 CTCAGC-TCGAAGGCACAT
* * *
22914 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCAAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTAC
*
22979 GTTCAGCTCCG-AGGCACAT
65 GCTCAGCT-CGAAGGCACAT
* * * * * * *
22998 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGATTAC
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
* *
23063 ACTCAGCTTCGAGGGCACAT
65 GCTCAGC-TCGAAGGCACAT
* * * * * ** *
23083 CATTTGCAGAATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAATACATTTAAGTTTGACTACG
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* * *
23148 CTCAACTCCAAGGCACAC
66 CTCAGCTCGAAGGCACAT
* * * * *
23166 CATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCA
1 CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCA
23206 ATAAATTGTC
Statistics
Matches: 630, Mismatches: 137, Indels: 46
0.77 0.17 0.06
Matches are distributed among these distances:
80 44 0.07
81 76 0.12
82 2 0.00
83 96 0.15
84 288 0.46
85 124 0.20
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
CATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCGAAGGCACAT
Found at i:22694 original size:165 final size:164
Alignment explanation
Indices: 22348--23070 Score: 460
Period size: 165 Copynumber: 4.3 Consensus size: 164
22338 CAGTATAACA
* * * * * * * * *
22348 TAAGTCGAGAAAGGTTATCTGCTAACAAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAAGGC
1 TAAGTCAAGAAGGGTTATCTGCCAACCAAAGACTTTCGAGTTCGACTACGCTCAGC-TCCAAAGC
* * * * * * **
22413 ATATCATTTACAGCATAACTAAAGGCTT--GAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCG
65 ATATCATTTGCAGTATAGCTTAA-G-TTGAGAAGGGCTATATG---CCAAAGACCCCCGAGTTCG
* * *
22476 ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACT
125 ACTACACTCAGCTCCAAGGCACATCATTTGCAGCAAAACT
* * * *
22516 TAAGTCTAGAAGGGTTGTCTGCCAA-CACACGACCTTT-GAGTTCGACTACGCTCATCT-CAACA
1 TAAGTCAAGAAGGGTTATCTGCCAACCA-AAGA-CTTTCGAGTTCGACTACGCTCAGCTCCAA-A
*
22578 GCATATCATTTGCAGTATAGCTTAAGTTGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATT
63 GCATATCATTTGCAGTATAGCTTAAGTTGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGACT
* * *
22643 ACACTCAGCTTCGATGGCACGTCATTTGCAGCAAAACT
128 ACACTCAGC-TCCAAGGCACATCATTTGCAGCAAAACT
* * *
22681 TAAGTCAAGAAGGGTTATCTTCCAACCAAAGACTTTCGAGTTTGACTACGCTCAGCTCCAAGGCA
1 TAAGTCAAGAAGGGTTATCTGCCAACCAAAGACTTTCGAGTTCGACTACGCTCAGCTCCAAAGCA
* * * * * * * **
22746 TATCATTTACAGCATAACTCAAGGCT-AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGA
66 TATCATTTGCAGTATAGCTTAA-GTTGAGAAGGGCTATATG---CC-AAAGACCCCCGAGTTCGA
** * * * *
22810 CTACGTTCTGCTCAAAGGCACATCATTTGCAGCATAGCT
126 CTACACTCAGCTCCAAGGCACATCATTTGCAGCAAAACT
* * * *** * * ** **
22849 TAAGTCGAGAAGGGCTATCT----TCCAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGC
1 TAAGTCAAGAAGGGTTATCTGCCAACCAAAGACTTTCGAGTTCGACTACGCTCAGC-TCCAAAGC
* * * * * * * * ** *
22910 ACATCATTTACAGCATAACTCAAGGCT-AGAAGGGTTATCTGTCACCAAAAGACCTTCAAGTTCG
65 ATATCATTTGCAGTATAGCTTAA-GTTGAGAAGGGCTATATG---CC-AAAGACCCCCGAGTTCG
** * * *
22974 ACTACGTTCAGCTCCGAGGCACATCATTTGCAGCATAGCT
125 ACTACACTCAGCTCCAAGGCACATCATTTGCAGCAAAACT
* * * * * *
23014 TAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGATTACACTCAGCT
1 TAAGTCAAGAAGGGTTATCTGCCAACCAAAGACTTTCGAGTTCGACTACGCTCAGCT
23071 TCGAGGGCAC
Statistics
Matches: 463, Mismatches: 73, Indels: 38
0.81 0.13 0.07
Matches are distributed among these distances:
164 56 0.12
165 225 0.49
166 10 0.02
167 34 0.07
168 84 0.18
169 54 0.12
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (164 bp):
TAAGTCAAGAAGGGTTATCTGCCAACCAAAGACTTTCGAGTTCGACTACGCTCAGCTCCAAAGCA
TATCATTTGCAGTATAGCTTAAGTTGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGACTACA
CTCAGCTCCAAGGCACATCATTTGCAGCAAAACT
Found at i:22812 original size:249 final size:248
Alignment explanation
Indices: 22375--23091 Score: 938
Period size: 249 Copynumber: 2.9 Consensus size: 248
22365 TCTGCTAACA
** *
22375 AAAGACCTTCGAGTTCGATTACACTCAGCTTCGAAGGCATATCATTTACAGCATAACTAAAGGCT
1 AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAAGGCACATCATTTACAGCATAACTAAAGGCT
*
22440 TGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
66 AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
* * * * * *
22505 GCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACACACGACCTTTGAGTTCGACTACGCTCA
131 GCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTC-
* * *
22570 T-CTCAACA-GCATATCATTTGCAGTATAGCTTAAGTTGAGAAGGGCTATATGCC
195 TGCTCAA-AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCC
* * * * * * *
22623 AAAGACCCCCGAGTTCGATTACACTCAGCTTCGATGGCACGTCATTTGCAGCAAAACTTAAGTCA
1 AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAAGGCACATCATTTACAGCATAACTAAAGGCT
* *
22688 AGAAGGGTTATCT-TCCAACCAAAGACTTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCAT
66 AGAAGGGTTATCTGT-C-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
* * * * *
22752 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGTT
129 TTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCT
* *
22817 CTGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCC
194 CTGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCC
* * *
22872 AAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCATAACTCAAGGCT
1 AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAAGGCACATCATTTACAGCATAACTAAAGGCT
* * * *
22937 AGAAGGGTTATCTGTCACCAAAAGACCTTCAAGTTCGACTACGTTCAGCTCCGAGGCACATCATT
66 AGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
* * * * * *
23002 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACC-AAAGACCTTCGAGTTTGATTACACT
130 TGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCC-ACCAAAAGACCTTCGAGTTCGACTACGCT
* * *
23066 CAGCTTCGAGGGCACATCATTTGCAG
194 CTGC-TCAAAGGCACATCATTTGCAG
23092 AATAACTCAA
Statistics
Matches: 404, Mismatches: 57, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
247 1 0.00
248 73 0.18
249 307 0.76
250 23 0.06
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (248 bp):
AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAAGGCACATCATTTACAGCATAACTAAAGGCT
AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
GCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCT
GCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCC
Found at i:23003 original size:333 final size:333
Alignment explanation
Indices: 22348--23202 Score: 995
Period size: 333 Copynumber: 2.6 Consensus size: 333
22338 CAGTATAACA
* * * *
22348 TAAGTCGAGAAAGGTTATCTGCTAACAAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAAGGC
1 TAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGATTACACTCAGCTTCGAAGGC
* *
22413 ATATCATTTACAGCATAACTAAAGGCTTGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGAC
66 ATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGAC
* * * * * *
22478 TACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACA
131 TACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACA
*** * * * * * * * *
22543 CACGACCTTTGAGTTCGACTACGCTCATCTCAACAGCATATCATTTGCAGTATAGCTTAAGTTGA
196 CACGACCCCCGAGTTCGACTACACTCAGCTCAACAGCACATCATTTACAGCATAACTCAAGCTGA
* * * *
22608 GAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGATGGCACGTCATTTGCA
261 GAAGGGCTATATGCCAAAGACCCCCAAGTTCGACTACACTCAGCTCCGATGGCACATCATTTGCA
22673 GCAAAACT
326 GCAAAACT
* * * * * *
22681 TAAGTCAAGAAGGGTTATCTTCCAACCAAAGACTTTCGAGTTTGACTACGCTCAGC-TCCAAGGC
1 TAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGATTACACTCAGCTTCGAAGGC
22745 ATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGA
66 ATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGA
* * * * *
22810 CTACGTTCTGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCC-A-
130 CTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAC
* ** **
22873 A-A-GACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCATAACTCAAGGC
195 ACACGACCCCCGAGTTCGACTACACTCAGC-TCAACAGCACATCATTTACAGCATAACTCAA-GC
* * ** **
22936 T-AGAAGGGTTATCTGTCACCAAAAGACCTTCAAGTTCGACTACGTTCAGCTCCGA-GGCACATC
258 TGAGAAGGGCTATATG---CC-AAAGACCCCCAAGTTCGACTACACTCAGCTCCGATGGCACATC
* *
22999 ATTTGCAGCATAGCT
319 ATTTGCAGCAAAACT
* *
23014 TAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTTGATTACACTCAGCTTCGAGGGC
1 TAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGATTACACTCAGCTTCGAAGGC
* * * * * * ** *
23079 ACATCATTTGCAGAATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAATACATTTAAGTTTGAC
66 ATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGAC
* * * * *
23144 TACGCTCAACTCCAAGGCACACCATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTG
131 TACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG
23203 TCAATAAATT
Statistics
Matches: 437, Mismatches: 77, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
329 20 0.05
330 35 0.08
331 3 0.01
332 52 0.12
333 252 0.58
334 75 0.17
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (333 bp):
TAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGATTACACTCAGCTTCGAAGGC
ATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGAC
TACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACA
CACGACCCCCGAGTTCGACTACACTCAGCTCAACAGCACATCATTTACAGCATAACTCAAGCTGA
GAAGGGCTATATGCCAAAGACCCCCAAGTTCGACTACACTCAGCTCCGATGGCACATCATTTGCA
GCAAAACT
Found at i:24079 original size:38 final size:38
Alignment explanation
Indices: 23782--24079 Score: 311
Period size: 38 Copynumber: 8.2 Consensus size: 38
23772 TGAAAATACG
* *
23782 TATATAATATATAGTTTCTAAAAACA--TTTTAAAAAT
1 TATATAATATATAGTTTTTAAAAACATTTTTTGAAAAT
* * *
23818 GTATATAATATAT-GGTTTT-AAAACA---CTTGAAAAC
1 -TATATAATATATAGTTTTTAAAAACATTTTTTGAAAAT
* * **
23852 TGTATAATATATAG-TTTT-AAAATA-TTTAGGAAAA-
1 TATATAATATATAGTTTTTAAAAACATTTTTTGAAAAT
* *
23886 TATATAATATATAGTTTTTAAAATCA-TTTTTGAAAAC
1 TATATAATATATAGTTTTTAAAAACATTTTTTGAAAAT
* *
23923 T-TATAATATATAGTTTTTAAAAATATTTTTTGAAATT
1 TATATAATATATAGTTTTTAAAAACATTTTTTGAAAAT
*
23960 TATATAATATATAGTTTTTAAAAACATTTTTTGAAATT
1 TATATAATATATAGTTTTTAAAAACATTTTTTGAAAAT
23998 TATATAATATATAGTTTTTAAAAACA-TTTTTGAAAACT
1 TATATAATATATAGTTTTTAAAAACATTTTTTGAAAA-T
* *
24036 TATATAAAATATTA-TTTTTGAAAACATTTTTTGAAAAT
1 TATATAATATA-TAGTTTTTAAAAACATTTTTTGAAAAT
*
24074 CATATA
1 TATATA
24080 GTTTTTAAAA
Statistics
Matches: 226, Mismatches: 24, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
33 20 0.09
34 20 0.09
35 15 0.07
36 38 0.17
37 32 0.14
38 89 0.39
39 12 0.05
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (38 bp):
TATATAATATATAGTTTTTAAAAACATTTTTTGAAAAT
Found at i:24127 original size:19 final size:19
Alignment explanation
Indices: 24062--24127 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 19
24052 TTTGAAAACA
* *
24062 TTTTTTGAAAATCATATAG
1 TTTTTTAAAAATTATATAG
* * *
24081 TTTTTAAAAAAGTAT-T-T
1 TTTTTTAAAAATTATATAG
*
24098 TTTTTTGAAAATTATATAG
1 TTTTTTAAAAATTATATAG
24117 TTTTTTAAAAA
1 TTTTTTAAAAA
24128 ACATTTTTGA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
17 12 0.34
18 2 0.06
19 21 0.60
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (19 bp):
TTTTTTAAAAATTATATAG
Found at i:24134 original size:36 final size:36
Alignment explanation
Indices: 24062--24135 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
24052 TTTGAAAACA
*
24062 TTTTTTGAAAATCATATAGTTTTTAAAAAAGTATTT
1 TTTTTTGAAAATCATATAGTTTTTAAAAAAGCATTT
*
24098 TTTTTTGAAAATTATATAGTTTTTTAAAAAA-CATTT
1 TTTTTTGAAAATCATATAG-TTTTTAAAAAAGCATTT
24134 TT
1 TT
24136 GAAAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 24 0.69
37 11 0.31
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (36 bp):
TTTTTTGAAAATCATATAGTTTTTAAAAAAGCATTT
Found at i:24229 original size:3 final size:3
Alignment explanation
Indices: 24212--24275 Score: 58
Period size: 3 Copynumber: 20.0 Consensus size: 3
24202 TTTTAATATA
*
24212 ATT ATTT ATT A-T ATT ATT ATT ATT ATTT ATTT ATT ATT GTT ATTT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT A-TT ATT
*
24260 ATT ATTT CTT ATT ATT
1 ATT A-TT ATT ATT ATT
24276 TCTTATCCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
2 2 0.04
3 35 0.67
4 15 0.29
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:24241 original size:13 final size:13
Alignment explanation
Indices: 24212--24275 Score: 80
Period size: 13 Copynumber: 5.0 Consensus size: 13
24202 TTTTAATATA
24212 ATTATTTATTA-T
1 ATTATTTATTATT
24224 ATTA-TTATTATT
1 ATTATTTATTATT
24236 ATTTATTTATTATT
1 A-TTATTTATTATT
*
24250 GTTATTTATTATT
1 ATTATTTATTATT
24263 ATT-TCTTATTATT
1 ATTAT-TTATTATT
24276 TCTTATCCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
11 6 0.13
12 7 0.15
13 25 0.54
14 8 0.17
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:24245 original size:17 final size:17
Alignment explanation
Indices: 24199--24265 Score: 68
Period size: 17 Copynumber: 4.0 Consensus size: 17
24189 ATATTATACA
* *
24199 ATTT-TTTAATATAATT
1 ATTTATTTATTATTATT
24215 ATTTATTATATTATTATT
1 ATTTATT-TATTATTATT
24233 A-TTATTTATTTATTATT
1 ATTTATTTA-TTATTATT
*
24250 -GTTATTTATTATTATT
1 ATTTATTTATTATTATT
24266 TCTTATTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
16 14 0.31
17 22 0.49
18 9 0.20
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (17 bp):
ATTTATTTATTATTATT
Found at i:24258 original size:10 final size:10
Alignment explanation
Indices: 24212--24281 Score: 67
Period size: 10 Copynumber: 7.2 Consensus size: 10
24202 TTTTAATATA
24212 ATTATTTATT
1 ATTATTTATT
24222 A-TA-TTATT
1 ATTATTTATT
24230 ATTA-TTATTT
1 ATTATTTA-TT
24240 ATT-TATTATT
1 ATTAT-TTATT
*
24250 GTTATTTATT
1 ATTATTTATT
*
24260 ATTATTTCTT
1 ATTATTTATT
*
24270 ATTATTTCTT
1 ATTATTTATT
24280 AT
1 AT
24282 CCATTTATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
8 6 0.12
9 7 0.13
10 35 0.67
11 4 0.08
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (10 bp):
ATTATTTATT
Found at i:24272 original size:17 final size:16
Alignment explanation
Indices: 24212--24265 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 16
24202 TTTTAATATA
24212 ATTATTTATTATATTATT
1 ATTA-TTATT-TATTATT
24230 ATTATTATTTATTTATT
1 ATTATTATTTA-TTATT
*
24247 ATTGTTATTTATTATT
1 ATTATTATTTATTATT
24263 ATT
1 ATT
24266 TCTTATTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 10 0.29
17 20 0.59
18 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
ATTATTATTTATTATT
Found at i:25742 original size:14 final size:13
Alignment explanation
Indices: 25715--25739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25705 TTGTTTATCT
25715 TGTTTTTTTCTTA
1 TGTTTTTTTCTTA
25728 TGTTTTTTTCTT
1 TGTTTTTTTCTT
25740 TATTTAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.08, G:0.08, T:0.80
Consensus pattern (13 bp):
TGTTTTTTTCTTA
Found at i:28874 original size:24 final size:25
Alignment explanation
Indices: 28847--28905 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
28837 AAAAAGTGAG
* *
28847 TTTTAAAATTATTGTAAAAAC-AAA
1 TTTTAAAAGTATTATAAAAACGAAA
* *
28871 TTTTAAAAGTATTATAGAAACGAAT
1 TTTTAAAAGTATTATAAAAACGAAA
28896 TTTTAAAAGT
1 TTTTAAAAGT
28906 GTTGTACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.39
Consensus pattern (25 bp):
TTTTAAAAGTATTATAAAAACGAAA
Found at i:30239 original size:17 final size:18
Alignment explanation
Indices: 30207--30240 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30197 CAAACCCTAA
30207 AATAATACATAAATTTAT
1 AATAATACATAAATTTAT
*
30225 AATAATCCA-AAATTTA
1 AATAATACATAAATTTA
30241 ATGGATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAATACATAAATTTAT
Found at i:33763 original size:20 final size:19
Alignment explanation
Indices: 33740--33806 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
33730 TTTAATTCGT
*
33740 TTTATTTATTTTGTTTTTTA
1 TTTATTTATTTT-TTTTTAA
*
33760 TTTATTTATTTTTTCTTGAA
1 TTTATTTATTTTTT-TTTAA
*
33780 -TTATTAATCTTTTTTTTAA
1 TTTATTTAT-TTTTTTTTAA
33799 TTTATTTA
1 TTTATTTA
33807 ATATTCATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 13 0.33
20 26 0.67
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (19 bp):
TTTATTTATTTTTTTTTAA
Found at i:33800 original size:19 final size:18
Alignment explanation
Indices: 33753--33800 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
33743 ATTTATTTTG
* *
33753 TTTTTTATTTATTTATTT
1 TTTTTTAATTATTAATTT
*
33771 TTTCTTGAATTATTAATCTT
1 TTT-TTTAATTATTAAT-TT
33791 TTTTTTAATT
1 TTTTTTAATT
33801 TATTTAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.12
19 16 0.67
20 5 0.21
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTTAATTATTAATTT
Found at i:39324 original size:84 final size:83
Alignment explanation
Indices: 39058--39778 Score: 674
Period size: 84 Copynumber: 8.7 Consensus size: 83
39048 TTTAAGACAA
* * * * * *
39058 CATTTGCTGTATAACTTAAGTCGAGAAGGGTTATCTGCTAACAAAAGACCATCAAGTTTGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTAC
**
39123 GCTCAGCTCCAAGGCGTAT
65 GCTCAGCTCCAAGGCACAT
* * * * * * * *
39142 CATTTGCAGCATAGCTTAAGTCGAGAAAGGCTATATG-C--CAAAGACCCTCAAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
* *
39204 CTCAGCTTCGAGGGCACAT
66 CTCAGC-TCCAAGGCACAT
* *
39223 CATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACAAGAGACATTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAA-AGACCTTCGAGTTCGACTAC
* *
39288 GCTCAACTCCAAGGCATAT
65 GCTCAGCTCCAAGGCACAT
* * *** * * *
39307 AATTTGCAGTATAACTTAAGTCGAGAAGAACTATCTG-C--CAAAGACCCTCGAGTTCGATTACT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
* *
39369 CTCAGCTTCGAGGGCACAT
66 CTCAGC-TCCAAGGCACAT
* * * * * * * *
39388 CAGTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTAC
*
39453 GCTCAGCTCCAAGGCATAT
65 GCTCAGCTCCAAGGCACAT
39472 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTAC
*
39537 G-TACAGCTCCAAGGCATAT
65 GCT-CAGCTCCAAGGCACAT
* * * * * * * *
39556 CATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCT---ACCGAAGACCCTCGAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
* *
39618 CTCAGCTTCGATGGCACAT
66 CTCAGC-TCCAAGGCACAT
** * * * * *
39637 CATTTATAGCATAACTCAAGGCTG-GAAGGGTTATCTGTCACCAGAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTC-GAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTAC
*
39701 ACTCAGCTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * *
39720 CATTTGCAGTATAGCTTAAGTCGTGAAGGGCTATCTGCCAACCGAAGACC-TCTGAGTTC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA-CAAAGACCTTC-GAGTTC
39779 TATTACATTC
Statistics
Matches: 514, Mismatches: 103, Indels: 40
0.78 0.16 0.06
Matches are distributed among these distances:
80 70 0.14
81 118 0.23
82 4 0.01
83 44 0.09
84 231 0.45
85 47 0.09
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (83 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACAT
Found at i:39330 original size:165 final size:164
Alignment explanation
Indices: 39058--39761 Score: 656
Period size: 165 Copynumber: 4.3 Consensus size: 164
39048 TTTAAGACAA
* * * * * *
39058 CATTTGCTGTATAACTTAAGTCGAGAAGGGTTATCTGCTAACAAAAGACCA-TCAAGTTTGACTA
1 CATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACAAAAGA-CATTCGAGTTCGACTA
* * *
39122 CGCTCAGCTCCAAGGCGTATCATTTGCAGCATAGCTTAAGTCGAGAAAGGCTATATGCCAAAGAC
65 CGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAAGGCTATCTGCCAAAGAC
*
39187 CCTCAAGTTCGATTACACTCAGCTTCGAGGGCACAT
130 CCTCGAGTTCGATTAC-CTCAGCTTCGAGGGCACAT
*
39223 CATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACAAGAGACATTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACAAAAGACATTCGAGTTCGACTAC
* * * *
39288 GCTCAACTCCAAGGCATATAATTTGCAGTATAACTTAAGTCGAG-AAGAACTATCTGCCAAAGAC
66 GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAAG-GCTATCTGCCAAAGAC
39352 CCTCGAGTTCGATTACTCTCAGCTTCGAGGGCACAT
130 CCTCGAGTTCGATTAC-CTCAGCTTCGAGGGCACAT
* * * * * *
39388 CAGTTACAGCATAACTCAAGGCTA-A-AAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACT
1 CATTTGCAGCATAACTTAA-G-TAGAGAAGGGTTATCTGCCAACAAAAGACATTCGAGTTCGACT
* *
39451 ACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAA
64 ACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAAGGCTATCTG-C--C-A
* * * * * *
39516 AAGACCTTCGAGTTCGACTACGTACAGC-TCCAAGGCATAT
125 AAGACCCTCGAGTTCGATTACCT-CAGCTTCGAGGGCACAT
* * * * ** ** *
39556 CATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCT----ACCGAAGACCCTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACAAAAGACATTCGAGTTCGACTAC
* * * * ** * * * * *
39617 ACTCAGCTTCGATGGCACATCATTTATAGCATAACTCAAGGCTG-GAAGGGTTATCTGTCACCAG
66 GCTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTC-GAGAAAGGCTATCTG---CCAA
* * * *
39681 AGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACAT
126 AGACCCTCGAGTTCGATTAC-CTCAGCTTCGAGGGCACAT
* * * * *
39720 CATTTGCAGTATAGCTTAAGTCGTGAAGGGCTATCTGCCAAC
1 CATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAAC
39762 CGAAGACCTC
Statistics
Matches: 456, Mismatches: 62, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
164 100 0.22
165 283 0.62
166 7 0.02
167 5 0.01
168 37 0.08
169 24 0.05
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (164 bp):
CATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACAAAAGACATTCGAGTTCGACTAC
GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAAGGCTATCTGCCAAAGACC
CTCGAGTTCGATTACCTCAGCTTCGAGGGCACAT
Found at i:39504 original size:249 final size:248
Alignment explanation
Indices: 39179--39761 Score: 862
Period size: 249 Copynumber: 2.3 Consensus size: 248
39169 AGGCTATATG
* * * * *
39179 CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
1 CCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
39244 AGAGAAGGGTTATCTGCCAACAAGAGACATTCGAGTTCGACTACGCT-CAACTCCAAGGCATATA
65 CGAGAAGGGTTATCTGCCAACAAAAGACATTCGAGTTCGACTACG-TACAACTCCAAGGCATATA
** * *
39308 ATTTGCAGTATAACTTAAGTCGAGAAGAACTATCTGCCAAAGACCCTCGAGTTCGATTACTCTCA
129 ATTTGCAACATAACTTAAGTCGAGAAGAACTATCTACCAAAGACCCTCGAGTTCGATTACACTCA
39373 GCTTCGAGGGCACATCAGTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCA
194 GCTTCGAGGGCACATCAGTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCA
* *
39428 CCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* * *
39493 CGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGTACAGCTCCAAGGCATATCA
65 CGAGAAGGGTTATCTGCCAACAAAAGACATTCGAGTTCGACTACGTACAACTCCAAGGCATATAA
* ** *
39558 TTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTACCGAAGACCCTCGAGTTCGATTACACTCAG
130 TTTGCAACATAACTTAAGTCGAGAAGAACTATCTACCAAAGACCCTCGAGTTCGATTACACTCAG
* * * **
39623 CTTCGATGGCACATCATTTATAGCATAACTCAAGGCTGGAAGGGTTATCTGTCA
195 CTTCGAGGGCACATCAGTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCA
* * *
39677 CCAGAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* *
39742 GTGAAGGGCTATCTGCCAAC
66 GAGAAGGGTTATCTGCCAAC
39762 CGAAGACCTC
Statistics
Matches: 300, Mismatches: 32, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
248 77 0.26
249 198 0.66
250 25 0.08
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (248 bp):
CCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
GAGAAGGGTTATCTGCCAACAAAAGACATTCGAGTTCGACTACGTACAACTCCAAGGCATATAAT
TTGCAACATAACTTAAGTCGAGAAGAACTATCTACCAAAGACCCTCGAGTTCGATTACACTCAGC
TTCGAGGGCACATCAGTTACAGCATAACTCAAGGCTAAAAGGGTTATCTGTCA
Found at i:39692 original size:164 final size:163
Alignment explanation
Indices: 39181--39845 Score: 480
Period size: 165 Copynumber: 4.0 Consensus size: 163
39171 GCTATATGCC
* * * * * * * *
39181 AAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTAG
1 AAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAACATAGCTTAAGTCG
* * * ** * * * * * * *
39246 AGAAGGGTTATCTGCCAACAAGAGACATTCGAGTTCGACTACGCTCAACTCCAAGGCATATAATT
65 AGAAGGGCTATCT--CACCGA-AGACCCTCGAGTTCGATTACACTCAGCTCGATGGCAAATCATT
* * * * ***
39311 TGCAGTATAACTTAAGTCGAGAAGAACTATCTG-C-C-
127 TACAGCATAACTCAAGGCG-GAAGGGTTATCTGTCACA
* * * * * * * * * * * *
39346 AAAGACCCTCGAGTTCGATTACTCTCAGCTTCGAGGGCACATCAGTTACAGCATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAACATAGCTTAAGTCG
* * * * * * * * *
39411 AAAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
65 AGAAGGGCTATC--TCACC-GAAGACCCTCGAGTTCGATTACACTCAGCTCGATGGCAAATCATT
* * * *
39476 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACA
127 TACAGCATAACTCAAGGCG-GAAGGGTTATCTGTC-ACA
* *
39515 AAAGACCTTCGAGTTCGACTAC-GTACAGCTCCAAGGCATATCATTTGCAACATAGCTTAAGTCG
1 AAAGACCTTCGAGTTCGACTACACT-CAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCG
*
39579 AGAAGGGCTATCT-ACCGAAGACCCTCGAGTTCGATTACACTCAGCTTCGATGGCACATCATTTA
65 AGAAGGGCTATCTCACCGAAGACCCTCGAGTTCGATTACACTCAGC-TCGATGGCAAATCATTTA
* *
39643 TAGCATAACTCAAGGCTGGAAGGGTTATCTGTCACC
129 CAGCATAACTCAAGGC-GGAAGGGTTATCTGTCACA
* ** *
39679 AGAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGT
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGA
* * *
39744 GAAGGGCTATCTGCCAACCGAAGA-CCTCTGAGTTCTATTACATTCAGCTCAGAT-GCAAACCAA
66 GAAGGGCTATCT--C-ACCGAAGACCCTC-GAGTTCGATTACACTCAGCTC-GATGGCAAATC--
* * *
39807 ATTTACAACATAGCTCAAGGCAAGAAGGGTTATCTGTCA
124 ATTTACAGCATAACTCAAGGC-GGAAGGGTTATCTGTCA
39846 ATAAATTGTC
Statistics
Matches: 421, Mismatches: 60, Indels: 34
0.82 0.12 0.07
Matches are distributed among these distances:
164 96 0.23
165 185 0.44
166 5 0.01
167 12 0.03
168 65 0.15
169 58 0.14
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (163 bp):
AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGA
GAAGGGCTATCTCACCGAAGACCCTCGAGTTCGATTACACTCAGCTCGATGGCAAATCATTTACA
GCATAACTCAAGGCGGAAGGGTTATCTGTCACA
Found at i:40787 original size:12 final size:12
Alignment explanation
Indices: 40766--40795 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
40756 GACCGATCTC
*
40766 ACTCTCCCTTTA
1 ACTCTTCCTTTA
40778 ACTCTTCCTTTA
1 ACTCTTCCTTTA
40790 ACTCTT
1 ACTCTT
40796 GCACGAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.47
Consensus pattern (12 bp):
ACTCTTCCTTTA
Found at i:42005 original size:2 final size:2
Alignment explanation
Indices: 41998--42043 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
41988 GGAAATAAGA
41998 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42040 AT AT
1 AT AT
42044 TAAAAAAGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43540 original size:12 final size:12
Alignment explanation
Indices: 43523--43561 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
43513 TTTAAATATG
43523 ATTAATTTAATT
1 ATTAATTTAATT
43535 ATTAA-TTAATT
1 ATTAATTTAATT
43546 ATTGAATTTATATT
1 ATT-AATTTA-ATT
43560 AT
1 AT
43562 GTTGGGGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.38
12 7 0.29
13 3 0.12
14 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (12 bp):
ATTAATTTAATT
Found at i:56070 original size:5 final size:5
Alignment explanation
Indices: 56062--56137 Score: 50
Period size: 5 Copynumber: 15.2 Consensus size: 5
56052 TAGAAGGTAA
* * * * * *
56062 TATAT TATAT TATAT TATAT TCTAT TCTAT TAAAT TAATAT TTTAG TATTT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT T-ATAT TATAT TATAT
56113 TAT-T TA-AT TAT-T ATATAT ATATAT T
1 TATAT TATAT TATAT -TATAT -TATAT T
56138 TTTTGCAGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
4 7 0.12
5 39 0.68
6 11 0.19
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:61209 original size:31 final size:30
Alignment explanation
Indices: 61125--61219 Score: 145
Period size: 30 Copynumber: 3.1 Consensus size: 30
61115 ATCAAAGATA
* *
61125 AGAGGATTGTTGGGTGATGTTTACGGGTTC
1 AGAGGATTGTTGTGTGATGTTTACGGGTTG
*
61155 AGAAGATTGTTGTGTGATGTTTACGGGTTG
1 AGAGGATTGTTGTGTGATGTTTACGGGTTG
*
61185 AGAGGATTGTTGTGTGAATGTTTACGAGTTG
1 AGAGGATTGTTGTGTG-ATGTTTACGGGTTG
61216 AGAG
1 AGAG
61220 AATATCATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 42 0.71
31 17 0.29
ACGTcount: A:0.21, C:0.04, G:0.38, T:0.37
Consensus pattern (30 bp):
AGAGGATTGTTGTGTGATGTTTACGGGTTG
Found at i:64069 original size:39 final size:39
Alignment explanation
Indices: 63996--64071 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
63986 GCGTTTATTT
* *
63996 ATTAAATGAACGAACATGAACAAGATTTGTGTTCGTTTA
1 ATTAAATGAACGAACATGAACAAGATGTCTGTTCGTTTA
*
64035 ATTAAATGAACGAACATGAAC-ATATGTCTCGTTCGTT
1 ATTAAATGAACGAACATGAACAAGATGTCT-GTTCGTT
64072 CATTTACGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 5 0.15
39 28 0.85
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (39 bp):
ATTAAATGAACGAACATGAACAAGATGTCTGTTCGTTTA
Found at i:64116 original size:24 final size:24
Alignment explanation
Indices: 64089--64150 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
64079 GTTCGTGAAC
*
64089 GTTCGGTTATGTTCGTACGGTTAT
1 GTTCGTTTATGTTCGTACGGTTAT
*
64113 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTACGGTTAT
64137 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
64151 ATTCATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.10, C:0.13, G:0.26, T:0.52
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTACGGTTAT
Found at i:64143 original size:14 final size:14
Alignment explanation
Indices: 64088--64143 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
64078 CGTTCGTGAA
64088 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
*
64102 CGTACGGTTATGTT
1 CGTTCGGTTATGTT
64116 CG-T---TTATGTT
1 CGTTCGGTTATGTT
64126 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
64140 CGTT
1 CGTT
64144 TATGTTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 9 0.25
11 1 0.03
14 26 0.72
ACGTcount: A:0.09, C:0.14, G:0.27, T:0.50
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:64160 original size:24 final size:24
Alignment explanation
Indices: 64089--64163 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
64079 GTTCGTGAAC
* * * *
64089 GTTCGGTTATGTTCGTACGGTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
* *
64113 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
*
64137 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
64161 GTT
1 GTT
64164 TAACACAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.12, C:0.12, G:0.23, T:0.53
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCAGTTAT
Found at i:65257 original size:16 final size:16
Alignment explanation
Indices: 65236--65302 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
65226 GTATCTAACG
65236 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
65252 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
*
65268 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
65284 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
65298 TTTAT
1 TTTAT
65303 TAAATGAACG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 42 0.86
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:65275 original size:32 final size:32
Alignment explanation
Indices: 65234--65294 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
65224 GGGTATCTAA
65234 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
*
65266 CGTTTATGTTCGTGTTCGTTTATGTTCGT
1 CGTTTATGTTCGTGTTCATTTATGTTCGT
65295 TTATTTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.56
Consensus pattern (32 bp):
CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
Found at i:65387 original size:16 final size:16
Alignment explanation
Indices: 65366--65396 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65356 AAAAAATTTA
*
65366 TTCGTTTATGTTCGTG
1 TTCGTTTATATTCGTG
65382 TTCGTTTATATTCGT
1 TTCGTTTATATTCGT
65397 TTATTTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (16 bp):
TTCGTTTATATTCGTG
Found at i:79847 original size:3 final size:3
Alignment explanation
Indices: 79841--79900 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
79831 GTATTATTTG
* **
79841 TAA TAA TAA -ATA TAT TAA TATA TAA TAA TATA TAA TAA TTG TAA T-A
1 TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA
79887 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
79901 TATAGTCTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 3 0.07
3 36 0.78
4 7 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:79899 original size:14 final size:14
Alignment explanation
Indices: 79841--79902 Score: 69
Period size: 14 Copynumber: 4.7 Consensus size: 14
79831 GTATTATTTG
79841 TAATAATA-AAT-A
1 TAATAATATAATAA
*
79853 TATTAATAT-ATAA
1 TAATAATATAATAA
79866 TAAT-ATATAATAA
1 TAATAATATAATAA
**
79879 TTGTAATATAATAA
1 TAATAATATAATAA
79893 TAATAATATA
1 TAATAATATA
79903 TAGTCTCAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
12 13 0.32
13 10 0.25
14 17 0.43
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TAATAATATAATAA
Found at i:80074 original size:20 final size:20
Alignment explanation
Indices: 80046--80179 Score: 133
Period size: 20 Copynumber: 6.7 Consensus size: 20
80036 AAAACATCAT
* *
80046 ACCCAGAGGTTTTACAGATG
1 ACCCGGAGGTTTTACAAATG
*
80066 ACCCGGAGGTTTTACAAATT
1 ACCCGGAGGTTTTACAAATG
* * * *
80086 ACCTGGAGGATTTATAGATG
1 ACCCGGAGGTTTTACAAATG
* * *
80106 ATCCAGAGGTTTTACAAATC
1 ACCCGGAGGTTTTACAAATG
* * *
80126 ACCCGGAGGATTTATAGATG
1 ACCCGGAGGTTTTACAAATG
*
80146 ACCCGGAGGTTTTACAAATC
1 ACCCGGAGGTTTTACAAATG
*
80166 ACCCGGAGGATTTA
1 ACCCGGAGGTTTTA
80180 ATTTTCTAGA
Statistics
Matches: 88, Mismatches: 26, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (20 bp):
ACCCGGAGGTTTTACAAATG
Found at i:80116 original size:40 final size:40
Alignment explanation
Indices: 80046--80179 Score: 205
Period size: 40 Copynumber: 3.4 Consensus size: 40
80036 AAAACATCAT
* * * *
80046 ACCCAGAGGTTTTACAGATGACCCGGAGGTTTTACAAATT
1 ACCCGGAGGATTTATAGATGACCCGGAGGTTTTACAAATC
* * *
80086 ACCTGGAGGATTTATAGATGATCCAGAGGTTTTACAAATC
1 ACCCGGAGGATTTATAGATGACCCGGAGGTTTTACAAATC
80126 ACCCGGAGGATTTATAGATGACCCGGAGGTTTTACAAATC
1 ACCCGGAGGATTTATAGATGACCCGGAGGTTTTACAAATC
80166 ACCCGGAGGATTTA
1 ACCCGGAGGATTTA
80180 ATTTTCTAGA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (40 bp):
ACCCGGAGGATTTATAGATGACCCGGAGGTTTTACAAATC
Found at i:80287 original size:20 final size:20
Alignment explanation
Indices: 80243--80297 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
80233 AGAAAAATCC
* *
80243 TACCCTGAGGTTTTACAGAT
1 TACCCAGAGGTTTTACAAAT
*
80263 GACCCAGAGGTTTTACAAAT
1 TACCCAGAGGTTTTACAAAT
* *
80283 TACCCGGAGGATTTA
1 TACCCAGAGGTTTTA
80298 ATTTCTTGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (20 bp):
TACCCAGAGGTTTTACAAAT
Found at i:80390 original size:20 final size:20
Alignment explanation
Indices: 80362--80410 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
80352 AAAACATCCT
* *
80362 ACCCTGAGGTTTTACAGATG
1 ACCCGGAGGTTTTACAAATG
*
80382 ACCCGGAGGTTTTACAAATT
1 ACCCGGAGGTTTTACAAATG
80402 ACCCGGAGG
1 ACCCGGAGG
80411 ATATAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (20 bp):
ACCCGGAGGTTTTACAAATG
Found at i:80503 original size:120 final size:119
Alignment explanation
Indices: 80126--80571 Score: 734
Period size: 120 Copynumber: 3.8 Consensus size: 119
80116 TTTACAAATC
* * * *
80126 ACCCGGAGGATTTATAGATGACCCGGAGGTTTTACAAATCACCCGGAGGATTTAATTTTCTAGAA
1 ACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAATCACCCGGAGGATTTAATTTTCTAGAA
*
80191 CATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGAGAAAA-ATCCT
66 CATTAAATGAGAAACTTTGAAAATCGTTTTCTCATTTTCATGAGAAAACATCCT
* *
80244 ACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAATTACCCGGAGGATTTAA-TTTCTTGAA
1 ACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAATCACCCGGAGGATTTAATTTTCTAGAA
80308 CATTAAATGAGAAACTTTGAAAATCGTTTTCTCATTTTCATGAGAAAACATCCT
66 CATTAAATGAGAAACTTTGAAAATCGTTTTCTCATTTTCATGAGAAAACATCCT
* * *
80362 ACCCTGAGGTTTTACAGATGACCCGGAGGTTTTACAAATTACCCGGAGGATATAATTTTCTAGAA
1 ACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAATCACCCGGAGGATTTAATTTTCTAGAA
* **
80427 CATTAAATGAGAAACTTTGAAAAATCATTTTCTCATTTTCATTCGAAAACATCCT
66 CATTAAATGAGAAACTTTG-AAAATCGTTTTCTCATTTTCATGAGAAAACATCCT
* *
80482 ACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAATCACCTGGAGGATTTAATTTTCTTGAA
1 ACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAATCACCCGGAGGATTTAATTTTCTAGAA
80547 CATTAAATGAGAAACTTTGAAAATC
66 CATTAAATGAGAAACTTTGAAAATC
80572 AAGCTTACTT
Statistics
Matches: 307, Mismatches: 18, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
117 55 0.18
118 108 0.35
119 33 0.11
120 111 0.36
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (119 bp):
ACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAATCACCCGGAGGATTTAATTTTCTAGAA
CATTAAATGAGAAACTTTGAAAATCGTTTTCTCATTTTCATGAGAAAACATCCT
Found at i:80530 original size:20 final size:20
Alignment explanation
Indices: 80482--80524 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
80472 AAAACATCCT
* * *
80482 ACCCTGAGGTTTTACAGATG
1 ACCCAGAGGTTTTACAAATC
80502 ACCCAGAGGTTTTACAAATC
1 ACCCAGAGGTTTTACAAATC
80522 ACC
1 ACC
80525 TGGAGGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (20 bp):
ACCCAGAGGTTTTACAAATC
Found at i:90256 original size:20 final size:19
Alignment explanation
Indices: 90220--90288 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 19
90210 ATTATTTGTA
90220 ATAATA-AATATATTAATAT
1 ATAATATAATATA-TAATAT
90239 ATAATATAATATGATAATAAT
1 ATAATATAATAT-ATAAT-AT
*
90260 AATAATTGTAATATTATAATA-
1 -ATAA-TATAATA-TATAATAT
90281 ATAATATA
1 ATAATATA
90289 GTCTCGGAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
19 9 0.21
20 13 0.31
21 3 0.07
22 5 0.12
23 11 0.26
24 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
ATAATATAATATATAATAT
Found at i:94400 original size:13 final size:13
Alignment explanation
Indices: 94382--94406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94372 ATTAATTAAT
94382 TAAAATTTTTATA
1 TAAAATTTTTATA
94395 TAAAATTTTTAT
1 TAAAATTTTTAT
94407 TTTATAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAAATTTTTATA
Found at i:94404 original size:174 final size:176
Alignment explanation
Indices: 94104--94472 Score: 532
Period size: 174 Copynumber: 2.1 Consensus size: 176
94094 ATAAAATTTT
*
94104 AATATTAAATATATATTACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAA
1 AATATTAAATATATATAACATA-GGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAA
* * *
94169 ATCCAATAACTTTTTAAACCTAAATCAGTATTAATTAATTAAAAAAAATTGTATAAATTTTT-TT
65 ATACAATAACTTTTTAAACCTAAATCAATATTAATTAATTAAAAAAAATTATATAAATTTTTATT
*
94233 TTATAATATATATTATTTAAATTAATTGTAAACTGTTTCTGAATTAAAA
130 TTATAAT-TATATTATTTAAATTAATTATAAACTGTTT-TGAATTAAAA
* *
94282 AATATTAAATATATATAACATA-GGCTCAG-CCATACCATTTAAAACCCAATTAATAATTTAAGA
1 AATATTAAATATATATAACATAGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAAA
* ***
94345 TACAATAAC-TTTTAAACTTAAATCAATATTAATTAATT-AAAATTTTTATATAAAATTTTTATT
66 TACAATAACTTTTTAAACCTAAATCAATATTAATTAATTAAAAAAAATTATAT-AAATTTTTATT
* *
94408 TTATAATTATATTATTTAAATTAATTATAAACTGTTTTTAATTATAA
130 TTATAATTATATTATTTAAATTAATTATAAACTGTTTTGAATTAAAA
* *
94455 AATATTAATTTTATATAA
1 AATATTAAATATATATAA
94473 ATTAGAAAAT
Statistics
Matches: 174, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
173 33 0.19
174 64 0.37
175 49 0.28
176 7 0.04
178 21 0.12
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (176 bp):
AATATTAAATATATATAACATAGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAAA
TACAATAACTTTTTAAACCTAAATCAATATTAATTAATTAAAAAAAATTATATAAATTTTTATTT
TATAATTATATTATTTAAATTAATTATAAACTGTTTTGAATTAAAA
Found at i:97402 original size:23 final size:23
Alignment explanation
Indices: 97367--97427 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
97357 ATCAAGTACA
* * *
97367 ATAACAAATTAGGTAGCGCTTAT
1 ATAATAAAATAGGTAGCACTTAT
**
97390 ATAATGTAATAGGTAGCACTTAT
1 ATAATAAAATAGGTAGCACTTAT
97413 ATAATAAAATAGGTA
1 ATAATAAAATAGGTA
97428 TTTAACCAGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.31
Consensus pattern (23 bp):
ATAATAAAATAGGTAGCACTTAT
Found at i:97770 original size:19 final size:20
Alignment explanation
Indices: 97735--97782 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 20
97725 TCTATCAGGT
97735 ACATTGTAAATTTACCTATC
1 ACATTGTAAATTTACCTATC
*
97755 ACATTGTAAA-TTACCTATT
1 ACATTGTAAATTTACCTATC
97774 ACATTGTAA
1 ACATTGTAA
97783 TTATCGGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (20 bp):
ACATTGTAAATTTACCTATC
Done.