Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 104 of 172
Found at i:34929689 original size:19 final size:19
Alignment explanation
Indices: 34929645--34929689 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
34929635 TTTTCTCATG
* **
34929645 ATATTTTAAAAATTAATTA
1 ATATTTTAAAAATAAAAAA
*
34929664 ATTTTTTAAAAATAAAAAA
1 ATATTTTAAAAATAAAAAA
34929683 ATATTTT
1 ATATTTT
34929690 TTTTTAAACC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATTTTAAAAATAAAAAA
Found at i:34944872 original size:57 final size:59
Alignment explanation
Indices: 34944804--34944924 Score: 149
Period size: 58 Copynumber: 2.1 Consensus size: 59
34944794 ATTTTAAGGT
* * * *
34944804 CATTTTCATTTTCA-TTTTGGGGAAAACCATATTTATTTCCAAAT-TATTC-TAGTTCTC
1 CATTTTCATTTTCATTTTTAGAGAAAACCATAATCATTTCCAAATGT-TTCTTAGTTCTC
* * *
34944861 CATTTTTATTTTCATTTTTAGAGAAAACCATAATCATTTTCAAATGTTTCTTATTTCTC
1 CATTTTCATTTTCATTTTTAGAGAAAACCATAATCATTTCCAAATGTTTCTTAGTTCTC
34944920 CATTT
1 CATTT
34944925 CACCATTACT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
57 13 0.24
58 28 0.52
59 13 0.24
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (59 bp):
CATTTTCATTTTCATTTTTAGAGAAAACCATAATCATTTCCAAATGTTTCTTAGTTCTC
Found at i:34949448 original size:3 final size:3
Alignment explanation
Indices: 34949435--34949519 Score: 62
Period size: 3 Copynumber: 27.3 Consensus size: 3
34949425 CAAATTTTTT
* * *
34949435 TTA TTA ATA TTA TTA TTA CTA TTTA TTA TTA TTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
34949481 CTA CTA CTA CTA CTA TTGCA TTA TTA TTA TCA TTA TTA T
1 TTA TTA TTA TTA TTA TT--A TTA TTA TTA TTA TTA TTA T
34949520 ATTTTCTTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
3 64 0.93
4 2 0.03
5 3 0.04
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:34949462 original size:22 final size:22
Alignment explanation
Indices: 34949434--34949479 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
34949424 TCAAATTTTT
34949434 TTTATTAATATTATTATTACTA
1 TTTATTAATATTATTATTACTA
* * *
34949456 TTTATTATTATTATTTTTATTA
1 TTTATTAATATTATTATTACTA
34949478 TT
1 TT
34949480 ACTACTACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTATTAATATTATTATTACTA
Found at i:34951829 original size:24 final size:23
Alignment explanation
Indices: 34951796--34951841 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
34951786 AAAAAATGCA
* *
34951796 AAGAGAGATGCGAGATCAATTAC
1 AAGAGAGATGCAAGAGCAATTAC
34951819 AAGAGCAGATGCAAGAGCAATTA
1 AAGAG-AGATGCAAGAGCAATTA
34951842 GCCAGAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.46, C:0.13, G:0.26, T:0.15
Consensus pattern (23 bp):
AAGAGAGATGCAAGAGCAATTAC
Found at i:34952621 original size:74 final size:74
Alignment explanation
Indices: 34952538--34952681 Score: 270
Period size: 74 Copynumber: 1.9 Consensus size: 74
34952528 TTTAGCACAA
* *
34952538 GCTTTTATGAAGCAATATAATCATGTGGTAGACATGACACCTGACAGAATCAAATTGCAGAACAT
1 GCTTTTATGAAGAAATATAATCATGTGGTAGACATGACACCTGACAAAATCAAATTGCAGAACAT
34952603 GGAGATTGT
66 GGAGATTGT
34952612 GCTTTTATGAAGAAATATAATCATGTGGTAGACATGACACCTGACAAAATCAAATTGCAGAACAT
1 GCTTTTATGAAGAAATATAATCATGTGGTAGACATGACACCTGACAAAATCAAATTGCAGAACAT
34952677 GGAGA
66 GGAGA
34952682 AGAAGCAAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (74 bp):
GCTTTTATGAAGAAATATAATCATGTGGTAGACATGACACCTGACAAAATCAAATTGCAGAACAT
GGAGATTGT
Found at i:34956354 original size:46 final size:46
Alignment explanation
Indices: 34956281--34956474 Score: 253
Period size: 46 Copynumber: 4.2 Consensus size: 46
34956271 CTGACCAATT
** * * *
34956281 GATTGAAGAAGCCAAAAATCCTGTACCCCTGAGCTGCAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGCTGTAGTGGGATG
* * *
34956327 GATTGAAGAAGATACAAATCCCATACCCATGAGCTATAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGCTGTAGTGGGATG
* *
34956373 GATTGAAGAAGATACAAATTCTATACCCCTGAGTTGTAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGCTGTAGTGGGATG
* * * *
34956419 GATTGAAGATGATACAAATCCTATACCCTTGAGTTGTAGTAGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGCTGTAGTGGGATG
*
34956465 GATGGAAGAA
1 GATTGAAGAA
34956475 ACCAAATTTT
Statistics
Matches: 129, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCCTATACCCCTGAGCTGTAGTGGGATG
Found at i:34956985 original size:54 final size:53
Alignment explanation
Indices: 34956903--34957092 Score: 164
Period size: 54 Copynumber: 3.7 Consensus size: 53
34956893 ACTAAAGACA
* *
34956903 GCGAATCTTATTTCCTTGAAGTTGTAGTAGAACAGATTAAAGTTACAAATTATG
1 GCGAATCTTATCTCCCTGAAGTTGTAGTAGAACAGATTAAAG-TACAAATTATG
* * * *
34956957 GCGAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAA--AC-CACTA--
1 GCGAATCTTATCTCCCTGAAGTTGTAGTAGAACAGATTAAAGTACAAATTATG
* * * *
34957005 GC----CTTATCTCTCTGAAGTTGCAATGGAACAGATTAAAGCTACAAATTATG
1 GCGAATCTTATCTCCCTGAAGTTGTAGTAGAACAGATTAAAG-TACAAATTATG
* * * * *
34957055 TCGAATCTTATCTCCCTAAAGTTGAAGTGGAGCAGATT
1 GCGAATCTTATCTCCCTGAAGTTGTAGTAGAACAGATT
34957093 GAAGCCACTA
Statistics
Matches: 106, Mismatches: 20, Indels: 20
0.73 0.14 0.14
Matches are distributed among these distances:
44 29 0.27
47 2 0.02
48 5 0.05
50 4 0.04
51 2 0.02
54 64 0.60
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (53 bp):
GCGAATCTTATCTCCCTGAAGTTGTAGTAGAACAGATTAAAGTACAAATTATG
Found at i:34957040 original size:98 final size:97
Alignment explanation
Indices: 34956932--34957121 Score: 299
Period size: 98 Copynumber: 1.9 Consensus size: 97
34956922 AGTTGTAGTA
* * *
34956932 GAACAGATTAAAGTTACAAATTATGGCGAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGA
1 GAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTCCCTAAAGTTGAAGTAGAGCAGATTGA
* *
34956997 AACCACTAGCCTTATCTCTCTGAAGTTGCAATG
66 AACCACTAG-CTTATCTCCCTAAAGTTGCAATG
* *
34957030 GAACAGATTAAAGCTACAAATTATGTCGAATCTTATCTCCCTAAAGTTGAAGTGGAGCAGATTGA
1 GAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTCCCTAAAGTTGAAGTAGAGCAGATTGA
*
34957095 AGCCACTAGCTTATCTCCCTAAAGTTG
66 AACCACTAGCTTATCTCCCTAAAGTTG
34957122 TAGCGGAGCA
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
97 16 0.19
98 68 0.81
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (97 bp):
GAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTCCCTAAAGTTGAAGTAGAGCAGATTGA
AACCACTAGCTTATCTCCCTAAAGTTGCAATG
Found at i:34957407 original size:46 final size:46
Alignment explanation
Indices: 34957186--34957584 Score: 178
Period size: 44 Copynumber: 8.9 Consensus size: 46
34957176 AGATTAAAGC
* *
34957186 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCTGGT
1 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGA
* * ** * * * * *
34957232 TGAAATTAC-CAATTCTTACCTCCTTGAAGTTCCAGCGGAGTA-GA
1 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGA
** * * * * * * *
34957276 -CCAAA-GCTACAGATCTCT-TCTCTCTGAAATTACATTGGAGCA-GA
1 TAAAAATAC-ACAAACCT-TATCTCCCTGAAGTTGCAGTGGAGCAGGA
* ** * * * *
34957320 T-CAAAGCCACAATCCTTATCTCTCTGAAGTTGCAATAGAGCAGGA
1 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGA
* *
34957365 TAAAAATACACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGT
1 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGA
* * ** * * * * * *
34957411 TGAAATTAC-CAATTCTTACCTCCTTTAAGTTTCAGCGGAGTA-GA
1 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGA
** * * * * *
34957455 T-CGAA-GCTACAAACCTCT-TCTCCCTGAAATTACATTGAAGCA-GA
1 TAAAAATAC-ACAAACCT-TATCTCCCTGAAGTTGCAGTGGAGCAGGA
** * ** * * *
34957499 TCGAAGT-CACAATTCTTATCTCTCTGAAGTTGCAGTAGACCAGGA
1 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGA
34957544 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAG
1 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAG
34957585 TAGGTTGAAA
Statistics
Matches: 248, Mismatches: 89, Indels: 32
0.67 0.24 0.09
Matches are distributed among these distances:
42 2 0.01
43 5 0.02
44 101 0.41
45 63 0.25
46 77 0.31
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (46 bp):
TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGA
Found at i:34957683 original size:179 final size:178
Alignment explanation
Indices: 34957186--34957709 Score: 789
Period size: 179 Copynumber: 2.9 Consensus size: 178
34957176 AGATTAAAGC
34957186 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCT-GGTTGAAATTACCAATTCTTA
1 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAG-TAGGTTGAAATTACCAATTCTTA
* * * *
34957250 CCTCCTTGAAGTTCCAGCGGAGTAGACCAAAGCTACAGATCTCTTCTCTCTGAAATTACATTGGA
65 CCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGA
* * *
34957315 GCAGATCAAAGCCACAATCCTTATCTCTCTGAAGTTGCAATAGAGCAGGA
130 GCAGATCGAAG-CACAATTCTTATCTCTCTGAAGTTGCAATAGACCAGGA
* *
34957365 TAAAAATACACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAATTACCAATTCTTAC
1 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAATTACCAATTCTTAC
* * * *
34957430 CTCCTTTAAGTTTCAGCGGAGTAGATCGAAGCTACAAACCTCTTCTCCCTGAAATTACATTGAAG
66 CTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAG
*
34957495 CAGATCGAAGTCACAATTCTTATCTCTCTGAAGTTGCAGTAGACCAGGA
131 CAGATCGAAG-CACAATTCTTATCTCTCTGAAGTTGCAATAGACCAGGA
*
34957544 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAATTACCAATTCTTAT
1 TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAATTACCAATTCTTAC
* * *
34957609 ATTCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAG
66 CTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAG
* * * * * *
34957674 TAAATCGAAGCTACAAGTCTCATCTCCCTAAAGTTG
131 CAGATCGAAGC-ACAATTCTTATCTCTCTGAAGTTG
34957710 TAGTGGATTA
Statistics
Matches: 312, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
178 1 0.00
179 311 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (178 bp):
TAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAATTACCAATTCTTAC
CTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAG
CAGATCGAAGCACAATTCTTATCTCTCTGAAGTTGCAATAGACCAGGA
Found at i:34959292 original size:21 final size:21
Alignment explanation
Indices: 34959258--34959318 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
34959248 TTTAGAATAT
** *
34959258 TTATTATTTGTATTATTGTAA
1 TTATTATTAATATTATTATAA
* *
34959279 TTATTATTAATATTACTATCA
1 TTATTATTAATATTATTATAA
*
34959300 TCATTATTAATATTATTAT
1 TTATTATTAATATTATTAT
34959319 TTTTAAACCC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
TTATTATTAATATTATTATAA
Found at i:34961732 original size:27 final size:26
Alignment explanation
Indices: 34961692--34961832 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 26
34961682 AGGAAGCGTC
*
34961692 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
34961719 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
34961746 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
34961773 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
34961800 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
*
34961827 GTGGTG
1 CTGGTG
34961833 ACTTCGTCAC
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 89 0.88
28 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:34961774 original size:54 final size:53
Alignment explanation
Indices: 34961692--34961832 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
34961682 AGGAAGCGTC
34961692 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
34961746 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
34961800 CTGGTGGCTCTGCCACAATATCTGTATGTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
34961833 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 75 0.91
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:34964749 original size:15 final size:14
Alignment explanation
Indices: 34964717--34964847 Score: 63
Period size: 14 Copynumber: 8.9 Consensus size: 14
34964707 CACATAATGT
*
34964717 TTATATATCTTTATA
1 TTATATAT-TATATA
34964732 TTATATATTATATAA
1 TTATATATTATAT-A
*
34964747 TTATTTTATTATACATTA
1 TTA-TATATTAT--A-TA
*
34964765 TTTTATATTAT-TA
1 TTATATATTATATA
*
34964778 TTATTTATTATATA
1 TTATATATTATATA
* * *
34964792 TTATTTTTTACAAACTA
1 TTATATATT--ATA-TA
* *
34964809 TTAT-TATTTTACA
1 TTATATATTATATA
34964822 TTAT-TATTTATATA
1 TTATATA-TTATATA
34964836 TTAT-TATTATAT
1 TTATATATTATAT
34964848 TTTTACTTGT
Statistics
Matches: 92, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
13 24 0.26
14 26 0.28
15 12 0.13
16 12 0.13
17 13 0.14
18 4 0.04
19 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATATATTATATA
Found at i:34964750 original size:20 final size:18
Alignment explanation
Indices: 34964730--34964795 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 18
34964720 TATATCTTTA
34964730 TATTATATATTATATAA-T
1 TATT-TATATTATATAATT
*
34964748 TATTT-TATTATA-CA-T
1 TATTTATATTATATAATT
*
34964763 TATTTTATATTATTATTATT
1 TA-TTTATATTA-TATAATT
34964783 TATTATATATTAT
1 TATT-TATATTAT
34964796 TTTTTACAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
15 4 0.10
16 10 0.25
17 6 0.15
18 6 0.15
19 4 0.10
20 10 0.25
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTATATTATATAATT
Found at i:34964765 original size:30 final size:30
Alignment explanation
Indices: 34964731--34964845 Score: 112
Period size: 30 Copynumber: 3.8 Consensus size: 30
34964721 ATATCTTTAT
34964731 ATTATATATTATATAATTATT-TTATTATAC
1 ATTAT-TATTATATAATTATTATTATTATAC
* *
34964761 ATTATT-TTATATTATTATTATTTATTATAT
1 ATTATTATTATATAATTATTA-TTATTATAC
* * * *
34964791 ATTATT-TTTTACAAACTATTATTATTTTAC
1 ATTATTATTATA-TAATTATTATTATTATAC
34964821 ATTATTATT-TATATATTATTATTAT
1 ATTATTATTATATA-ATTATTATTAT
34964846 ATTTTTACTT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
28 12 0.17
29 2 0.03
30 48 0.69
31 8 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTATTATTATATAATTATTATTATTATAC
Found at i:34964776 original size:3 final size:3
Alignment explanation
Indices: 34964730--34964845 Score: 59
Period size: 3 Copynumber: 39.0 Consensus size: 3
34964720 TATATCTTTA
* *
34964730 TAT TAT ATAT TA- TAT AAT TAT T-T TAT TAT ACAT TAT T-T TA- TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * *
34964773 TAT TAT TATT TAT TAT ATAT TAT T-T T-T TACA AAC TAT TAT TAT T-T
1 TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
*
34964818 TA- CAT TAT TATT TAT ATAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT -TAT TAT TAT TAT
34964846 ATTTTTACTT
Statistics
Matches: 88, Mismatches: 11, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
2 15 0.17
3 55 0.62
4 18 0.20
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:34964796 original size:20 final size:20
Alignment explanation
Indices: 34964728--34964796 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
34964718 TATATATCTT
*
34964728 TATATTATATATTATATAATTA
1 TATATTAT-TATTAT-TTATTA
* *
34964750 T-T-TTATTA-TACATTATTT
1 TATATTATTATTA-TTTATTA
34964768 TATATTATTATTATTTATTA
1 TATATTATTATTATTTATTA
34964788 TATATTATT
1 TATATTATT
34964797 TTTTACAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 7 0.18
19 3 0.08
20 24 0.63
21 3 0.08
22 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTATTATTATTTATTA
Found at i:34964844 original size:20 final size:20
Alignment explanation
Indices: 34964728--34964849 Score: 60
Period size: 20 Copynumber: 6.0 Consensus size: 20
34964718 TATATATCTT
*
34964728 TATATTATATATTATATAATTA
1 TATATTAT-TATTAT-TATTTA
*
34964750 T-T-TTATTATACATTATTT-
1 TATATTATTAT-TATTATTTA
34964768 TATATTATTATTATT-TATTA
1 TATATTATTATTATTAT-TTA
***
34964788 TATATTATT-TT-TTACAAA
1 TATATTATTATTATTATTTA
34964806 CTATTATTATTTTACATTATTATTTA
1 -TA-TATTA--TT--ATTATTATTTA
34964832 TATATTATTATTA-TATTT
1 TATATTATTATTATTATTT
34964850 TTACTTGTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 31
0.66 0.08 0.26
Matches are distributed among these distances:
18 5 0.06
19 22 0.29
20 31 0.40
21 1 0.01
22 5 0.06
24 5 0.06
25 4 0.05
26 4 0.05
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATTATTATTATTATTTA
Found at i:34965257 original size:17 final size:17
Alignment explanation
Indices: 34965237--34965286 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
34965227 TTATATTTTA
34965237 TATTTTTATATAATTAT
1 TATTTTTATATAATTAT
*
34965254 TATTCTTATA-AA-TAT
1 TATTTTTATATAATTAT
*
34965269 T-TTTTTAT-TATTTAT
1 TATTTTTATATAATTAT
34965284 TAT
1 TAT
34965287 ATCACATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
14 7 0.26
15 8 0.30
16 3 0.11
17 9 0.33
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTTATATAATTAT
Found at i:34969539 original size:13 final size:13
Alignment explanation
Indices: 34969521--34969553 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
34969511 GTGAGGATTT
34969521 CAAGGCCATAGTG
1 CAAGGCCATAGTG
34969534 CAAGGCCATAGTG
1 CAAGGCCATAGTG
34969547 CAAGGCC
1 CAAGGCC
34969554 TTATGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.30, T:0.12
Consensus pattern (13 bp):
CAAGGCCATAGTG
Found at i:34982523 original size:40 final size:40
Alignment explanation
Indices: 34982468--34982544 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
34982458 ATCATGGAAC
34982468 ATTTACCTAAACCATTATCATGGAACATTTACCTAACAAT
1 ATTTACCTAAACCATTATCATGGAACATTTACCTAACAAT
*
34982508 ATTTACCTAATCCATTATCATGGAACATTTACCTAAC
1 ATTTACCTAAACCATTATCATGGAACATTTACCTAAC
34982545 CCATTATCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (40 bp):
ATTTACCTAAACCATTATCATGGAACATTTACCTAACAAT
Found at i:34987827 original size:206 final size:207
Alignment explanation
Indices: 34987201--34987830 Score: 978
Period size: 206 Copynumber: 3.1 Consensus size: 207
34987191 AACATTTTGC
* * * * * *
34987201 AACACATCGAAGTCTGGCATCTCCA-CTTCGACGGGGAGCAGATACATAGCAGATCTAGCCTTCA
1 AACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCA
34987265 GATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCC-TGTGCTTACAAGGAACAAATCGA
66 GATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGA
*** * *
34987329 AGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCT
131 AGACATAGCTGATTTGGCTTTTGTGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCT
34987394 GTATTGTCAGAG
196 GTATTGTCAGAG
* * * *
34987406 AACAAATCAAAGTTTGGCATCTCCATATTTGATGGAGAGCAGACACATAGCAGATTTGGCCTTCA
1 AACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCA
* * * *
34987471 GATGTTTATACTGAAGCAAGATCCAAGATGCTTTGGCATTCTGGTGCTTACGAGGAACAAATCGA
66 GATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGA
34987536 AGACATAGCTGATTTGGCTTTTGTGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCT
131 AGACATAGCTGATTTGGCTTTTGTGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCT
34987601 GTATTGTCAGAG
196 GTATTGTCAGAG
34987613 AACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCA
1 AACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCA
* * * * * * * *
34987678 GACGATTAGACTGGAGC-AGATCCAGGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGA
66 GATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGA
34987742 AGACATAGCTGATTTGGCTTTTGTGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCT
131 AGACATAGCTGATTTGGCTTTTGTGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCT
*
34987807 GTATTGGCAGAG
196 GTATTGTCAGAG
*
34987819 AGCAAATCGAAG
1 AACAAATCGAAG
34987831 ATAGTAGATT
Statistics
Matches: 387, Mismatches: 36, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
205 22 0.06
206 198 0.51
207 167 0.43
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (207 bp):
AACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCA
GATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGA
AGACATAGCTGATTTGGCTTTTGTGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCT
GTATTGTCAGAG
Found at i:34989540 original size:15 final size:14
Alignment explanation
Indices: 34989508--34989638 Score: 63
Period size: 14 Copynumber: 8.9 Consensus size: 14
34989498 CACATAATGT
*
34989508 TTATATATCTTTATA
1 TTATATAT-TATATA
34989523 TTATATATTATATAA
1 TTATATATTATAT-A
*
34989538 TTATTTTATTATACATTA
1 TTA-TATATTAT--A-TA
*
34989556 TTTTATATTAT-TA
1 TTATATATTATATA
*
34989569 TTATTTATTATATA
1 TTATATATTATATA
* * *
34989583 TTATTTTTTACAAACTA
1 TTATATATT--ATA-TA
* *
34989600 TTAT-TATTTTACA
1 TTATATATTATATA
34989613 TTAT-TATTTATATA
1 TTATATA-TTATATA
34989627 TTAT-TATTATAT
1 TTATATATTATAT
34989639 TTTTACTTGT
Statistics
Matches: 92, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
13 24 0.26
14 26 0.28
15 12 0.13
16 12 0.13
17 13 0.14
18 4 0.04
19 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATATATTATATA
Found at i:34989541 original size:20 final size:18
Alignment explanation
Indices: 34989521--34989586 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 18
34989511 TATATCTTTA
34989521 TATTATATATTATATAA-T
1 TATT-TATATTATATAATT
*
34989539 TATTT-TATTATA-CA-T
1 TATTTATATTATATAATT
*
34989554 TATTTTATATTATTATTATT
1 TA-TTTATATTA-TATAATT
34989574 TATTATATATTAT
1 TATT-TATATTAT
34989587 TTTTTACAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
15 4 0.10
16 10 0.25
17 6 0.15
18 6 0.15
19 4 0.10
20 10 0.25
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTATATTATATAATT
Found at i:34989556 original size:30 final size:30
Alignment explanation
Indices: 34989522--34989636 Score: 112
Period size: 30 Copynumber: 3.8 Consensus size: 30
34989512 ATATCTTTAT
34989522 ATTATATATTATATAATTATT-TTATTATAC
1 ATTAT-TATTATATAATTATTATTATTATAC
* *
34989552 ATTATT-TTATATTATTATTATTTATTATAT
1 ATTATTATTATATAATTATTA-TTATTATAC
* * * *
34989582 ATTATT-TTTTACAAACTATTATTATTTTAC
1 ATTATTATTATA-TAATTATTATTATTATAC
34989612 ATTATTATT-TATATATTATTATTAT
1 ATTATTATTATATA-ATTATTATTAT
34989637 ATTTTTACTT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
28 12 0.17
29 2 0.03
30 48 0.69
31 8 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTATTATTATATAATTATTATTATTATAC
Found at i:34989567 original size:3 final size:3
Alignment explanation
Indices: 34989521--34989636 Score: 59
Period size: 3 Copynumber: 39.0 Consensus size: 3
34989511 TATATCTTTA
* *
34989521 TAT TAT ATAT TA- TAT AAT TAT T-T TAT TAT ACAT TAT T-T TA- TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * *
34989564 TAT TAT TATT TAT TAT ATAT TAT T-T T-T TACA AAC TAT TAT TAT T-T
1 TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
*
34989609 TA- CAT TAT TATT TAT ATAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT -TAT TAT TAT TAT
34989637 ATTTTTACTT
Statistics
Matches: 88, Mismatches: 11, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
2 15 0.17
3 55 0.62
4 18 0.20
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:34989587 original size:20 final size:20
Alignment explanation
Indices: 34989519--34989587 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
34989509 TATATATCTT
*
34989519 TATATTATATATTATATAATTA
1 TATATTAT-TATTAT-TTATTA
* *
34989541 T-T-TTATTA-TACATTATTT
1 TATATTATTATTA-TTTATTA
34989559 TATATTATTATTATTTATTA
1 TATATTATTATTATTTATTA
34989579 TATATTATT
1 TATATTATT
34989588 TTTTACAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 7 0.18
19 3 0.08
20 24 0.63
21 3 0.08
22 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTATTATTATTTATTA
Found at i:34989635 original size:20 final size:20
Alignment explanation
Indices: 34989519--34989640 Score: 60
Period size: 20 Copynumber: 6.0 Consensus size: 20
34989509 TATATATCTT
*
34989519 TATATTATATATTATATAATTA
1 TATATTAT-TATTAT-TATTTA
*
34989541 T-T-TTATTATACATTATTT-
1 TATATTATTAT-TATTATTTA
34989559 TATATTATTATTATT-TATTA
1 TATATTATTATTATTAT-TTA
***
34989579 TATATTATT-TT-TTACAAA
1 TATATTATTATTATTATTTA
34989597 CTATTATTATTTTACATTATTATTTA
1 -TA-TATTA--TT--ATTATTATTTA
34989623 TATATTATTATTA-TATTT
1 TATATTATTATTATTATTT
34989641 TTACTTGTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 31
0.66 0.08 0.26
Matches are distributed among these distances:
18 5 0.06
19 22 0.29
20 31 0.40
21 1 0.01
22 5 0.06
24 5 0.06
25 4 0.05
26 4 0.05
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATTATTATTATTATTTA
Found at i:34989680 original size:22 final size:21
Alignment explanation
Indices: 34989655--34989712 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
34989645 TTGTATTACG
*
34989655 TATTCTTTATATTCTTTATATA
1 TATTCTTTATATT-TTTACATA
* *
34989677 TATTATATATTATTTTTACATA
1 TATTCTTTA-TATTTTTACATA
*
34989699 TATACTTTCATATT
1 TATTCTTT-ATATT
34989713 ATATATTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTCTTTATATTTTTACATA
Found at i:34989699 original size:20 final size:20
Alignment explanation
Indices: 34989549--34989699 Score: 51
Period size: 20 Copynumber: 7.3 Consensus size: 20
34989539 TATTTTATTA
* *
34989549 TACATTATTTTATATTATTAT
1 TACA-TATTATATATTATTTT
**
34989570 TATTTATTATATATTATTTTT
1 TACATATTATATATTA-TTTT
* *
34989591 TACAAACTAT-TATTA-TTT
1 TACATATTATATATTATTTT
* *
34989609 TACATTATTATTTA-TA-TAT
1 TACA-TATTATATATTATTTT
* *
34989628 TA-TTATTATATTTTTACTTGTAT
1 TACATATTATA-TATTA-TT-T-T
* * * *
34989651 TACGTATTCTTTATATTCTTTA
1 TACATA-T-TATATATTATTTT
*
34989673 TATATATTATATATTATTTT
1 TACATATTATATATTATTTT
34989693 TACATAT
1 TACATAT
34989700 ATACTTTCAT
Statistics
Matches: 92, Mismatches: 26, Indels: 25
0.64 0.18 0.17
Matches are distributed among these distances:
17 6 0.07
18 8 0.09
19 12 0.13
20 34 0.37
21 13 0.14
22 4 0.04
23 4 0.04
24 4 0.04
25 4 0.04
26 3 0.03
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (20 bp):
TACATATTATATATTATTTT
Found at i:34990069 original size:15 final size:15
Alignment explanation
Indices: 34990028--34990069 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
34990018 ATTATATTTT
34990028 ATATTTTTA-TATAA
1 ATATTTTTATTATAA
* * *
34990042 TTATTATTCTTATAA
1 ATATTTTTATTATAA
34990057 ATATTTTTATTAT
1 ATATTTTTATTAT
34990070 TATTTATTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTTTATTATAA
Found at i:34994683 original size:21 final size:23
Alignment explanation
Indices: 34994657--34994712 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
34994647 CTTTTTCAAA
34994657 ATAATAATTATAAAT-TA-AATT
1 ATAATAATTATAAATGTATAATT
* *
34994678 ATAATATTTTTAAATGTATAATT
1 ATAATAATTATAAATGTATAATT
*
34994701 ATCATAACTTAT
1 ATAATAA-TTAT
34994713 CTCAATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 13 0.48
22 2 0.07
23 9 0.33
24 3 0.11
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (23 bp):
ATAATAATTATAAATGTATAATT
Found at i:34995724 original size:20 final size:21
Alignment explanation
Indices: 34995670--34995724 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
34995660 ACAATGGAAC
34995670 CATGTCTCAAGACAATGACCCT
1 CATGTCTCAAGACAA-GACCCT
* * * *
34995692 TATCTCTCGAGACAA-AGCCT
1 CATGTCTCAAGACAAGACCCT
34995712 CATGTCTCAAGAC
1 CATGTCTCAAGAC
34995725 CCTTAGAAGA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
20 14 0.54
22 12 0.46
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.24
Consensus pattern (21 bp):
CATGTCTCAAGACAAGACCCT
Found at i:34995877 original size:21 final size:21
Alignment explanation
Indices: 34995851--34995892 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
34995841 TACAAATTTT
*
34995851 TGTTCTTGAGGTCTTGAGACA
1 TGTTCTTGAGGTCTCGAGACA
*
34995872 TGTTCTTGATGTCTCGAGACA
1 TGTTCTTGAGGTCTCGAGACA
34995893 CCAACCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (21 bp):
TGTTCTTGAGGTCTCGAGACA
Found at i:34997185 original size:17 final size:18
Alignment explanation
Indices: 34997163--34997197 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34997153 TTGAGATGCT
*
34997163 CTAATT-AATCATGTAAA
1 CTAATTAAAGCATGTAAA
34997180 CTAATTAAAGCATGTAAA
1 CTAATTAAAGCATGTAAA
34997198 TTAGATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (18 bp):
CTAATTAAAGCATGTAAA
Found at i:34997823 original size:19 final size:19
Alignment explanation
Indices: 34997801--34997849 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
34997791 ATAAATTTAG
*
34997801 AATTTTTATAAATATTTTT
1 AATTTTTAGAAATATTTTT
*
34997820 AATTTTAAGAAATATTTTT
1 AATTTTTAGAAATATTTTT
34997839 AATTTTT-GAAA
1 AATTTTTAGAAA
34997850 GTTATTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (19 bp):
AATTTTTAGAAATATTTTT
Found at i:34999467 original size:16 final size:15
Alignment explanation
Indices: 34999435--34999464 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34999425 ATTATTAGTA
34999435 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
*
34999450 ATTTTTTTAATATTT
1 ATTTTTTAAATATTT
34999465 TATCATACTC
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:35000032 original size:29 final size:30
Alignment explanation
Indices: 34999971--35000033 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
34999961 TTTTGGCCCA
** * *
34999971 TTTTGATAAATAAAATTTTAAGTGACTTAT
1 TTTTGATAAATAAAATTAGAAATGAATTAT
*
35000001 TTTTG-TAAATAAAATTAGAAATGAATTTT
1 TTTTGATAAATAAAATTAGAAATGAATTAT
35000030 TTTT
1 TTTT
35000034 AACAAAATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.49
Consensus pattern (30 bp):
TTTTGATAAATAAAATTAGAAATGAATTAT
Found at i:35000393 original size:13 final size:11
Alignment explanation
Indices: 35000357--35000387 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
35000347 CTGCATGTAT
35000357 TAATTTTTATA
1 TAATTTTTATA
*
35000368 TTATTTTTATA
1 TAATTTTTATA
35000379 TAATTTTTA
1 TAATTTTTA
35000388 AATATATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:35000517 original size:22 final size:22
Alignment explanation
Indices: 35000492--35000534 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
35000482 TATCCAAATA
35000492 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
* *
35000514 ATAATACTAAAATATTAGCAA
1 ATAATAATAAAATAGTAGCAA
35000535 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:35008119 original size:15 final size:15
Alignment explanation
Indices: 35008099--35008129 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35008089 GTCATGTAAG
35008099 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
35008114 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
35008129 T
1 T
35008130 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:35008319 original size:17 final size:17
Alignment explanation
Indices: 35008286--35008324 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
35008276 TAAGCTTTTG
35008286 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
35008303 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
35008320 ATTTT
1 ATTTT
35008325 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:35009090 original size:15 final size:15
Alignment explanation
Indices: 35009066--35009095 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35009056 TGGAGATCGA
*
35009066 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
35009081 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
35009096 CAAGAAGGGA
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:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:35012477 original size:15 final size:15
Alignment explanation
Indices: 35012457--35012487 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35012447 GTCATGTAAG
35012457 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
35012472 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
35012487 T
1 T
35012488 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:35012677 original size:17 final size:17
Alignment explanation
Indices: 35012644--35012682 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
35012634 TAAGCTTTTG
35012644 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
35012661 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
35012678 ATTTT
1 ATTTT
35012683 CCACACTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:35014897 original size:38 final size:37
Alignment explanation
Indices: 35014827--35014898 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
35014817 ATGAAAAAAT
*
35014827 AATTTAATCATATTTTAACATAATAATTATTAAATAC
1 AATTTAATAATATTTTAACATAATAATTATTAAATAC
* * *
35014864 AATTTAGTAATATTCTTAATATAATTATTATTAAA
1 AATTTAATAATATT-TTAACATAATAATTATTAAA
35014899 ATATGAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 12 0.40
38 18 0.60
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (37 bp):
AATTTAATAATATTTTAACATAATAATTATTAAATAC
Found at i:35017988 original size:26 final size:25
Alignment explanation
Indices: 35017958--35018007 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
35017948 TTTTGTTAAG
35017958 GGACT-TTTGATGAAAATGTGAAATAA
1 GGACTATTTG-TG-AAATGTGAAATAA
35017984 GGACTGATTTGTGAAATGTGAAAT
1 GGACT-ATTTGTGAAATGTGAAAT
35018008 TTATGAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 16 0.73
27 2 0.09
28 4 0.18
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (25 bp):
GGACTATTTGTGAAATGTGAAATAA
Found at i:35018558 original size:42 final size:41
Alignment explanation
Indices: 35018511--35018621 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 41
35018501 CGAGATTCCG
35018511 TATAAGACCATATATGGGATATGGCATCG-GTAT-ATGATTTCA
1 TATAAGACCATATA-GGGATATGGCATCGAG-ATGAT-ATTTCA
* * *
35018553 TATAAGACCATGTCAGGGACATGGCGTCGAGATGATATTTCA
1 TATAAGACCATAT-AGGGATATGGCATCGAGATGATATTTCA
* *
35018595 TGTAAGACCATATCCGGGATATGGCAT
1 TATAAGACCATAT-AGGGATATGGCAT
35018622 TGACACGGTA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 54 0.93
43 4 0.07
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (41 bp):
TATAAGACCATATAGGGATATGGCATCGAGATGATATTTCA
Found at i:35020613 original size:14 final size:14
Alignment explanation
Indices: 35020594--35020624 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
35020584 CTATTTGAAC
35020594 CTTTCTTAACCTTT
1 CTTTCTTAACCTTT
*
35020608 CTTTCTTAGCCTTT
1 CTTTCTTAACCTTT
35020622 CTT
1 CTT
35020625 CAACTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.29, G:0.03, T:0.58
Consensus pattern (14 bp):
CTTTCTTAACCTTT
Found at i:35021374 original size:8 final size:8
Alignment explanation
Indices: 35021332--35021356 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
35021322 ATATAGACTA
35021332 AATAAAAT
1 AATAAAAT
35021340 AATAAAAT
1 AATAAAAT
35021348 AATAAAAT
1 AATAAAAT
35021356 A
1 A
35021357 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:35021380 original size:29 final size:31
Alignment explanation
Indices: 35021329--35021397 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
35021319 TATATATAGA
*
35021329 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
35021358 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
35021389 CTAATTAAA
1 CTAATTAAA
35021398 TAACTACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:35021661 original size:30 final size:31
Alignment explanation
Indices: 35021610--35021668 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
35021600 CACCCTTAAA
* * *
35021610 ATATTTTCACTATTAGTCCTTCAAGTTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTTC
35021641 ATATTTACACT-TTAATCCTTCAAATTTT
1 ATATTTACACTATTAATCCTTCAAATTTT
35021669 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.27, C:0.19, G:0.03, T:0.51
Consensus pattern (31 bp):
ATATTTACACTATTAATCCTTCAAATTTTTC
Found at i:35021676 original size:30 final size:31
Alignment explanation
Indices: 35021610--35021678 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
35021600 CACCCTTAAA
* * *
35021610 ATATTTTCACTATTAGTCCTTCAAGTTTTTC
1 ATATTTACACTATTAATCCTTCAAGATTTTC
*
35021641 ATATTTACACT-TTAATCCTTCAA-ATTTTG
1 ATATTTACACTATTAATCCTTCAAGATTTTC
35021670 AGTATTTAC
1 A-TATTTAC
35021679 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 18 0.55
31 10 0.30
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCCTTCAAGATTTTC
Found at i:35024328 original size:136 final size:136
Alignment explanation
Indices: 35024093--35024354 Score: 452
Period size: 136 Copynumber: 1.9 Consensus size: 136
35024083 AATTAAAATC
* * * *
35024093 ACAAGCAACGCAATAATCTATAAATACATAATTCATTTCATTGCCTTATTGAAGTAAAGTTTTGG
1 ACAAGCAACACAATAATCTAAAAATACATAATTCATTTCACTGCCTTATTGAAGTAAAGTTTCGG
** *
35024158 ACTCGGATAGTTCCAAAATGATTTTGCACTTGAAAGATGGAAATAAACTTAAAAGTAGTTCGATT
66 ACTCAAATAGTTCCAAAATGATTTGGCACTTGAAAGATGGAAATAAACTTAAAAGTAGTTCGATT
35024223 AAGTTT
131 AAGTTT
35024229 ACAAGCAACACAATAATCTAAAAATACATAATTCATTTCACTGCCTTATTGAAGTAAAGTTTCGG
1 ACAAGCAACACAATAATCTAAAAATACATAATTCATTTCACTGCCTTATTGAAGTAAAGTTTCGG
*
35024294 ACTCAAATAGTTCCAAAATGATTTGGCACTTGAAAGATGGAAATAAACTTGAAAGTAGTTC
66 ACTCAAATAGTTCCAAAATGATTTGGCACTTGAAAGATGGAAATAAACTTAAAAGTAGTTC
35024355 ACCAACAACT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 118 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (136 bp):
ACAAGCAACACAATAATCTAAAAATACATAATTCATTTCACTGCCTTATTGAAGTAAAGTTTCGG
ACTCAAATAGTTCCAAAATGATTTGGCACTTGAAAGATGGAAATAAACTTAAAAGTAGTTCGATT
AAGTTT
Found at i:35025467 original size:24 final size:24
Alignment explanation
Indices: 35025440--35025492 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
35025430 AACTTAATTT
* * *
35025440 TAATCAATGTCAAATATATTATGC
1 TAATAAATCTCAAATATATTATAC
*
35025464 TAATAAATCTTAAATATATTATAC
1 TAATAAATCTCAAATATATTATAC
35025488 TAATA
1 TAATA
35025493 TATACTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (24 bp):
TAATAAATCTCAAATATATTATAC
Found at i:35026140 original size:17 final size:17
Alignment explanation
Indices: 35026101--35026143 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
35026091 AGTATATTTT
35026101 ATAAAATTATTATTTAA
1 ATAAAATTATTATTTAA
35026118 AT--AATTA-TATATTAA
1 ATAAAATTATTAT-TTAA
35026133 ATAAAATTATT
1 ATAAAATTATT
35026144 GATTAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.14
15 11 0.50
17 7 0.32
18 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAAAATTATTATTTAA
Found at i:35026148 original size:17 final size:16
Alignment explanation
Indices: 35026101--35026150 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
35026091 AGTATATTTT
35026101 ATAAAATTATTATTTAA
1 ATAAAATTATTA-TTAA
35026118 AT--AATTATATATTAA
1 ATAAAATTAT-TATTAA
35026133 ATAAAATTATTGATTAA
1 ATAAAATTATT-ATTAA
35026150 A
1 A
35026151 CAATATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 12 0.41
16 3 0.10
17 14 0.48
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
ATAAAATTATTATTAA
Found at i:35026439 original size:147 final size:147
Alignment explanation
Indices: 35026045--35026513 Score: 509
Period size: 154 Copynumber: 3.1 Consensus size: 147
35026035 TCAAAGCTTC
* *
35026045 AAATATAA-ATAATTAATTTTTTATCCC-GTGTGATGCATAGGTTGTCAGTATATTTTATAAAAT
1 AAATATAATAT-ATTAATTTTTTATCCCTGTGTGATGCACAGGTTGTGA-TATATTTTATAAAAT
* *
35026108 TATTATTTAAATAATTATATATTAAATAAAATTATTGATTAAACAATATTTAAAAGATATAATCA
64 TATTATTTAAATAATCATATATTAAATAAAATTATTGATAAAACAATATTTAAAAG--AT-ATC-
* *
35026173 AAATATAAAATATACTCAAATTTTTG
125 --ATA-AAAATATACTTAAGTTTTTG
* * * * * * *
35026199 AAATATAATATATTAGTTTTCTAT-CTTGTGTGATTCACAGGTTATTTG-TGTGTTTTATAAAAT
1 AAATATAATATATTAATTTTTTATCCCTGTGTGATGCACAGG-T-TGTGATATATTTTATAAAAT
* *
35026262 TATTATTTAAATAACCATATATTAAATAAAATTATTGATAAAATAATATTTAAAAGATATC-TAA
64 TATTATTTAAATAATCATATATTAAATAAAATTATTGATAAAACAATATTTAAAAGATATCATAA
35026326 AAATATACTTAAGTTTTTG
129 AAATATACTTAAGTTTTTG
* * *
35026345 AAATATAATATACTAATTTTTTATCCCGTGTGTGATGCACATGTTGCTGAT-TTTTTTATAAAAT
1 AAATATAATATATTAATTTTTTATCCC-TGTGTGATGCACAGGTTG-TGATATATTTTATAAAAT
* * * *
35026409 TTTTATTTAAATAATGATATATTAAATAAAATTATTAATAAAACAATATTTAAAATATATAACTA
64 TATTATTTAAATAATCATATATTAAATAAAATTATTGATAAAACAATATTTAAAAGATAT--C--
*
35026474 AATTTAAAAATATACTTAAGTTTTTA
125 -A--TAAAAATATACTTAAGTTTTTG
35026500 AAATATAATATATT
1 AAATATAATATATT
35026514 TGTAAGGTTA
Statistics
Matches: 268, Mismatches: 31, Indels: 31
0.81 0.09 0.09
Matches are distributed among these distances:
146 40 0.15
147 72 0.27
148 14 0.05
149 1 0.00
151 3 0.01
152 2 0.01
153 1 0.00
154 96 0.36
155 37 0.14
156 2 0.01
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (147 bp):
AAATATAATATATTAATTTTTTATCCCTGTGTGATGCACAGGTTGTGATATATTTTATAAAATTA
TTATTTAAATAATCATATATTAAATAAAATTATTGATAAAACAATATTTAAAAGATATCATAAAA
ATATACTTAAGTTTTTG
Found at i:35027193 original size:47 final size:47
Alignment explanation
Indices: 35027124--35027214 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
35027114 TACTTCAAAT
35027124 GTCTCCATGTTCAGGCTCACAAATGGCAATAGATTTGGGGTTTTGAA
1 GTCTCCATGTTCAGGCTCACAAATGGCAATAGATTTGGGGTTTTGAA
35027171 GTCTCCATGTTCAGGCTCACAAATGGCAATAGATTTGGGGTTTT
1 GTCTCCATGTTCAGGCTCACAAATGGCAATAGATTTGGGGTTTT
35027215 CTTTTTTCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (47 bp):
GTCTCCATGTTCAGGCTCACAAATGGCAATAGATTTGGGGTTTTGAA
Found at i:35029766 original size:20 final size:20
Alignment explanation
Indices: 35029725--35029781 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
35029715 CATGTCAATC
*
35029725 TTTTTATTTTTATTTTTACT
1 TTTTTACTTTTATTTTTACT
*
35029745 TTTTTACTTTTCTTTTGT-CT
1 TTTTTACTTTTATTTT-TACT
35029765 TTTTCT-CTATTTATTTT
1 TTTT-TACT-TTTATTTT
35029782 ATTTATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 22 0.71
21 9 0.29
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTACTTTTATTTTTACT
Found at i:35029880 original size:21 final size:22
Alignment explanation
Indices: 35029843--35029897 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
35029833 ATTAATATAT
*
35029843 ATTTTGAA-ATTACTTTTCTAA
1 ATTTTAAATATTACTTTTCTAA
* *
35029864 ATTTTAAATATTA-TTTTTTTA
1 ATTTTAAATATTACTTTTCTAA
35029885 ATATTTAAATATT
1 AT-TTTAAATATT
35029898 TTAAACTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTAAATATTACTTTTCTAA
Found at i:35029881 original size:22 final size:21
Alignment explanation
Indices: 35029843--35029897 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
35029833 ATTAATATAT
*
35029843 ATTTTGAA-ATTACTTTTCTAA
1 ATTTTAAATATTACTTTT-TAA
* *
35029864 ATTTTAAATATTATTTTTTTA
1 ATTTTAAATATTACTTTTTAA
35029885 ATATTTAAATATT
1 AT-TTTAAATATT
35029898 TTAAACTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAAATATTACTTTTTAA
Found at i:35029900 original size:31 final size:33
Alignment explanation
Indices: 35029856--35029978 Score: 96
Period size: 31 Copynumber: 3.8 Consensus size: 33
35029846 TTGAAATTAC
*
35029856 TTTTCTAA-ATTTTAAA-TATTATTT-TTTTAA
1 TTTTATAATATTTTAAACTATTATTTATTTTAA
*
35029886 TATTTA-AATATTTTAAACTTTTAAATTTATTATTAA
1 T-TTTATAATATTTTAAACTATT--ATTTATT-TTAA
** * *
35029922 TTTTATAATAACTTAAA-TATTATTTAATTT-G
1 TTTTATAATATTTTAAACTATTATTTATTTTAA
* *
35029953 TTTTATAATATTTTAAATTATGATTT
1 TTTTATAATATTTTAAACTATTATTT
35029979 TTAAATTATT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
30 3 0.04
31 26 0.35
32 12 0.16
33 6 0.08
34 4 0.05
35 9 0.12
36 14 0.19
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (33 bp):
TTTTATAATATTTTAAACTATTATTTATTTTAA
Found at i:35029962 original size:22 final size:24
Alignment explanation
Indices: 35029934--35029994 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 24
35029924 TTATAATAAC
35029934 TTAAATATTATTTAATT-TG--TT
1 TTAAATATTATTTAATTATGATTT
*
35029955 TTATAATATT-TTAAATTATGATTT
1 TTA-AATATTATTTAATTATGATTT
35029979 TTAAATTATTATTTAA
1 TTAAA-TATTATTTAA
35029995 AGATATTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 9 0.28
22 8 0.25
23 2 0.06
24 9 0.28
25 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (24 bp):
TTAAATATTATTTAATTATGATTT
Found at i:35029980 original size:14 final size:14
Alignment explanation
Indices: 35029963--35029992 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35029953 TTTTATAATA
35029963 TTTTAAATTATGAT
1 TTTTAAATTATGAT
*
35029977 TTTTAAATTATTAT
1 TTTTAAATTATGAT
35029991 TT
1 TT
35029993 AAAGATATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTAAATTATGAT
Found at i:35030262 original size:22 final size:23
Alignment explanation
Indices: 35030210--35030268 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
35030200 ATATCTTTAA
35030210 AAATAAT-TTAAAAATCATAATT
1 AAATAATATTAAAAATCATAATT
*
35030232 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATTA-AAAATCATAATT
35030253 AAATAATATTAAAAAT
1 AAATAATATTAAAAAT
35030269 ATTAACAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATAATATTAAAAATCATAATT
Found at i:35030355 original size:21 final size:21
Alignment explanation
Indices: 35030331--35030440 Score: 91
Period size: 21 Copynumber: 5.1 Consensus size: 21
35030321 TTTTATATTA
**
35030331 TTAAAAATATATATTTAATGT
1 TTAAAAATATATATTTAAAAT
* *
35030352 TTAAAAAAATAATATTAAAAAT
1 TTAAAAATAT-ATATTTAAAAT
35030374 TT-AAAATA-ATATTTAAAAT
1 TTAAAAATATATATTTAAAAT
35030393 TTAAAAAATATATATTATAAAAAAT
1 TT-AAAAATATATATT-T--AAAAT
* *
35030418 TT-CAAATATAAATTTTAAAAT
1 TTAAAAATATATA-TTTAAAAT
35030439 TT
1 TT
35030441 TTAAAATTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 16
0.75 0.08 0.16
Matches are distributed among these distances:
19 12 0.16
21 27 0.37
22 15 0.21
23 10 0.14
24 2 0.03
25 7 0.10
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (21 bp):
TTAAAAATATATATTTAAAAT
Found at i:35030358 original size:22 final size:22
Alignment explanation
Indices: 35030333--35030440 Score: 91
Period size: 22 Copynumber: 5.0 Consensus size: 22
35030323 TTATATTATT
**
35030333 AAAAATATATATTTAATGTTTA
1 AAAAATATATATTTAAAATTTA
*
35030355 AAAAA-ATAATATTAAAAATTT-
1 AAAAATAT-ATATTTAAAATTTA
35030376 -AAAATA-ATATTTAAAATTTA
1 AAAAATATATATTTAAAATTTA
*
35030396 AAAAATATATATTATAAAAAATTTC
1 AAAAATATATATT-T--AAAATTTA
* *
35030421 AAATATAAAT-TTTAAAATTT
1 AAAAATATATATTTAAAATTT
35030441 TTAAAATTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
19 12 0.17
20 4 0.06
21 16 0.23
22 20 0.28
23 2 0.03
24 2 0.03
25 15 0.21
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (22 bp):
AAAAATATATATTTAAAATTTA
Found at i:35030381 original size:19 final size:19
Alignment explanation
Indices: 35030357--35030403 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
35030347 AATGTTTAAA
35030357 AAAATAATATTAAAAATTT
1 AAAATAATATTAAAAATTT
*
35030376 AAAATAATATTTAAAATTT
1 AAAATAATATTAAAAATTT
35030395 AAAA-AATAT
1 AAAATAATAT
35030404 ATATTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATAATATTAAAAATTT
Found at i:35030396 original size:41 final size:45
Alignment explanation
Indices: 35030334--35030440 Score: 125
Period size: 41 Copynumber: 2.4 Consensus size: 45
35030324 TATATTATTA
** *
35030334 AAAATATATATTTAATGTTTAAAAAA-ATA-A-TATTAAAAATTT-
1 AAAATA-ATATTTAAAATTTAAAAAATATATATTATAAAAAATTTC
35030376 AAAATAATATTTAAAATTTAAAAAATATATATTATAAAAAATTTC
1 AAAATAATATTTAAAATTTAAAAAATATATATTATAAAAAATTTC
35030421 AAATATAA-ATTTTAAAATTT
1 AAA-ATAATA-TTTAAAATTT
35030441 TTAAAATTAA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
41 17 0.30
42 9 0.16
43 1 0.02
44 11 0.20
45 4 0.07
46 14 0.25
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (45 bp):
AAAATAATATTTAAAATTTAAAAAATATATATTATAAAAAATTTC
Found at i:35030447 original size:23 final size:23
Alignment explanation
Indices: 35030373--35030447 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
35030363 ATATTAAAAA
35030373 TTTAAAATA-ATA-TTTAAAATT
1 TTTAAAATATATATTTTAAAATT
** * **
35030394 TAAAAAATATATATTATAAAAAA
1 TTTAAAATATATATTTTAAAATT
* *
35030417 TTTCAAATATAAATTTTAAAATT
1 TTTAAAATATATATTTTAAAATT
35030440 TTTAAAAT
1 TTTAAAAT
35030448 TAATAACAAT
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
21 7 0.18
22 3 0.08
23 29 0.74
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTAAAATATATATTTTAAAATT
Found at i:35030525 original size:24 final size:23
Alignment explanation
Indices: 35030482--35030526 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
35030472 ATAAACAAAA
* *
35030482 TAAAACAAGAAAAATATAAAGCT
1 TAAAAAAAGAAAAAAATAAAGCT
35030505 TAAAAAAAGAAAAAAATTAAAG
1 TAAAAAAAGAAAAAAA-TAAAG
35030527 AAAAAGACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (23 bp):
TAAAAAAAGAAAAAAATAAAGCT
Found at i:35032691 original size:14 final size:14
Alignment explanation
Indices: 35032674--35032726 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
35032664 AAACTTTAAC
35032674 TGTTAAATTTTATT
1 TGTTAAATTTTATT
* * *
35032688 TGTTAAACTCTAAAT
1 TGTTAAA-TTTTATT
*
35032703 T-CTAAATTTTATT
1 TGTTAAATTTTATT
35032716 TGTTAAATTTT
1 TGTTAAATTTT
35032727 TTGTAAAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
13 5 0.17
14 19 0.66
15 5 0.17
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.57
Consensus pattern (14 bp):
TGTTAAATTTTATT
Found at i:35032953 original size:18 final size:16
Alignment explanation
Indices: 35032916--35032960 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
35032906 ATTAAGACGA
35032916 AAATATAATATATTAC
1 AAATATAATATATTAC
*
35032932 AAATAATAATATCATTAT
1 AAAT-ATAATAT-ATTAC
35032950 AAATGATAATA
1 AAAT-ATAATA
35032961 ATTTTTATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 4 0.16
17 7 0.28
18 14 0.56
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATATAATATATTAC
Found at i:35035185 original size:17 final size:19
Alignment explanation
Indices: 35035152--35035191 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
35035142 GTGTGGACTA
35035152 CCCATGTGGACCCACAC-G
1 CCCATGTGGACCCACACGG
*
35035170 CCCATGTGG-TCCACACGG
1 CCCATGTGGACCCACACGG
35035188 CCCA
1 CCCA
35035192 ATTCAGTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.20, C:0.45, G:0.23, T:0.12
Consensus pattern (19 bp):
CCCATGTGGACCCACACGG
Found at i:35038658 original size:59 final size:59
Alignment explanation
Indices: 35038580--35038692 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 59
35038570 AAGTCCGTAA
* * **
35038580 ATGCTACTGGTGTATTAGTCAAACCCAAA-GTTATAACTAGGAACTCGTAATGTCGATAC
1 ATGCCACTGGTGCATTAGTCAAA-CCAAAGGGCATAACTAGGAACTCGTAATGTCGATAC
35038639 ATGCCACTGGTGCATTAGTCAAACCAAAGGGCATAACTAGGAACTCGTAATGTC
1 ATGCCACTGGTGCATTAGTCAAACCAAAGGGCATAACTAGGAACTCGTAATGTC
35038693 CATATCGAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 5 0.10
59 44 0.90
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (59 bp):
ATGCCACTGGTGCATTAGTCAAACCAAAGGGCATAACTAGGAACTCGTAATGTCGATAC
Found at i:35041465 original size:91 final size:91
Alignment explanation
Indices: 35041310--35041675 Score: 696
Period size: 91 Copynumber: 4.0 Consensus size: 91
35041300 CCACCGGTTA
35041310 TTCGTTAAGTCTAAAATCATCTCTTTTTAGCGGAAGCTTTGGAAAACACATATTTTAGGAAAACC
1 TTCGTTAAGTCTAAAATCATCTCTTTTTAGCGGAAGCTTTGGAAAACACATATTTTAGGAAAACC
35041375 ATTTGCGTTATGAAAAACTTTTGTCT
66 ATTTGCGTTATGAAAAACTTTTGTCT
35041401 TTCGTTAAGTCTAAAATCATCTCTTTTTAGCGGAAGCTTTGGAAAACACATATTTTAGGAAAACC
1 TTCGTTAAGTCTAAAATCATCTCTTTTTAGCGGAAGCTTTGGAAAACACATATTTTAGGAAAACC
35041466 ATTTGCGTTATGAAAAACTTTTGTCT
66 ATTTGCGTTATGAAAAACTTTTGTCT
35041492 TTCGTTAAGTCTAAAATCATCTCTTTTTAGCGGAAGCTTTGGAAAACACATATTTTAGGAAAACC
1 TTCGTTAAGTCTAAAATCATCTCTTTTTAGCGGAAGCTTTGGAAAACACATATTTTAGGAAAACC
35041557 ATTTGCGTTATGAAAAACTTTTGTCT
66 ATTTGCGTTATGAAAAACTTTTGTCT
*
35041583 TTCGTTAAGTCTAAAATCATCTCTTTTTAGCGGAAGCTTTGGAAAACACATGTTTTAGGAAAACC
1 TTCGTTAAGTCTAAAATCATCTCTTTTTAGCGGAAGCTTTGGAAAACACATATTTTAGGAAAACC
* * *
35041648 GTTCGTGTTATGAAAAACTTTTGTCT
66 ATTTGCGTTATGAAAAACTTTTGTCT
35041674 TT
1 TT
35041676 AGAAAAGTTG
Statistics
Matches: 271, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 271 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (91 bp):
TTCGTTAAGTCTAAAATCATCTCTTTTTAGCGGAAGCTTTGGAAAACACATATTTTAGGAAAACC
ATTTGCGTTATGAAAAACTTTTGTCT
Found at i:35045206 original size:55 final size:55
Alignment explanation
Indices: 35045102--35045207 Score: 167
Period size: 55 Copynumber: 1.9 Consensus size: 55
35045092 CAAATAACAC
*** *
35045102 ATTGTGTTTTCAAAAATATAACTTTTAAAGAGTTTTGCTGCAAAGTTATAAAAAA
1 ATTGTGTTTTCAAAAATATAACTTTTAAAGAGTTCCACTGCAAAATTATAAAAAA
*
35045157 ATTGTGTTTTCAAAAATATAACTTTTAAAGAGTTCCACTGTAAAATTATAA
1 ATTGTGTTTTCAAAAATATAACTTTTAAAGAGTTCCACTGCAAAATTATAA
35045208 GTTTTTTAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (55 bp):
ATTGTGTTTTCAAAAATATAACTTTTAAAGAGTTCCACTGCAAAATTATAAAAAA
Found at i:35050362 original size:26 final size:26
Alignment explanation
Indices: 35050333--35050400 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
35050323 AAGCAAATCT
35050333 TACTATTTAATTTACCATTCAAAACA
1 TACTATTTAATTTACCATTCAAAACA
*
35050359 TACTATTTAATTTACGATTCAAAACA
1 TACTATTTAATTTACCATTCAAAACA
* *
35050385 TAC-ATATAACTTACCA
1 TACTATTTAATTTACCA
35050401 CAAAATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
25 10 0.26
26 28 0.74
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.37
Consensus pattern (26 bp):
TACTATTTAATTTACCATTCAAAACA
Found at i:35054320 original size:24 final size:24
Alignment explanation
Indices: 35054255--35054333 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
35054245 AGCTCCTCCT
*
35054255 GAGCTGATGAACAGTAAGCTCTATT
1 GAGCTGA-GAACAGTAAGCTCTATC
* *
35054280 GAGTTGAG-ACAGTAAGCTTTGA-C
1 GAGCTGAGAACAGTAAGCTCT-ATC
35054303 GAGCTGAGAACAGTAAGCTCTTAT-
1 GAGCTGAGAACAGTAAGCTC-TATC
35054327 GAGCTGA
1 GAGCTGA
35054334 TATATCGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
23 18 0.40
24 20 0.44
25 7 0.16
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (24 bp):
GAGCTGAGAACAGTAAGCTCTATC
Found at i:35055227 original size:28 final size:28
Alignment explanation
Indices: 35055175--35055237 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
35055165 GTCATTATCA
* *
35055175 ACCCCATAAGTTATAAAACTTTTCCTAT
1 ACCCCATAAGTCATAAAACTCTTCCTAT
* *
35055203 ACCCCATAAGTCATGAGACTCTTCCTAT
1 ACCCCATAAGTCATAAAACTCTTCCTAT
35055231 ACCCCAT
1 ACCCCAT
35055238 TAATATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.06, T:0.30
Consensus pattern (28 bp):
ACCCCATAAGTCATAAAACTCTTCCTAT
Found at i:35055420 original size:27 final size:27
Alignment explanation
Indices: 35055385--35055479 Score: 68
Period size: 27 Copynumber: 3.4 Consensus size: 27
35055375 TTCTTTCTAC
*
35055385 ACTCCTTCTTCTATCACATTTTAGTTT
1 ACTCTTTCTTCTATCACATTTTAGTTT
* ** *
35055412 ACTCTTTCTTTATTATTTCACA--ACACGTTAC
1 ACTCTTTC-TT-CTA--TCACATTTTA-GTT-T
35055443 ACTCTTTCTTCTATCACATTTTAGTTT
1 ACTCTTTCTTCTATCACATTTTAGTTT
*
35055470 ATTCTTTCTT
1 ACTCTTTCTT
35055480 TATTATTTCA
Statistics
Matches: 50, Mismatches: 10, Indels: 16
0.66 0.13 0.21
Matches are distributed among these distances:
27 21 0.42
28 5 0.10
29 6 0.12
30 5 0.10
31 13 0.26
ACGTcount: A:0.20, C:0.24, G:0.03, T:0.53
Consensus pattern (27 bp):
ACTCTTTCTTCTATCACATTTTAGTTT
Found at i:35055476 original size:58 final size:58
Alignment explanation
Indices: 35055382--35055499 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
35055372 ATATTCTTTC
35055382 TACACTCCTTCTTCTATCACATTTTAGTTTACTCTTTCTTTATTATTTCACAACACGT
1 TACACTCCTTCTTCTATCACATTTTAGTTTACTCTTTCTTTATTATTTCACAACACGT
* *
35055440 TACACTCTTTCTTCTATCACATTTTAGTTTATTCTTTCTTTATTATTTCACAACACGT
1 TACACTCCTTCTTCTATCACATTTTAGTTTACTCTTTCTTTATTATTTCACAACACGT
35055498 TA
1 TA
35055500 TCAGCACGAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.23, C:0.24, G:0.03, T:0.50
Consensus pattern (58 bp):
TACACTCCTTCTTCTATCACATTTTAGTTTACTCTTTCTTTATTATTTCACAACACGT
Found at i:35055491 original size:31 final size:31
Alignment explanation
Indices: 35055398--35055491 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
35055388 CCTTCTTCTA
35055398 TCACATTTTAGTTTACTCTTTCTTTATTATT
1 TCACATTTTAGTTTACTCTTTCTTTATTATT
** * *
35055429 TCACA--ACACGTTACACTCTTTC-TT-CTA--
1 TCACATTTTA-GTT-TACTCTTTCTTTATTATT
*
35055456 TCACATTTTAGTTTATTCTTTCTTTATTATT
1 TCACATTTTAGTTTACTCTTTCTTTATTATT
35055487 TCACA
1 TCACA
35055492 ACACGTTATC
Statistics
Matches: 46, Mismatches: 9, Indels: 16
0.65 0.13 0.23
Matches are distributed among these distances:
27 12 0.26
28 5 0.11
29 6 0.13
30 5 0.11
31 18 0.39
ACGTcount: A:0.22, C:0.21, G:0.03, T:0.53
Consensus pattern (31 bp):
TCACATTTTAGTTTACTCTTTCTTTATTATT
Found at i:35060484 original size:39 final size:40
Alignment explanation
Indices: 35060439--35060606 Score: 115
Period size: 40 Copynumber: 4.2 Consensus size: 40
35060429 CGGGGTTTAG
* * *
35060439 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
35060478 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * **
35060518 CCGGATATAGTCGCTAGCATAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
35060558 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
35060599 CCGGATAT
1 CCGGATAT
35060607 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 62 0.57
41 26 0.24
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:35060589 original size:41 final size:40
Alignment explanation
Indices: 35060462--35060606 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
35060452 CTCGCACAAG
* * * *
35060462 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCATAAAT
35060502 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCATAAAT
* * * *
35060542 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCATAAAT
35060583 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
35060607 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 26 0.28
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCATAAAT
Found at i:35061837 original size:38 final size:38
Alignment explanation
Indices: 35061795--35061870 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
35061785 CAAGAACTCC
35061795 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
35061833 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
35061871 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:35063794 original size:19 final size:20
Alignment explanation
Indices: 35063753--35063796 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
35063743 AAAAAGATAA
*
35063753 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTTAAAAAT
35063773 ATTTTG-AA-TTTTAAAAATT
1 ATTTTGAAATTTTTAAAAA-T
35063792 ATTTT
1 ATTTT
35063797 ATTTTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 8 0.36
20 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAAAT
Found at i:35063802 original size:18 final size:18
Alignment explanation
Indices: 35063761--35063802 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
35063751 AAATTTTGAA
*
35063761 ATTTTTATAAATATTTTG
1 ATTTTTAAAAATATTTTG
*
35063779 AATTTTAAAAATTATTTT-
1 ATTTTTAAAAA-TATTTTG
35063797 ATTTTT
1 ATTTTT
35063803 TTGTTGAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTTTAAAAATATTTTG
Found at i:35070155 original size:25 final size:27
Alignment explanation
Indices: 35070126--35070182 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 27
35070116 TAATTCAAAT
*
35070126 TAATTATT-ATTTTTAAATAA-TTTAA
1 TAATTATTCATTTCTAAATAATTTTAA
*
35070151 TAATT-TTCATTTCTATATAATTTTAA
1 TAATTATTCATTTCTAAATAATTTTAA
35070177 T-ATTAT
1 TAATTAT
35070183 GTATAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.07
25 18 0.67
26 7 0.26
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (27 bp):
TAATTATTCATTTCTAAATAATTTTAA
Found at i:35070869 original size:31 final size:31
Alignment explanation
Indices: 35070834--35070896 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
35070824 CAATAGTGAG
* *
35070834 AATGATTTGTTGATACGATGATAGACTTACA
1 AATGATTTGTTGATACGACGACAGACTTACA
35070865 AATGATTTGTTGATACGACGACAGACTTACA
1 AATGATTTGTTGATACGACGACAGACTTACA
35070896 A
1 A
35070897 GTTGTCAGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (31 bp):
AATGATTTGTTGATACGACGACAGACTTACA
Found at i:35075379 original size:49 final size:49
Alignment explanation
Indices: 35075324--35075484 Score: 179
Period size: 49 Copynumber: 3.4 Consensus size: 49
35075314 GAAGTCGAGC
*
35075324 CCCAGACAGGTCTTACACTGACTTTCATATATCGAGGTCGATGCCATGT
1 CCCAGACAGGTCTTACACTGACTTTCATATATCAAGGTCGATGCCATGT
* * * * *
35075373 CCCAGACAGATCTTACACTGGCTCTCATCTATCAATGTCGATGCCATGT
1 CCCAGACAGGTCTTACACTGACTTTCATATATCAAGGTCGATGCCATGT
** * * * *
35075422 CGTAGACAGGTCTTACACTGAC--ACACA-A-CAAGCT-GACGCCATGT
1 CCCAGACAGGTCTTACACTGACTTTCATATATCAAGGTCGATGCCATGT
35075466 CCCAGACAGGTCTTACACT
1 CCCAGACAGGTCTTACACT
35075485 AGCTTGTATA
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
44 26 0.28
45 4 0.04
46 1 0.01
47 2 0.02
49 61 0.65
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.25
Consensus pattern (49 bp):
CCCAGACAGGTCTTACACTGACTTTCATATATCAAGGTCGATGCCATGT
Found at i:35075574 original size:46 final size:46
Alignment explanation
Indices: 35075461--35075587 Score: 146
Period size: 46 Copynumber: 2.7 Consensus size: 46
35075451 AAGCTGACGC
* * * *
35075461 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-T-CACATCCCAAGGCCGATG
* * * * *
35075509 CATGTCCCAAACATTTCTTACACTAGCTCACGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCACATCCCAAGGCCGATG
*
35075555 CATGTCCCAGACATGTCTTACACTGGCTCACAT
1 CATGTCCCAGACATGTCTTACACTAGCTCACAT
35075588 ACCACCCAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
46 41 0.62
47 1 0.02
48 24 0.36
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCACATCCCAAGGCCGATG
Found at i:35084360 original size:17 final size:18
Alignment explanation
Indices: 35084335--35084383 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
35084325 AAATAATTTA
*
35084335 ATAATTTTCAT-TTCTAT
1 ATAAATTTCATATTCTAT
* *
35084352 ATAAATTTCATATTTTGT
1 ATAAATTTCATATTCTAT
35084370 ATAAATTTCGATAT
1 ATAAATTTC-ATAT
35084384 GATTATAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 10 0.37
18 13 0.48
19 4 0.15
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (18 bp):
ATAAATTTCATATTCTAT
Found at i:35093711 original size:29 final size:28
Alignment explanation
Indices: 35093673--35093731 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
35093663 ATTTAAAGTT
* *
35093673 ATAATTAAAATCATAATCAATAACTTATA
1 ATAATCAAAATCAAAATCAATAAC-TATA
* *
35093702 ATAATCAAAATCAAAATTAATTACTATA
1 ATAATCAAAATCAAAATCAATAACTATA
35093730 AT
1 AT
35093732 TATCCTGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (28 bp):
ATAATCAAAATCAAAATCAATAACTATA
Found at i:35097073 original size:41 final size:40
Alignment explanation
Indices: 35096978--35097080 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 40
35096968 GCCAATTTTC
* *
35096978 GAAAATGCTTCCACTTGAAAGTGTTTTCAGGTGAAATGCA
1 GAAAATGCTTCCACCTGGAAGTGTTTTCAGGTGAAATGCA
* * **
35097018 GAAAAGTGCATCCACGTGGAAGTGTTTTCAGCGT-ATGTGCAA
1 GAAAA-TGCTTCCACCTGGAAGTGTTTTCAG-GTGAAATGC-A
*
35097060 GAAAACGCTTCCACCTGGAAG
1 GAAAATGCTTCCACCTGGAAG
35097081 CATTTTTTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 5 0.10
41 39 0.75
42 8 0.15
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (40 bp):
GAAAATGCTTCCACCTGGAAGTGTTTTCAGGTGAAATGCA
Found at i:35097225 original size:24 final size:25
Alignment explanation
Indices: 35097193--35097250 Score: 100
Period size: 24 Copynumber: 2.3 Consensus size: 25
35097183 GGTTTAGGGT
35097193 TTTTTTTAGATTTTAAGGCTTAGG-
1 TTTTTTTAGATTTTAAGGCTTAGGA
35097217 TTTTTTTAGATTTTAAGGCTTAGGA
1 TTTTTTTAGATTTTAAGGCTTAGGA
35097242 TTTATTTTA
1 TTT-TTTTA
35097251 TATATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 24 0.75
25 3 0.09
26 5 0.16
ACGTcount: A:0.22, C:0.03, G:0.17, T:0.57
Consensus pattern (25 bp):
TTTTTTTAGATTTTAAGGCTTAGGA
Found at i:35111710 original size:53 final size:53
Alignment explanation
Indices: 35111621--35111726 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
35111611 ATAGAAAGTA
* * *
35111621 TGCTCTTGATTTTATTGATATCTTGTGGAGTTTGATTGTTGACATTTGTTTGT
1 TGCTCTTGATTTCATTGATATCTTGTGAAGTCTGATTGTTGACATTTGTTTGT
*
35111674 TGCTTTTGATTTCATTGATATCTTGTGAAGTCTGATTGTTGACATTTGTTTGT
1 TGCTCTTGATTTCATTGATATCTTGTGAAGTCTGATTGTTGACATTTGTTTGT
35111727 GTATGCATGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.16, C:0.08, G:0.22, T:0.54
Consensus pattern (53 bp):
TGCTCTTGATTTCATTGATATCTTGTGAAGTCTGATTGTTGACATTTGTTTGT
Found at i:35113765 original size:30 final size:30
Alignment explanation
Indices: 35113739--35113826 Score: 113
Period size: 30 Copynumber: 2.9 Consensus size: 30
35113729 GACACACAGT
*
35113739 TGTGTTGCCTGGGTGTGTGCCACACACGAC
1 TGTGTTGCCTGGGCGTGTGCCACACACGAC
* * *
35113769 TATGTTGCCTGGGCATGTGTCACACACGAC
1 TGTGTTGCCTGGGCGTGTGCCACACACGAC
* * *
35113799 TGTATTGCCTGGGCGTGTGTCAAACACG
1 TGTGTTGCCTGGGCGTGTGCCACACACG
35113827 GCTGAGACAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.27
Consensus pattern (30 bp):
TGTGTTGCCTGGGCGTGTGCCACACACGAC
Found at i:35119219 original size:23 final size:22
Alignment explanation
Indices: 35119177--35119226 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
35119167 AAGGAAAAGA
*
35119177 AGAAAAAAAAAAGAAGAAAATG
1 AGAAAAAAAAAAGAACAAAATG
*
35119199 AGAAAAAAAAAGGGAACAAAATG
1 AGAAAAAAAAA-AGAACAAAATG
*
35119222 TGAAA
1 AGAAA
35119227 CCAAGAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.06
Consensus pattern (22 bp):
AGAAAAAAAAAAGAACAAAATG
Found at i:35125899 original size:15 final size:15
Alignment explanation
Indices: 35125881--35125914 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
35125871 TTTCTCAATC
35125881 TTGGATCTCTTTATT
1 TTGGATCTCTTTATT
*
35125896 TTGGATCTTTTTATT
1 TTGGATCTCTTTATT
35125911 TTGG
1 TTGG
35125915 GCTTCTCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.62
Consensus pattern (15 bp):
TTGGATCTCTTTATT
Found at i:35125935 original size:15 final size:15
Alignment explanation
Indices: 35125861--35125935 Score: 53
Period size: 15 Copynumber: 5.0 Consensus size: 15
35125851 ATATGGTATC
*
35125861 CTATCTTGGATTTCT
1 CTATTTTGGATTTCT
* * *
35125876 CAATCTTGGATCTCT
1 CTATTTTGGATTTCT
*
35125891 TTATTTTGGATCTT-T
1 CTATTTTGGAT-TTCT
* **
35125906 TTATTTTGGGCTTCT
1 CTATTTTGGATTTCT
*
35125921 CCATTTTGGATTTCT
1 CTATTTTGGATTTCT
35125936 TTATCTTCGT
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
14 2 0.04
15 43 0.93
16 1 0.02
ACGTcount: A:0.13, C:0.17, G:0.15, T:0.55
Consensus pattern (15 bp):
CTATTTTGGATTTCT
Found at i:35128450 original size:46 final size:46
Alignment explanation
Indices: 35128397--35128572 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
35128387 TATTTGGGCA
*
35128397 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
35128443 TCCGAACTCATTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* *
35128490 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
35128536 CCCGAGCTCGTTGAGTTGAGCCCGAGTTCGCTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
35128573 GCTGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 4 0.04
43 5 0.05
45 2 0.02
46 61 0.56
47 25 0.23
48 2 0.02
50 6 0.06
51 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:35128510 original size:93 final size:93
Alignment explanation
Indices: 35128393--35128563 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
35128383 CAGATATTTG
* *
35128393 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
*
35128458 TTGAGTCCGAGTTTGTGAGATGTAACTA
66 TTGAGCCCGAGTTTGTGAGATGTAACTA
* * * *
35128486 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
35128551 TTGAGCCCGAGTT
66 TTGAGCCCGAGTT
35128564 CGCTTATGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
TTGAGCCCGAGTTTGTGAGATGTAACTA
Found at i:35131034 original size:48 final size:46
Alignment explanation
Indices: 35130915--35131040 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
35130905 TGATATGTGT
* *
35130915 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGA
* * *
35130961 GCCAGTGTAAGGCATGTCTGGGACATGCATCGGCCTCAAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-ATATG-AGA
* * *
35131009 GCTAGTATAAGACCTGTCTGAGACATGGCATC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATC
35131041 AGCTTGTTGT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
46 33 0.50
47 1 0.02
48 26 0.39
49 6 0.09
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGA
Found at i:35133446 original size:23 final size:21
Alignment explanation
Indices: 35133406--35133453 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
35133396 TATTAAGGTT
*
35133406 TTGAGAGTTTTCATTGTTGAGAA
1 TTGAAAGTTTTCATTGTT-A-AA
35133429 TTGAAAGTTTT-ATGTGTTAAA
1 TTGAAAGTTTTCAT-TGTTAAA
35133450 TTGA
1 TTGA
35133454 TAAAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 6 0.26
22 3 0.13
23 14 0.61
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.46
Consensus pattern (21 bp):
TTGAAAGTTTTCATTGTTAAA
Found at i:35135718 original size:42 final size:42
Alignment explanation
Indices: 35135657--35135739 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
35135647 TATGAATTAT
*
35135657 TGTGTCTGTGAGTCCGTTAGCGAATTGTGTGCATTCCTGCAC
1 TGTGTCTGTGAGTCCGTTAGCGAACTGTGTGCATTCCTGCAC
*
35135699 TGTGTCTGTGAGTCTGTTAGCGAACTGTGTGCATTCCTGCA
1 TGTGTCTGTGAGTCCGTTAGCGAACTGTGTGCATTCCTGCA
35135740 TTTGCATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.14, C:0.20, G:0.29, T:0.36
Consensus pattern (42 bp):
TGTGTCTGTGAGTCCGTTAGCGAACTGTGTGCATTCCTGCAC
Found at i:35136471 original size:35 final size:35
Alignment explanation
Indices: 35136432--35136502 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
35136422 TGGTTGGTTT
*
35136432 TAAGATTATTTCTAAGTCGATTATACAAACTGTGG
1 TAAGATTATTTCTAAGGCGATTATACAAACTGTGG
*
35136467 TAAGATTATTTGTAAGGCGATTATACAAACTGTGG
1 TAAGATTATTTCTAAGGCGATTATACAAACTGTGG
35136502 T
1 T
35136503 TTTTGGATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (35 bp):
TAAGATTATTTCTAAGGCGATTATACAAACTGTGG
Found at i:35140361 original size:49 final size:49
Alignment explanation
Indices: 35140214--35140387 Score: 144
Period size: 49 Copynumber: 3.6 Consensus size: 49
35140204 AAATGCCGAC
* * * * *
35140214 GCCATATCCCAGACATGGTCTTACACTGGCTAGCACAT-TA-A-AGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACT-TCATATATATAGGGTCGAT
** *
35140262 GCTGTGTCCCAGACAGGTCTTACACTGACTTTCATATATATAGGCT-GAT
1 GCCATGTCCCAGACAGGTCTTACACTGAC-TTCATATATATAGGGTCGAT
* * * * *
35140311 GCCATGTCCTAGACAGGTCTTACACTGGC-TCTTATCTATCGGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTCATATATATAGG-GTCGAT
*
35140360 GCCATGTCCCA-ACAAGTCTTACACTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGAC
35140388 ACACAACAAG
Statistics
Matches: 101, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
47 27 0.27
48 31 0.31
49 42 0.42
50 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTTCATATATATAGGGTCGAT
Found at i:35140452 original size:92 final size:91
Alignment explanation
Indices: 35140309--35140476 Score: 198
Period size: 92 Copynumber: 1.8 Consensus size: 91
35140299 ATATAGGCTG
* * *
35140309 ATGCCATGTCCTAGACAGGTCTTACACTGGCTCTTATCTATCGGTGTCGATGCCATGTCCCA-AC
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTCTTA-CTATCGGTGCCGATG-CATGTCCCAGAC
35140373 AAGTCTTACACTGACACACAACAAGCTA
64 AAGTCTTACACTGACACACAACAAGCTA
* * * *
35140401 ATGCCATGTCCCAGATAGGTCTTACACTAGCT-TGTA-TATCCTGTGGCCGATGGATGTCTCAGA
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-TACTAT-CGGT-GCCGATGCATGTCCCAGA
*
35140464 CATGTCTTACACT
63 CAAGTCTTACACT
35140477 AGCTCGATGC
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
90 3 0.05
91 11 0.17
92 50 0.78
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (91 bp):
ATGCCATGTCCCAGACAGGTCTTACACTAGCTCTTACTATCGGTGCCGATGCATGTCCCAGACAA
GTCTTACACTGACACACAACAAGCTA
Found at i:35142730 original size:23 final size:23
Alignment explanation
Indices: 35142687--35142730 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
35142677 AATATGGACT
*
35142687 AAATATAATTATGTCACAATAGA
1 AAATATAATTATATCACAATAGA
*
35142710 AAATA-AATTCATATCATAATA
1 AAATATAATT-ATATCACAATA
35142731 TTTATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.32
Consensus pattern (23 bp):
AAATATAATTATATCACAATAGA
Found at i:35144248 original size:25 final size:25
Alignment explanation
Indices: 35144220--35144276 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
35144210 TTTTTACACA
35144220 TATTTAAATTTATTATTAATTATTC
1 TATTTAAATTTATTATTAATTATTC
35144245 TATTTAAATTTATTATTAATTATTC
1 TATTTAAATTTATTATTAATTATTC
35144270 TATTTAA
1 TATTTAA
35144277 TTTGTTGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTAAATTTATTATTAATTATTC
Found at i:35145453 original size:9 final size:9
Alignment explanation
Indices: 35145440--35145478 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
35145430 AATGTAAAAT
35145440 ATTATTCGA
1 ATTATTCGA
* *
35145449 TTTATTCAA
1 ATTATTCGA
35145458 ATTATTCGA
1 ATTATTCGA
*
35145467 GTTATTCGA
1 ATTATTCGA
35145476 ATT
1 ATT
35145479 CGAAAATTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (9 bp):
ATTATTCGA
Found at i:35145463 original size:18 final size:18
Alignment explanation
Indices: 35145440--35145478 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
35145430 AATGTAAAAT
*
35145440 ATTATTCGATTTATTCAA
1 ATTATTCGAGTTATTCAA
*
35145458 ATTATTCGAGTTATTCGA
1 ATTATTCGAGTTATTCAA
35145476 ATT
1 ATT
35145479 CGAAAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (18 bp):
ATTATTCGAGTTATTCAA
Found at i:35146475 original size:126 final size:130
Alignment explanation
Indices: 35146243--35146562 Score: 407
Period size: 126 Copynumber: 2.4 Consensus size: 130
35146233 AATTTTGAAT
* *
35146243 TCAAATAGTTCCAAAATGATTTGGCACTTGAAAGATGGAAATAAATTTGAAAGTAGTTCGATTAA
1 TCAAATAGTTCCAAAATGATTTGGCACTTGAAAGATGGAAATAAACTT-AAAGTAGTTCAATTAA
* * * * *
35146308 GTTTACAAGCAACACAATAGTTTGCAAATACATAATATATTTCACTGCC-T-TG-TTGAAG-T-A
65 ATTTACAAGCAACACAATAGTCTACAAATACATAATATATTTCACTGCCTTATGAGTAAAGTTGA
35146368 C
130 C
* * *
35146369 TCAAATAGTTCCAAAATGATTTGACACTTGAAAAATAGAAATAAACTTAACAGTAGTTCAATTAA
1 TCAAATAGTTCCAAAATGATTTGGCACTTGAAAGATGGAAATAAACTTAA-AGTAGTTCAATTAA
* * *
35146434 ATTTACAAGCAACACAATAGTCTACAAATACATGATTTATTTCTCTGCCTTACTGAAGTAAAGTC
65 ATTTACAAGCAACACAATAGTCTACAAATACATAATATATTTCACTGCCTTA-TG-AGTAAAG--
35146499 TTGGAC
126 TT-GAC
*
35146505 TCAAATAGTTTCAAAATGATTTGGCACTTGAAAGATGGAAATAAACTTAAAAGTAGTT
1 TCAAATAGTTCCAAAATGATTTGGCACTTGAAAGATGGAAATAAACTT-AAAGTAGTT
35146563 GGATTAAGTT
Statistics
Matches: 165, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
125 2 0.01
126 100 0.61
127 1 0.01
129 2 0.01
131 4 0.02
134 1 0.01
136 53 0.32
137 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (130 bp):
TCAAATAGTTCCAAAATGATTTGGCACTTGAAAGATGGAAATAAACTTAAAGTAGTTCAATTAAA
TTTACAAGCAACACAATAGTCTACAAATACATAATATATTTCACTGCCTTATGAGTAAAGTTGAC
Found at i:35149798 original size:139 final size:140
Alignment explanation
Indices: 35149622--35149908 Score: 350
Period size: 139 Copynumber: 2.1 Consensus size: 140
35149612 TAATTCTATG
* * ** **
35149622 TTAAATAAAATTATTTGATTAAACAATATTTAAAAGATAT-AATCAATATT-TGAAATATACTTA
1 TTAAATAAAATTATTTGATAAAAAAATATTTAAAAGATATAAAT-AA-ATTAAAAAATATAAATA
* * * * * * *
35149685 AGTTTTTGAAATATAATATACTAGTTTTTTAT-CTCGTGTGTTGTACGGGTTGCTTGTGTGTTTT
64 AGTGTTCGAAATATAATATACTAGTTTTTTATCCT-ATGTGATGTACGGATTGCTCGTATGTTTT
35149749 ATAAAA-TCATTAT
128 ATAAAACT-ATTAT
35149762 TTAAATAAAATTA-TTGATAAAAAAATATTTAAAAGATATAAATAAATTAAAAAATATAAATAAG
1 TTAAATAAAATTATTTGATAAAAAAATATTTAAAAGATATAAATAAATTAAAAAATATAAATAAG
** *
35149826 TGTTCGAAATATAATATGGTAGTTTTTTATCCTATGTGATGTATGGATTGCTCGTATGTTTTATA
66 TGTTCGAAATATAATATACTAGTTTTTTATCCTATGTGATGTACGGATTGCTCGTATGTTTTATA
*
35149891 AAACTGTTAT
131 AAACTATTAT
35149901 TTAAATAA
1 TTAAATAA
35149909 CGATATATTA
Statistics
Matches: 126, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
138 3 0.02
139 104 0.83
140 19 0.15
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (140 bp):
TTAAATAAAATTATTTGATAAAAAAATATTTAAAAGATATAAATAAATTAAAAAATATAAATAAG
TGTTCGAAATATAATATACTAGTTTTTTATCCTATGTGATGTACGGATTGCTCGTATGTTTTATA
AAACTATTAT
Found at i:35149813 original size:18 final size:18
Alignment explanation
Indices: 35149790--35149824 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35149780 AAAAAAATAT
*
35149790 TTAAAAGATATAAATAAA
1 TTAAAAAATATAAATAAA
35149808 TTAAAAAATATAAATAA
1 TTAAAAAATATAAATAA
35149825 GTGTTCGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
TTAAAAAATATAAATAAA
Found at i:35151049 original size:28 final size:28
Alignment explanation
Indices: 35151018--35151072 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
35151008 GTTTAAGGTC
* *
35151018 TAAAATTA-AATTTTATTTTTTATAATAA
1 TAAAAATATAATTTTATTATTTA-AATAA
*
35151046 TAAAAATATCATTTTATTATTTAAATA
1 TAAAAATATAATTTTATTATTTAAATA
35151073 GTTTATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TAAAAATATAATTTTATTATTTAAATAA
Done.