Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 160 of 172
Found at i:46986950 original size:19 final size:19
Alignment explanation
Indices: 46986910--46986950 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
46986900 TAAAATTCTT
*
46986910 AAATTTTATTAAAAACTAA
1 AAATTTTATTAAAAACCAA
46986929 AAATTTTA-TAAAAACCATA
1 AAATTTTATTAAAAACCA-A
46986948 AAA
1 AAA
46986951 ATAATAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATTTTATTAAAAACCAA
Found at i:46987227 original size:29 final size:30
Alignment explanation
Indices: 46987195--46987266 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 30
46987185 AAAATTATAT
*
46987195 TTTTTTAATTTTCTTACGA-CTTTATAAAA
1 TTTTATAATTTTCTTACGATCTTTATAAAA
* *
46987224 TTTTATAATTTT-TTACTATTTTTATAAAA
1 TTTTATAATTTTCTTACGATCTTTATAAAA
* *
46987253 ATTTAAAATTTTCT
1 TTTTATAATTTTCT
46987267 ATAATTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.14
29 30 0.83
30 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTTATAATTTTCTTACGATCTTTATAAAA
Found at i:46987248 original size:19 final size:19
Alignment explanation
Indices: 46987224--46987331 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 19
46987214 CTTTATAAAA
46987224 TTTTATAATTTTTTACTAT
1 TTTTATAATTTTTTACTAT
*** **
46987243 TTTTATAAAAATTTAAAAT
1 TTTTATAATTTTTTACTAT
* *
46987262 TTTCTATAATTTTTTACGAG
1 TTT-TATAATTTTTTACTAT
46987282 TTTTAT-ATTTTTT-CTAAT
1 TTTTATAATTTTTTACT-AT
*
46987300 TTGTATATATTTTTATTAC-AT
1 TT-T-TATAATTTT-TTACTAT
46987321 TTTTATAATTT
1 TTTTATAATTT
46987332 CTATTGATTT
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
17 1 0.01
18 10 0.15
19 28 0.42
20 17 0.25
21 8 0.12
22 2 0.03
23 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTACTAT
Found at i:46987273 original size:29 final size:29
Alignment explanation
Indices: 46987215--46987275 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
46987205 TTCTTACGAC
* * *
46987215 TTTATAAAATTTTATAATTTTTTACTATT
1 TTTATAAAAATTTAAAATTTTCTACTATT
46987244 TTTATAAAAATTTAAAATTTTCTA-TAATT
1 TTTATAAAAATTTAAAATTTTCTACT-ATT
46987273 TTT
1 TTT
46987276 TACGAGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTATAAAAATTTAAAATTTTCTACTATT
Found at i:46987324 original size:30 final size:30
Alignment explanation
Indices: 46987290--46987346 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46987280 AGTTTTATAT
* *
46987290 TTTTTCTAATTTGTATAT-ATTTTTATTACA
1 TTTTTATAATTTCTAT-TGATTTTTATTACA
46987320 TTTTTATAATTTCTATTGATTTTTATT
1 TTTTTATAATTTCTATTGATTTTTATT
46987347 TTTTATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.67
Consensus pattern (30 bp):
TTTTTATAATTTCTATTGATTTTTATTACA
Found at i:46988155 original size:19 final size:18
Alignment explanation
Indices: 46988124--46988168 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
46988114 TTATGATTTT
* *
46988124 TTTTATATTTTATCAGTA
1 TTTTATATATTATCAATA
*
46988142 TTTTATATAATTATGAATA
1 TTTTATAT-ATTATCAATA
46988161 TTTTATAT
1 TTTTATAT
46988169 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (18 bp):
TTTTATATATTATCAATA
Found at i:46988234 original size:43 final size:43
Alignment explanation
Indices: 46988174--46988255 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
46988164 TATATTTAAA
*
46988174 ATTTATATAATCTTATTCATTTCATATTTATAAATATTTTTTT
1 ATTTATATAATCATATTCATTTCATATTTATAAATATTTTTTT
* * *
46988217 ATTTATATAAAT-ATATTCTTTTGATATTTGTAAATATTT
1 ATTTATAT-AATCATATTCATTTCATATTTATAAATATTT
46988256 GTTACGAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 31 0.91
44 3 0.09
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (43 bp):
ATTTATATAATCATATTCATTTCATATTTATAAATATTTTTTT
Found at i:46991035 original size:44 final size:44
Alignment explanation
Indices: 46990941--46991035 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
46990931 TAGTGTATTC
* *
46990941 TTTGA-TTCAGTATGTAAACATGTAATAACTGGTGAAGCCAATG
1 TTTGAGTTCAGTATGTAAACATGTAAGAACTGGCGAAGCCAATG
* * * * *
46990984 TTCGAGTTCTGTATTTAAACATGTAAGAACTGGCGAAGGCAATT
1 TTTGAGTTCAGTATGTAAACATGTAAGAACTGGCGAAGCCAATG
46991028 TTTGAGTT
1 TTTGAGTT
46991036 GAGAGAGAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 4 0.09
44 39 0.91
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.35
Consensus pattern (44 bp):
TTTGAGTTCAGTATGTAAACATGTAAGAACTGGCGAAGCCAATG
Found at i:47000642 original size:7 final size:7
Alignment explanation
Indices: 47000622--47000666 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
47000612 AATAGAAATA
47000622 AAAACCC
1 AAAACCC
47000629 TAAAACCC
1 -AAAACCC
47000637 AAAACCC
1 AAAACCC
47000644 AAAACCC
1 AAAACCC
47000651 AAAACCAC
1 AAAACC-C
*
47000659 TAAACCC
1 AAAACCC
47000666 A
1 A
47000667 CCTACCCCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 21 0.62
8 13 0.38
ACGTcount: A:0.56, C:0.40, G:0.00, T:0.04
Consensus pattern (7 bp):
AAAACCC
Found at i:47000642 original size:15 final size:15
Alignment explanation
Indices: 47000622--47000666 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
47000612 AATAGAAATA
47000622 AAAACCCTAAAACCC
1 AAAACCCTAAAACCC
47000637 AAAACCC-AAAACCC
1 AAAACCCTAAAACCC
47000651 AAAACCACT-AAACCC
1 AAAACC-CTAAAACCC
47000666 A
1 A
47000667 CCTACCCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.56, C:0.40, G:0.00, T:0.04
Consensus pattern (15 bp):
AAAACCCTAAAACCC
Found at i:47000828 original size:24 final size:25
Alignment explanation
Indices: 47000791--47000837 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
47000781 GCCAACATTG
47000791 GCCCAAAGAGAAAA-AAAAGAAAGA
1 GCCCAAAGAGAAAAGAAAAGAAAGA
47000815 GCCCAAA-AGAAAAAGAAAAGAAA
1 GCCCAAAGAG-AAAAGAAAAGAAA
47000838 AGGCCCGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 2 0.10
24 11 0.52
25 8 0.38
ACGTcount: A:0.68, C:0.13, G:0.19, T:0.00
Consensus pattern (25 bp):
GCCCAAAGAGAAAAGAAAAGAAAGA
Found at i:47000843 original size:25 final size:23
Alignment explanation
Indices: 47000790--47000843 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 23
47000780 GGCCAACATT
47000790 GGCCCAAAGAGAAAAAAAAGAAA
1 GGCCCAAAGAGAAAAAAAAGAAA
47000813 GAGCCCAAA-AGAAAAAGAAAAGAAAA
1 G-GCCCAAAGAG-AAAA-AAAAG-AAA
47000839 GGCCC
1 GGCCC
47000844 GAACCGGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 3 0.11
24 11 0.41
25 9 0.33
26 4 0.15
ACGTcount: A:0.61, C:0.17, G:0.22, T:0.00
Consensus pattern (23 bp):
GGCCCAAAGAGAAAAAAAAGAAA
Found at i:47000875 original size:15 final size:15
Alignment explanation
Indices: 47000855--47000888 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
47000845 AACCGGCTAG
*
47000855 AAAAAATAAATAAAT
1 AAAAAACAAATAAAT
47000870 AAAAAACAAATAAAT
1 AAAAAACAAATAAAT
47000885 AAAA
1 AAAA
47000889 CACCAAAACC
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:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAAACAAATAAAT
Found at i:47001268 original size:9 final size:9
Alignment explanation
Indices: 47001254--47001333 Score: 106
Period size: 9 Copynumber: 8.9 Consensus size: 9
47001244 TAGTTAAAAA
47001254 TTAACCGAT
1 TTAACCGAT
*
47001263 TTAACCGAC
1 TTAACCGAT
47001272 TTAACCGAT
1 TTAACCGAT
*
47001281 TTAACCAAT
1 TTAACCGAT
*
47001290 TTAACCGAC
1 TTAACCGAT
*
47001299 TTAATCGAT
1 TTAACCGAT
*
47001308 TTAATCGAT
1 TTAACCGAT
*
47001317 TTAACCAAT
1 TTAACCGAT
47001326 TTAACCGA
1 TTAACCGA
47001334 ATTGAAGCAC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 61 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.33
Consensus pattern (9 bp):
TTAACCGAT
Found at i:47001366 original size:17 final size:17
Alignment explanation
Indices: 47001344--47001404 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
47001334 ATTGAAGCAC
47001344 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
47001361 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
47001381 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
47001398 TACATAA
1 TACATAA
47001405 GTCTTAAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:47001385 original size:37 final size:37
Alignment explanation
Indices: 47001335--47001409 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
47001325 TTTAACCGAA
47001335 TTGAAGCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAAGCACTACATAATTAAAAACATTACATAAGTCT
*
47001372 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAAGCACTACATAATTAAAAACATTACATAAGTCT
47001409 T
1 T
47001410 AAAATTAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (37 bp):
TTGAAGCACTACATAATTAAAAACATTACATAAGTCT
Found at i:47001413 original size:20 final size:20
Alignment explanation
Indices: 47001351--47001413 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
47001341 CACTACATAA
47001351 TTAAAAACATTACATAAGTC
1 TTAAAAACATTACATAAGTC
** * *
47001371 TTTGAATCACTACATAA---
1 TTAAAAACATTACATAAGTC
47001388 TTAAAAACATTACATAAGTC
1 TTAAAAACATTACATAAGTC
47001408 TTAAAA
1 TTAAAA
47001414 TTAACACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 13 0.41
20 19 0.59
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (20 bp):
TTAAAAACATTACATAAGTC
Found at i:47001423 original size:37 final size:37
Alignment explanation
Indices: 47001342--47001430 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 37
47001332 GAATTGAAGC
** *
47001342 ACTACATAATTAAAAACATTACATAAGTCTTTGAATC
1 ACTACATAATTAAAAACATTACATAAGTCTTAAAATA
47001379 ACTACATAATTAAAAACATTACATAAGTCTTAAAATTA
1 ACTACATAATTAAAAACATTACATAAGTCTTAAAA-TA
47001417 AC-ACATAATTAAAA
1 ACTACATAATTAAAA
47001431 TGTAAGTCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
37 45 0.94
38 3 0.06
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (37 bp):
ACTACATAATTAAAAACATTACATAAGTCTTAAAATA
Found at i:47005558 original size:27 final size:28
Alignment explanation
Indices: 47005518--47005598 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 28
47005508 ATTTTACCTG
*
47005518 CAGGAGAAACAATAAAATTGG-AGCCTA
1 CAGGAGAAAAAATAAAATTGGCAGCCTA
47005545 CAGGAGAAAAAATAAAATTGGGCTTGCAGCCTA
1 CAGGAGAAAAAATAAAATT--G---GCAGCCTA
*
47005578 CAAGAGAAAAAATAAAATTGG
1 CAGGAGAAAAAATAAAATTGG
47005599 GCTGGCAGGC
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
27 18 0.39
28 1 0.02
29 1 0.02
31 1 0.02
32 1 0.02
33 24 0.52
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.16
Consensus pattern (28 bp):
CAGGAGAAAAAATAAAATTGGCAGCCTA
Found at i:47005585 original size:33 final size:33
Alignment explanation
Indices: 47005539--47005606 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
47005529 ATAAAATTGG
* *
47005539 AGCCTACAGGAGAAAAAATAAAATTGGGCTTGC
1 AGCCTACAAGAGAAAAAATAAAATTGGGCTGGC
47005572 AGCCTACAAGAGAAAAAATAAAATTGGGCTGGC
1 AGCCTACAAGAGAAAAAATAAAATTGGGCTGGC
47005605 AG
1 AG
47005607 GCTGGGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.16
Consensus pattern (33 bp):
AGCCTACAAGAGAAAAAATAAAATTGGGCTGGC
Found at i:47008548 original size:16 final size:17
Alignment explanation
Indices: 47008516--47008550 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
47008506 AATTTAGTTG
47008516 AAGTATAAACGATGTAT
1 AAGTATAAACGATGTAT
*
47008533 AAGTATATAC-ATGTAT
1 AAGTATAAACGATGTAT
47008549 AA
1 AA
47008551 ATTATTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (17 bp):
AAGTATAAACGATGTAT
Found at i:47009351 original size:40 final size:41
Alignment explanation
Indices: 47009194--47009354 Score: 186
Period size: 41 Copynumber: 4.0 Consensus size: 41
47009184 TGAAAATAAG
* * *
47009194 ATGTTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTG-A
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTATGCCGGTGAA
47009234 AT-TACTTCAGACTTTATGTCTAGCAGGC-TTAGTGCCGGTGAA
1 ATGTA--TCAGACTTTATGTCTAGCAGGCTTTA-TGCCGGTGAA
* *
47009276 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGGA
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTATGCCGGTGAA
* * * *
47009317 ATGTATCGGTCTTTGTTTC-AGCAGGCTTTATGCCGGTG
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTATGCCGGTG
47009355 TTTTATACAA
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
39 1 0.01
40 22 0.21
41 75 0.71
42 5 0.05
43 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (41 bp):
ATGTATCAGACTTTATGTCTAGCAGGCTTTATGCCGGTGAA
Found at i:47015574 original size:648 final size:647
Alignment explanation
Indices: 47014091--47016034 Score: 3789
Period size: 647 Copynumber: 3.0 Consensus size: 647
47014081 TTTGAGTGTG
47014091 GCGTTCACCCTTCATATTGTCTGGTTCCTATCTTGCTAGATAGTGGGTCACGATTCTATCCAACT
1 GCGTTCACCCTTCATATTGTCTGGTTCCTATCTTGCTAGATAGTGGGTCACGATTCTATCCAACT
47014156 ATCCACCATCCACCTTAAAACTTATAAGAATCGAGTCCTTAATCTTTATTAAGGGTTCATTCTTG
66 ATCCACCATCCACCTTAAAACTTATAAGAATCGAGTCCTTAATCTTTATTAAGGGTTCATTCTTG
47014221 TTTTAAGTTCACAATCCATATTTTTCATCAACTTATTTTCTAAACAAACTCTTTTTTTTTCAACC
131 TTTTAAGTTCACAATCCATATTTTTCATCAACTTATTTTCTAAACAAACTCTTTTTTTTTCAACC
* *
47014286 ATCAGCTTTTAAAATAGCCATTTTGTTTAACTTTAGTTTCAATACTTAATTTAACAATCAGGTAA
196 ATCAGCTTCTAAAATAGCCATTTTGTTTAACTTTAGTTTCAATACTTAATTTAACAATCGGGTAA
*
47014351 CTTTACGACTCAATTTCGACAACAAAAGCAAGTTCGTATATACTTTGATGCTCAAGATGTTTATT
261 CTTTACGACTCAATTTCGACAACAAAAGCAAGTTCGTATCTACTTTGATGCTCAAGATGTTTATT
47014416 GTACTTTAACTCATTCTAGAAATCAATGTTATAATCCAAAGACCTCTAAGGATTGTTGGTGCGTG
326 GTACTTTAACTCATTCTAGAAATCAATGTTATAATCCAAAGACCTCTAAGGATTGTTGGTGCGTG
47014481 AACCCGCTTTGAGATATATTCATCGATTTTTAATTTTTAGTTTTTCAGGACGAAATAATTAGTCA
391 AACCCGCTTTGAGATATATTCATCGATTTTTAATTTTTAGTTTTTCAGGACGAAATAATTAGTCA
47014546 TCTATTTTAAATAAAATTGAATTTTTTTTTGTGGTGTATGCATTCTGGATTTAAAATTAATTTAG
456 TCTATTTTAAATAAAATTGAA-TTTTTTTTGTGGTGTATGCATTCTGGATTTAAAATTAATTTAG
47014611 GATATTGGTTTGCATTGAACTTTCATGCTATTTTACGCTCTAATCGACCACTAATACTTGGCCCT
520 GATATTGGTTTGCATTGAACTTTCATGCTATTTTACGCTCTAATCGACCACTAATACTTGGCCCT
47014676 TATATTACAAACTTAACCTTTCAACTTTTTCCCTCTGAAGTCGATTTCTCATCCTCAATGTTT
585 TATATTACAAACTTAACCTTTCAACTTTTTCCCTCTGAAGTCGATTTCTCATCCTCAATGTTT
47014739 GCGTTCACCCTTCATATTGTCTGGTTCCTATCTTGCTAGATAGTGGGTCACGATTCTATCCAACT
1 GCGTTCACCCTTCATATTGTCTGGTTCCTATCTTGCTAGATAGTGGGTCACGATTCTATCCAACT
47014804 ATCCACCATCCACCTTAAAACTTATAAGAATCGAGTCCTTAATCTTTATTAAGGGTTCATTCTTG
66 ATCCACCATCCACCTTAAAACTTATAAGAATCGAGTCCTTAATCTTTATTAAGGGTTCATTCTTG
47014869 TTTTAAGTTCACAATCCATATTTTTCATCAACTTATTTTCTAAACAAACTCTTTTTTTTTCAACC
131 TTTTAAGTTCACAATCCATATTTTTCATCAACTTATTTTCTAAACAAACTCTTTTTTTTTCAACC
47014934 ATCAGCTTCTAAAATAGCCATTTTGTTTAACTTTAGTTTCAATACTTAATTTAACAATCGGGTAA
196 ATCAGCTTCTAAAATAGCCATTTTGTTTAACTTTAGTTTCAATACTTAATTTAACAATCGGGTAA
47014999 CTTTACGACTCAATTTCGACAACAAAAGCAAGTTCGTATCTACTTTGATGCTCAAGATGTTTATT
261 CTTTACGACTCAATTTCGACAACAAAAGCAAGTTCGTATCTACTTTGATGCTCAAGATGTTTATT
47015064 GTACTTTAACTCATTCTAGAAATCAATGTTATAATCCAAAGACCTCTAAGGATTGTTGGTGCGTG
326 GTACTTTAACTCATTCTAGAAATCAATGTTATAATCCAAAGACCTCTAAGGATTGTTGGTGCGTG
47015129 AACCCGCTTTGAGATATATTCATCGATTTTTAATTTTTAGTTTTTCAGGACGAAATAATTAGTCA
391 AACCCGCTTTGAGATATATTCATCGATTTTTAATTTTTAGTTTTTCAGGACGAAATAATTAGTCA
47015194 TCTATTTTAAATAAAATTGAATTTTTTTTGTGGTGTATGCATTCTGGATTTAAAATTAATTTAGG
456 TCTATTTTAAATAAAATTGAATTTTTTTTGTGGTGTATGCATTCTGGATTTAAAATTAATTTAGG
47015259 ATATTGGTTTGCATTGAACTTTCATGCTATTTTACGCTCTAATCGACCACTAATACTTGGCCCTT
521 ATATTGGTTTGCATTGAACTTTCATGCTATTTTACGCTCTAATCGACCACTAATACTTGGCCCTT
47015324 ATATTACAAACTTAACCTTTCAACTTTTTCCCTCTGAAGTCGATTTCTCATCCTCAATGTTT
586 ATATTACAAACTTAACCTTTCAACTTTTTCCCTCTGAAGTCGATTTCTCATCCTCAATGTTT
*
47015386 TCGTTCACCCTTCATATTGTCTGGTTCCTATCTTGCTAGATAGTGGGTCACGATTCTATCCAACT
1 GCGTTCACCCTTCATATTGTCTGGTTCCTATCTTGCTAGATAGTGGGTCACGATTCTATCCAACT
47015451 ATCCACCATCCACCTTAAAACTTATAAGAATCGAGTCCTTAATCTTTATTAAGGGTTCATTCTTG
66 ATCCACCATCCACCTTAAAACTTATAAGAATCGAGTCCTTAATCTTTATTAAGGGTTCATTCTTG
47015516 TTTTAAGTTCACAATCCATATTTTTCATCAACTTATTTTCTAAACAAACTCTTTTTTTTTCAACC
131 TTTTAAGTTCACAATCCATATTTTTCATCAACTTATTTTCTAAACAAACTCTTTTTTTTTCAACC
47015581 ATCAGCTTCTAAAATAGCCATTTTGTTTAACTTTAGTTTCAATACTTAATTTAACAATCGGGTAA
196 ATCAGCTTCTAAAATAGCCATTTTGTTTAACTTTAGTTTCAATACTTAATTTAACAATCGGGTAA
* *
47015646 CTTTACGACTCAATTTTGACAACAAAAGCAAGTTCATATCTACTTTGATGCTCAAGATGTTTATT
261 CTTTACGACTCAATTTCGACAACAAAAGCAAGTTCGTATCTACTTTGATGCTCAAGATGTTTATT
*
47015711 GTACTTTAACTCATTCTAGAAATCAATGTTATAATCCAAAGACCTCTAAGGATTGTTGGTGAGTG
326 GTACTTTAACTCATTCTAGAAATCAATGTTATAATCCAAAGACCTCTAAGGATTGTTGGTGCGTG
47015776 AACCCGCTTTGAGATATATTCATCGATTTTTAATTTTTAGTTTTTCAGGACGAAATAATTAGTCA
391 AACCCGCTTTGAGATATATTCATCGATTTTTAATTTTTAGTTTTTCAGGACGAAATAATTAGTCA
*
47015841 TCTATTTTAAATAAAATTGAATTTTTTTTGTGGTGTATGCATTCTGGATTTAAAATTAATTTATG
456 TCTATTTTAAATAAAATTGAATTTTTTTTGTGGTGTATGCATTCTGGATTTAAAATTAATTTAGG
47015906 ATATTGGTTTGCATTGAACTTTCATGCTATTTTACGCTCTAATCGACCACTAATACTTGGCCCTT
521 ATATTGGTTTGCATTGAACTTTCATGCTATTTTACGCTCTAATCGACCACTAATACTTGGCCCTT
* *
47015971 ATATTACAAACTTAACCTTTCAGCTTTTTCCCTCTGAAGTCAATTTCTCATCCTCAATGTTT
586 ATATTACAAACTTAACCTTTCAACTTTTTCCCTCTGAAGTCGATTTCTCATCCTCAATGTTT
47016033 GC
1 GC
47016035 ATATACTATG
Statistics
Matches: 1285, Mismatches: 11, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
647 812 0.63
648 473 0.37
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (647 bp):
GCGTTCACCCTTCATATTGTCTGGTTCCTATCTTGCTAGATAGTGGGTCACGATTCTATCCAACT
ATCCACCATCCACCTTAAAACTTATAAGAATCGAGTCCTTAATCTTTATTAAGGGTTCATTCTTG
TTTTAAGTTCACAATCCATATTTTTCATCAACTTATTTTCTAAACAAACTCTTTTTTTTTCAACC
ATCAGCTTCTAAAATAGCCATTTTGTTTAACTTTAGTTTCAATACTTAATTTAACAATCGGGTAA
CTTTACGACTCAATTTCGACAACAAAAGCAAGTTCGTATCTACTTTGATGCTCAAGATGTTTATT
GTACTTTAACTCATTCTAGAAATCAATGTTATAATCCAAAGACCTCTAAGGATTGTTGGTGCGTG
AACCCGCTTTGAGATATATTCATCGATTTTTAATTTTTAGTTTTTCAGGACGAAATAATTAGTCA
TCTATTTTAAATAAAATTGAATTTTTTTTGTGGTGTATGCATTCTGGATTTAAAATTAATTTAGG
ATATTGGTTTGCATTGAACTTTCATGCTATTTTACGCTCTAATCGACCACTAATACTTGGCCCTT
ATATTACAAACTTAACCTTTCAACTTTTTCCCTCTGAAGTCGATTTCTCATCCTCAATGTTT
Found at i:47024748 original size:21 final size:20
Alignment explanation
Indices: 47024688--47024748 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 20
47024678 ACAATAATGT
* * *
47024688 GGCCAAGTCTTGAGACTTTTG
1 GGCCAAGTC-TGAAACTTATA
* *
47024709 GGCTAAGTCTAAAAGCTTATA
1 GGCCAAGTCTGAAA-CTTATA
47024730 GGCCAAGTCTCGAAACTTA
1 GGCCAAGTCT-GAAACTTA
47024749 CACTACCGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 3 0.10
21 25 0.81
22 3 0.10
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (20 bp):
GGCCAAGTCTGAAACTTATA
Found at i:47026114 original size:26 final size:27
Alignment explanation
Indices: 47026080--47026133 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
47026070 AAATTAAAAT
*
47026080 ATATATTATTATG-AATTTATTTAGAA
1 ATATATTATTATGAAATATATTTAGAA
47026106 ATATATTATTATGAAATATATTTAGAA
1 ATATATTATTATGAAATATATTTAGAA
47026133 A
1 A
47026134 CATCTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (27 bp):
ATATATTATTATGAAATATATTTAGAA
Found at i:47026121 original size:15 final size:15
Alignment explanation
Indices: 47026080--47026127 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
47026070 AAATTAAAAT
47026080 ATATATTATTATG-A
1 ATATATTATTATGAA
*
47026094 ATTTA-T-TTA-GAA
1 ATATATTATTATGAA
47026106 ATATATTATTATGAA
1 ATATATTATTATGAA
47026121 ATATATT
1 ATATATT
47026128 TAGAAACATC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 1 0.04
12 8 0.29
13 2 0.07
14 7 0.25
15 10 0.36
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
ATATATTATTATGAA
Found at i:47026141 original size:26 final size:26
Alignment explanation
Indices: 47026086--47026154 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 26
47026076 AAATATATAT
* * *
47026086 TATTATGAATTTATTTAGAAATATAT
1 TATTATGAATATATTTAGAAACATAC
47026112 TATTATGAAATATATTTAGAAACAT-C
1 TATTATG-AATATATTTAGAAACATAC
* *
47026138 TATT-TTAATATTTTTAG
1 TATTATGAATATATTTAG
47026155 TGTATTTGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 10 0.27
25 1 0.03
26 11 0.30
27 15 0.41
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (26 bp):
TATTATGAATATATTTAGAAACATAC
Found at i:47028372 original size:39 final size:39
Alignment explanation
Indices: 47028315--47028600 Score: 308
Period size: 39 Copynumber: 7.3 Consensus size: 39
47028305 AACCACGATA
* * * * *
47028315 ATGAGCCACCACAACACCCTGGACCTAGTGGTTGGGGGG
1 ATGAGCCACCACACCACCCCGGACCTGGTGGTAGGGGAG
* * *
47028354 ATGAGCCACCACACCACCCTGAACCTAGTGGTATGGGGA-
1 ATGAGCCACCACACCACCCCGGACCTGGTGGTA-GGGGAG
* * * *
47028393 ATGAACCACCACATCACCCCGGACCTGGTGATAGGAGAG
1 ATGAGCCACCACACCACCCCGGACCTGGTGGTAGGGGAG
*
47028432 A-GAAGCCACCACACCACCCCGGACCTAGTGGTATGGGG-G
1 ATG-AGCCACCACACCACCCCGGACCTGGTGGTA-GGGGAG
* *
47028471 ATGAGCCACCACATCACCCCGGACCTGGTGGTAGAGGAG
1 ATGAGCCACCACACCACCCCGGACCTGGTGGTAGGGGAG
* * *
47028510 AGGAGCCACCACACCACCCAGGACCTGGTGGTAGTGGAG
1 ATGAGCCACCACACCACCCCGGACCTGGTGGTAGGGGAG
* * * *
47028549 AGGAGCCACCACACCACCCTGGACCTGGTGGCAGGGAAG
1 ATGAGCCACCACACCACCCCGGACCTGGTGGTAGGGGAG
* *
47028588 AGGAACCACCACA
1 ATGAGCCACCACA
47028601 TGGGAAAAAA
Statistics
Matches: 213, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
38 8 0.04
39 197 0.92
40 8 0.04
ACGTcount: A:0.27, C:0.31, G:0.30, T:0.12
Consensus pattern (39 bp):
ATGAGCCACCACACCACCCCGGACCTGGTGGTAGGGGAG
Found at i:47028528 original size:117 final size:117
Alignment explanation
Indices: 47028318--47028579 Score: 350
Period size: 117 Copynumber: 2.2 Consensus size: 117
47028308 CACGATAATG
* *
47028318 AGCCACCACAACACCCTGGACCTAGTGGTTGGGGGGATGAGCCACCACACCACCCTGAACCTAGT
1 AGCCACCACACCACCCTGGACCTAGTGGTTGGGGGGATGAGCCACCACACCACCCCGAACCTAGT
* * * *
47028383 GGTATGGGGAATGAACCACCACATCACCCCGGACCTGGTGATAG-GAGAGAGA
66 GGTATGAGGAAGGAACCACCACACCACCCAGGACCTGGTGATAGTG-GAGAGA
* * * *
47028435 AGCCACCACACCACCCCGGACCTAGTGGTAT-GGGGGATGAGCCACCACATCACCCCGGACCTGG
1 AGCCACCACACCACCCTGGACCTAGTGGT-TGGGGGGATGAGCCACCACACCACCCCGAACCTAG
* * *
47028499 TGGTA-GAGGAGAGGAGCCACCACACCACCCAGGACCTGGTGGTAGTGGAGAGG
65 TGGTATGAGGA-AGGAACCACCACACCACCCAGGACCTGGTGATAGTGGAGAGA
*
47028552 AGCCACCACACCACCCTGGACCTGGTGG
1 AGCCACCACACCACCCTGGACCTAGTGG
47028580 CAGGGAAGAG
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
116 4 0.03
117 121 0.95
118 2 0.02
ACGTcount: A:0.26, C:0.32, G:0.30, T:0.12
Consensus pattern (117 bp):
AGCCACCACACCACCCTGGACCTAGTGGTTGGGGGGATGAGCCACCACACCACCCCGAACCTAGT
GGTATGAGGAAGGAACCACCACACCACCCAGGACCTGGTGATAGTGGAGAGA
Found at i:47034659 original size:15 final size:16
Alignment explanation
Indices: 47034633--47034667 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
47034623 ATTTATAAAT
47034633 TTTAATATTGATAGTA
1 TTTAATATTGATAGTA
47034649 TTTAA-ATTGATAGTA
1 TTTAATATTGATAGTA
47034664 TTTA
1 TTTA
47034668 TAAATTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (16 bp):
TTTAATATTGATAGTA
Found at i:47035591 original size:17 final size:17
Alignment explanation
Indices: 47035571--47035663 Score: 74
Period size: 17 Copynumber: 5.9 Consensus size: 17
47035561 TTATTTTCTA
47035571 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
47035588 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
*
47035602 -ATAATTTTTCTAAATT
1 TATAAGTTTTCTAAATT
* * *
47035618 TATTAGTATT-AAAATT
1 TATAAGTTTTCTAAATT
* *
47035634 TATTAG-TAT-TAAATT
1 TATAAGTTTTCTAAATT
*
47035649 TATAAGTATTCTAAA
1 TATAAGTTTTCTAAA
47035664 AAAGTGTTCT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
13 10 0.17
14 2 0.03
15 11 0.19
16 14 0.24
17 22 0.37
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:47035599 original size:30 final size:30
Alignment explanation
Indices: 47035564--47035681 Score: 98
Period size: 30 Copynumber: 3.9 Consensus size: 30
47035554 TATTGTTTTA
*
47035564 TTTTCTATATAAGTTTTCTAAATTTATAAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
* *
47035594 TTTTCTAAATAATTTTTCTAAATTTATTAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
* * *
47035624 TATT-AAAATTTATTAG-TAT-TAAATTTATAAG
1 TTTTCTAAA--TA--AGTTTTCTAAATTTATAAG
* * *
47035655 TATTCTAAAAAAGTGTTCTAAATTTAT
1 TTTTCTAAATAAGTTTTCTAAATTTAT
47035682 TATTAATAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
28 2 0.03
29 4 0.06
30 40 0.58
31 17 0.25
32 5 0.07
33 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (30 bp):
TTTTCTAAATAAGTTTTCTAAATTTATAAG
Found at i:47035614 original size:13 final size:13
Alignment explanation
Indices: 47035564--47035616 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
47035554 TATTGTTTTA
*
47035564 TTTTCTATATAAG
1 TTTTCTAAATAAG
47035577 TTTTCTAAATTTATAAG
1 TTTTCT-AA---ATAAG
*
47035594 TTTTCTAAATAAT
1 TTTTCTAAATAAG
47035607 TTTTCTAAAT
1 TTTTCTAAAT
47035617 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 20 0.59
14 1 0.03
16 2 0.06
17 11 0.32
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (13 bp):
TTTTCTAAATAAG
Found at i:47035647 original size:15 final size:15
Alignment explanation
Indices: 47035612--47035658 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
47035602 ATAATTTTTC
47035612 TAAATTTATTAGTAT
1 TAAATTTATTAGTAT
47035627 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
*
47035643 TAAATTTATAAGTAT
1 TAAATTTATTAGTAT
47035658 T
1 T
47035659 CTAAAAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 15 0.50
16 15 0.50
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:47035654 original size:61 final size:61
Alignment explanation
Indices: 47035582--47035729 Score: 206
Period size: 61 Copynumber: 2.4 Consensus size: 61
47035572 ATAAGTTTTC
* * *
47035582 TAAATTTATAAGTTTTCTAAATAATTTTTCTAAATTTATTAGTATTAAAATTTATTAGTAT
1 TAAATTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAATAAAATTTATAAGTAT
* * * *
47035643 TAAATTTATAAGTATTCTAAAAAAGTGTTCTAAATTTATTATTAATAAAATTTATAAGTAT
1 TAAATTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAATAAAATTTATAAGTAT
* * *
47035704 CAATTTTATAAATTTTCTAAATAATT
1 TAAATTTATAAGTTTTCTAAATAATT
47035730 ATATATTTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 74 1.00
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.49
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAATAAAATTTATAAGTAT
Found at i:47035924 original size:21 final size:20
Alignment explanation
Indices: 47035898--47035955 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
47035888 TAACATAATA
*
47035898 CATAACTTATATATAAGCTTG
1 CATAACTTATATATAA-CTTC
*
47035919 CATAACTTACATAATAACTTC
1 CATAACTTATAT-ATAACTTC
*
47035940 CATAATTTATATATAA
1 CATAACTTATATATAA
47035956 TAACATAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (20 bp):
CATAACTTATATATAACTTC
Found at i:47035965 original size:8 final size:7
Alignment explanation
Indices: 47035952--47035997 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
47035942 TAATTTATAT
47035952 ATAATAAC
1 ATAAT-AC
47035960 ATAATA-
1 ATAATAC
*
47035966 A-ATTAC
1 ATAATAC
47035972 ATAATAC
1 ATAATAC
47035979 ATAATAAC
1 ATAAT-AC
47035987 ATAATAC
1 ATAATAC
47035994 ATAA
1 ATAA
47035998 CTTATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 16 0.48
8 12 0.36
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:47035990 original size:15 final size:15
Alignment explanation
Indices: 47035952--47035997 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
47035942 TAATTTATAT
47035952 ATAATAACATAAT--
1 ATAATAACATAATAC
*
47035965 A-AATTACATAATAC
1 ATAATAACATAATAC
47035979 ATAATAACATAATAC
1 ATAATAACATAATAC
47035994 ATAA
1 ATAA
47035998 CTTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 1 0.04
15 16 0.57
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAACATAATAC
Found at i:47036019 original size:21 final size:21
Alignment explanation
Indices: 47035993--47036069 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
47035983 TAACATAATA
* *
47035993 CATAACTTATAT-ATAAGCTTG
1 CATAACTTACATAATAA-CTTC
47036014 CATAACTTACATAATAACTTC
1 CATAACTTACATAATAACTTC
** *
47036035 CATAACTTA-ATACACCACTTA
1 CATAACTTACATA-ATAACTTC
*
47036056 AATAACTTACATAA
1 CATAACTTACATAA
47036070 CTTACATAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.06
21 37 0.79
22 7 0.15
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.32
Consensus pattern (21 bp):
CATAACTTACATAATAACTTC
Found at i:47036069 original size:9 final size:9
Alignment explanation
Indices: 47036051--47036620 Score: 204
Period size: 9 Copynumber: 66.3 Consensus size: 9
47036041 TTAATACACC
*
47036051 ACTTAAATA
1 ACTTACATA
47036060 ACTTACATA
1 ACTTACATA
47036069 ACTTACATA
1 ACTTACATA
*
47036078 GCTTACATA
1 ACTTACATA
*
47036087 AC-T-CATT
1 ACTTACATA
47036094 ACTTACATA
1 ACTTACATA
*
47036103 ACATACATA
1 ACTTACATA
47036112 A--TACATA
1 ACTTACATA
47036119 ACTTACATA
1 ACTTACATA
**
47036128 AAATAC--A
1 ACTTACATA
47036135 ACTTACATA
1 ACTTACATA
*
47036144 TCTTACATA
1 ACTTACATA
47036153 A--TACATA
1 ACTTACATA
*
47036160 ACTTATATA
1 ACTTACATA
47036169 A--TACA-A
1 ACTTACATA
*
47036175 CACTTACAGA
1 -ACTTACATA
* *
47036185 AATTAAATA
1 ACTTACATA
*
47036194 ACTTGCATA
1 ACTTACATA
*
47036203 A--AACATA
1 ACTTACATA
* *
47036210 GCCTACATA
1 ACTTACATA
*
47036219 ACTTATATA
1 ACTTACATA
*
47036228 ACTTTCATA
1 ACTTACATA
**
47036237 AAATAC--A
1 ACTTACATA
47036244 ACTTACATA
1 ACTTACATA
**
47036253 TTTTACATAAA
1 ACTTACAT--A
47036264 ACTTACATA
1 ACTTACATA
47036273 A--TACATA
1 ACTTACATA
*
47036280 ACTTAC-TT
1 ACTTACATA
47036288 ACATAATACA-A
1 AC-T--TACATA
*
47036299 CACTTACACA
1 -ACTTACATA
*
47036309 ACTTAAATA
1 ACTTACATA
*
47036318 ACTTCCATA
1 ACTTACATA
47036327 A--TACATA
1 ACTTACATA
47036334 GAC-TACATA
1 -ACTTACATA
*
47036343 ACTTA-ATTTG
1 ACTTACA--TA
*
47036353 CCTTACATA
1 ACTTACATA
47036362 A--TACA-A
1 ACTTACATA
*
47036368 CACTTACACA
1 -ACTTACATA
*
47036378 ACTTAAATA
1 ACTTACATA
*
47036387 ACTTCCATA
1 ACTTACATA
47036396 A--TACATA
1 ACTTACATA
47036403 GAC-TACATA
1 -ACTTACATA
*
47036412 ACTTA-ATTTG
1 ACTTACA--TA
*
47036422 CCTTACATA
1 ACTTACATA
47036431 A--TACA-A
1 ACTTACATA
*
47036437 CACTTACACA
1 -ACTTACATA
*
47036447 ACTTAAATA
1 ACTTACATA
*
47036456 ACTTGCATA
1 ACTTACATA
47036465 A--TACATA
1 ACTTACATA
* *
47036472 GCCTACATA
1 ACTTACATA
*
47036481 ACTTA-ATTTG
1 ACTTACA--TA
*
47036491 CCTTACATA
1 ACTTACATA
**
47036500 A--TACAGC
1 ACTTACATA
47036507 ACTTACATA
1 ACTTACATA
47036516 ACTTACATA
1 ACTTACATA
**
47036525 GGTTACATA
1 ACTTACATA
47036534 A--TACATA
1 ACTTACATA
*
47036541 ACTTAAATA
1 ACTTACATA
*
47036550 ACTTATATA
1 ACTTACATA
47036559 A--TACATA
1 ACTTACATA
47036566 ACTTACATA
1 ACTTACATA
* *
47036575 ATTTACTTA
1 ACTTACATA
47036584 A--TACATA
1 ACTTACATA
* *
47036591 A-ATATATA
1 ACTTACATA
* *
47036599 TCATATCATA
1 ACTTA-CATA
47036609 ACTTACATA
1 ACTTACATA
47036618 ACT
1 ACT
47036621 CATTTAATTT
Statistics
Matches: 413, Mismatches: 88, Indels: 120
0.67 0.14 0.19
Matches are distributed among these distances:
6 3 0.01
7 93 0.23
8 19 0.05
9 257 0.62
10 25 0.06
11 14 0.03
12 2 0.00
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:47036153 original size:34 final size:34
Alignment explanation
Indices: 47036106--47036273 Score: 106
Period size: 34 Copynumber: 4.7 Consensus size: 34
47036096 TTACATAACA
47036106 TACATAA--TACATAACTTACATAAAATACAACT
1 TACATAACTTACATAACTTACATAAAATACAACT
* * *
47036138 TACATATCTTACATAATACATAACTTATATAATACAACACT
1 TACATAACTTACAT-A-AC-TTAC--ATAAAATAC-A-ACT
* * * * * * * *
47036179 TACAGAAATTAAATAACTTGCATAAAACATAGCC
1 TACATAACTTACATAACTTACATAAAATACAACT
* *
47036213 TACATAACTTATATAACTTTCATAAAATACAACT
1 TACATAACTTACATAACTTACATAAAATACAACT
**
47036247 TACATATTTTACATAAAACTTACATAA
1 TACATAACTTACAT--AACTTACATAA
47036274 TACATAACTT
Statistics
Matches: 99, Mismatches: 26, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
32 6 0.06
34 43 0.43
35 2 0.02
36 18 0.18
37 3 0.03
38 2 0.02
39 10 0.10
40 2 0.02
41 13 0.13
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.32
Consensus pattern (34 bp):
TACATAACTTACATAACTTACATAAAATACAACT
Found at i:47036157 original size:16 final size:16
Alignment explanation
Indices: 47035963--47036618 Score: 132
Period size: 16 Copynumber: 38.8 Consensus size: 16
47035953 TAATAACATA
*
47035963 ATAAATTACATAATAC
1 ATAACTTACATAATAC
*
47035979 ATAA-TAACATAATAC
1 ATAACTTACATAATAC
* *
47035994 ATAACTTATATATAAGCTTGC
1 ATAAC-T-TACATAA---TAC
47036015 ATAACTTACATAATA-
1 ATAACTTACATAATAC
** * *
47036030 ACTTCCATAACTTAATAC
1 A-TAAC-TTACATAATAC
** *
47036048 ACCACTTAAATAACTTAC
1 ATAACTTACATAA--TAC
*
47036066 ATAACTTACATAGCTTAC
1 ATAACTTACATA--ATAC
*
47036084 ATAAC-T-CATTACTTAC
1 ATAACTTACA-TA-ATAC
*
47036100 ATAACATACATAATAC
1 ATAACTTACATAATAC
47036116 ATAACTTACATAA-A-
1 ATAACTTACATAATAC
*
47036130 AT-AC-AAC-T--TAC
1 ATAACTTACATAATAC
*
47036141 ATATCTTACATAATAC
1 ATAACTTACATAATAC
*
47036157 ATAACTTATATAATAC
1 ATAACTTACATAATAC
* *
47036173 A-ACACTTACAGAAATTAA
1 ATA-ACTTACA-TAA-TAC
* *
47036191 ATAACTTGCATAAAAC
1 ATAACTTACATAATAC
* * *
47036207 ATAGCCTACATAACTTAT
1 ATAACTTACATAA--TAC
* * *
47036225 ATAACTTTCATAAAAT
1 ATAACTTACATAATAC
* *
47036241 ACAACTTACATATTTTAC
1 ATAACTTACATA--ATAC
47036259 ATAAAACTTACATAATAC
1 AT--AACTTACATAATAC
47036277 ATAACTTACTTACATAATAC
1 AT-A---ACTTACATAATAC
* *
47036297 A-ACACTTACACAACTTAA
1 ATA-ACTTACATAA--TAC
*
47036315 ATAACTTCCATAATAC
1 ATAACTTACATAATAC
47036331 ATAGAC-TACATAACTTA-
1 ATA-ACTTACATAA--TAC
**
47036348 ATTTGCCTTACATAATAC
1 A--TAACTTACATAATAC
* *
47036366 A-ACACTTACACAACTTAA
1 ATA-ACTTACATAA--TAC
*
47036384 ATAACTTCCATAATAC
1 ATAACTTACATAATAC
47036400 ATAGAC-TACATAACTTA-
1 ATA-ACTTACATAA--TAC
**
47036417 ATTTGCCTTACATAATAC
1 A--TAACTTACATAATAC
* *
47036435 A-ACACTTACACAACTTAA
1 ATA-ACTTACATAA--TAC
*
47036453 ATAACTTGCATAATAC
1 ATAACTTACATAATAC
* *
47036469 ATAGCCTACATAACTTA-
1 ATAACTTACATAA--TAC
**
47036486 ATTTGCCTTACATAATAC
1 A--TAACTTACATAATAC
**
47036504 AGCACTTACATAACTTAC
1 ATAACTTACATAA--TAC
**
47036522 ATAGGTTACATAATAC
1 ATAACTTACATAATAC
* *
47036538 ATAACTTAAATAACTTAT
1 ATAACTTACATAA--TAC
47036556 ATAA--TACATAACTTAC
1 ATAACTTACATAA--TAC
* *
47036572 ATAATTTACTTAATAC
1 ATAACTTACATAATAC
* * *
47036588 ATAAATATATATCATATC
1 ATAACT-TACATAATA-C
47036606 ATAACTTACATAA
1 ATAACTTACATAA
47036619 CTCATTTAAT
Statistics
Matches: 463, Mismatches: 103, Indels: 147
0.65 0.14 0.21
Matches are distributed among these distances:
10 1 0.00
11 3 0.01
12 3 0.01
13 4 0.01
14 3 0.01
15 17 0.04
16 189 0.41
17 46 0.10
18 130 0.28
19 35 0.08
20 25 0.05
21 7 0.02
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:47036162 original size:25 final size:26
Alignment explanation
Indices: 47036057--47036591 Score: 108
Period size: 25 Copynumber: 21.2 Consensus size: 26
47036047 CACCACTTAA
*
47036057 ATAACTTACATAACTTACATAGCTTAC
1 ATAACTTACATAACTTACATA-CATAC
*
47036084 ATAAC-T-CATTACTTACATAACATAC
1 ATAACTTACATAACTTACAT-ACATAC
*
47036109 ATAA--TACATAACTTACATAAAATAC
1 ATAACTTACATAACTTACAT-ACATAC
*
47036134 --AACTTACATATCTTACATA-ATAC
1 ATAACTTACATAACTTACATACATAC
*
47036157 ATAACTTATATAA--TACA-ACACTTAC
1 ATAACTTACATAACTTACATACA--TAC
* * * * *
47036182 AGAAATTAAATAACTTGCATA-AAAC
1 ATAACTTACATAACTTACATACATAC
* * * * *
47036207 ATAGCCTACATAACTTATATAACTTTC
1 ATAACTTACATAACTTACAT-ACATAC
** **
47036234 ATAAAATAC--AACTTACATATTTTAC
1 ATAACTTACATAACTTACATA-CATAC
47036259 ATAAAACTTACATAA--TACAT--A-AC
1 AT--AACTTACATAACTTACATACATAC
*
47036282 -TTACTTACATAA--TACA-ACACTTAC
1 ATAACTTACATAACTTACATACA--TAC
* * *
47036306 ACAACTTAAATAACTTCCATA-ATAC
1 ATAACTTACATAACTTACATACATAC
* *
47036331 ATAGAC-TACATAACTTA-ATTTGCCTTAC
1 ATA-ACTTACATAACTTACA--T-ACATAC
* * *
47036359 ATAA--TACA-ACACTTACACAACTTAA
1 ATAACTTACATA-ACTTACA-TACATAC
* *
47036384 ATAACTTCCATAA--TACATAGACTAC
1 ATAACTTACATAACTTACATACA-TAC
**
47036409 ATAACTTA-ATTTGCCTTACATA-ATAC
1 ATAACTTACA--TAACTTACATACATAC
* * * *
47036435 A-ACACTTACACAACTTAAATAACTTGC
1 ATA-ACTTACATAACTTACAT-ACATAC
* * *
47036462 ATAA--TACATAGCCTACATAACTTA-
1 ATAACTTACATAACTTACAT-ACATAC
** * *
47036486 ATTTGCCTTACATAA--TACAGCACTTAC
1 A--TAACTTACATAACTTACA-TACATAC
**
47036513 ATAACTTACATAGGTTACATA-ATAC
1 ATAACTTACATAACTTACATACATAC
* *
47036538 ATAACTTAAATAACTTATATA-ATAC
1 ATAACTTACATAACTTACATACATAC
* *
47036563 ATAACTTACATAATTTACTTA-ATAC
1 ATAACTTACATAACTTACATACATAC
47036588 ATAA
1 ATAA
47036592 ATATATATCA
Statistics
Matches: 371, Mismatches: 81, Indels: 114
0.66 0.14 0.20
Matches are distributed among these distances:
20 14 0.04
21 1 0.00
22 2 0.01
23 13 0.04
24 9 0.02
25 224 0.60
26 37 0.10
27 47 0.13
28 22 0.06
29 2 0.01
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (26 bp):
ATAACTTACATAACTTACATACATAC
Found at i:47036366 original size:69 final size:69
Alignment explanation
Indices: 47036285--47036554 Score: 443
Period size: 69 Copynumber: 3.9 Consensus size: 69
47036275 ACATAACTTA
47036285 CTTACATAATACAACACTTACACAACTTAAATAACTTCCATAATACATAGACTACATAACTTAAT
1 CTTACATAATACAACACTTACACAACTTAAATAACTTCCATAATACATAGACTACATAACTTAAT
47036350 TTGC
66 TTGC
47036354 CTTACATAATACAACACTTACACAACTTAAATAACTTCCATAATACATAGACTACATAACTTAAT
1 CTTACATAATACAACACTTACACAACTTAAATAACTTCCATAATACATAGACTACATAACTTAAT
47036419 TTGC
66 TTGC
* *
47036423 CTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATAGCCTACATAACTTAAT
1 CTTACATAATACAACACTTACACAACTTAAATAACTTCCATAATACATAGACTACATAACTTAAT
47036488 TTGC
66 TTGC
* * * ** * *
47036492 CTTACATAATACAGCACTTACATAACTTACATAGGTTACATAATACATA-ACTTAAATAACTTA
1 CTTACATAATACAACACTTACACAACTTAAATAACTTCCATAATACATAGAC-TACATAACTTA
47036555 TATAATACAT
Statistics
Matches: 190, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
68 1 0.01
69 189 0.99
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.31
Consensus pattern (69 bp):
CTTACATAATACAACACTTACACAACTTAAATAACTTCCATAATACATAGACTACATAACTTAAT
TTGC
Found at i:47036545 original size:34 final size:34
Alignment explanation
Indices: 47036285--47036554 Score: 225
Period size: 34 Copynumber: 7.9 Consensus size: 34
47036275 ACATAACTTA
* *
47036285 CTTACATAATACA-ACACTTACACAACTTAAATAA
1 CTTACATAATACATACACTTACATAACTT-AATAG
* * *
47036319 CTTCCATAATACATAGAC-TACATAACTTAATTTG
1 CTTACATAATACATACACTTACATAACTTAA-TAG
* *
47036353 CCTTACATAATACA-ACACTTACACAACTTAAATAA
1 -CTTACATAATACATACACTTACATAACTT-AATAG
* * *
47036388 CTTCCATAATACATAGAC-TACATAACTTAATTTG
1 CTTACATAATACATACACTTACATAACTTAA-TAG
* *
47036422 CCTTACATAATACA-ACACTTACACAACTTAAATAA
1 -CTTACATAATACATACACTTACATAACTT-AATAG
* *
47036457 CTTGCATAATACATAGC-C-TACATAACTTAATTTG
1 CTTACATAATACATA-CACTTACATAACTTAA-TAG
*
47036491 CCTTACATAATACA-GCACTTACATAACTTACATAG
1 -CTTACATAATACATACACTTACATAACTTA-ATAG
* *
47036526 GTTACATAATACATA-ACTTAAATAACTTA
1 CTTACATAATACATACACTTACATAACTTA
47036555 TATAATACAT
Statistics
Matches: 188, Mismatches: 30, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
33 7 0.04
34 98 0.52
35 77 0.41
36 6 0.03
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.31
Consensus pattern (34 bp):
CTTACATAATACATACACTTACATAACTTAATAG
Found at i:47037111 original size:69 final size:69
Alignment explanation
Indices: 47037024--47037178 Score: 220
Period size: 69 Copynumber: 2.2 Consensus size: 69
47037014 ATGTTGCAGG
* *
47037024 ATAGACTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATA
1 ATAGCCTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTACATA
47037089 ATAC
66 ATAC
* * * **
47037093 ATAGCCTACATAACTTAATTTGCCTTACATAATACAGCACTTACATAACTTACATAGGTTACATA
1 ATAGCCTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTACATA
47037158 ATAC
66 ATAC
* * *
47037162 ATAACTTAAATAACTTA
1 ATAGCCTACATAACTTA
47037179 TATAATACAT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 76 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.32
Consensus pattern (69 bp):
ATAGCCTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTACATA
ATAC
Found at i:47037143 original size:9 final size:9
Alignment explanation
Indices: 47037131--47037204 Score: 75
Period size: 9 Copynumber: 8.7 Consensus size: 9
47037121 ATAATACAGC
47037131 ACTTACATA
1 ACTTACATA
47037140 ACTTACATA
1 ACTTACATA
**
47037149 GGTTACATA
1 ACTTACATA
47037158 A--TACATA
1 ACTTACATA
*
47037165 ACTTAAATA
1 ACTTACATA
*
47037174 ACTTATATA
1 ACTTACATA
47037183 A--TACATA
1 ACTTACATA
47037190 ACTTACATA
1 ACTTACATA
*
47037199 ATTTAC
1 ACTTAC
47037205 TTAATATATA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
7 13 0.24
9 41 0.76
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (9 bp):
ACTTACATA
Found at i:47037160 original size:34 final size:33
Alignment explanation
Indices: 47037030--47037178 Score: 122
Period size: 34 Copynumber: 4.3 Consensus size: 33
47037020 CAGGATAGAC
* *
47037030 TACATAACTTAATTTGCCTTACATAATACAACACT
1 TACATAACTTAA-TAG-CTTACATAATACAGCACT
* * *
47037065 TACACAACTTAAATAACTTGCATAATACATAGC-C-
1 TACATAACTT-AATAGCTTACATAATAC--AGCACT
*
47037099 TACATAACTTAATTTGCCTTACATAATACAGCACT
1 TACATAACTTAA-TAG-CTTACATAATACAGCACT
* **
47037134 TACATAACTTACATAGGTTACATAATACATAACT
1 TACATAACTTA-ATAGCTTACATAATACAGCACT
*
47037168 TAAATAACTTA
1 TACATAACTTA
47037179 TATAATACAT
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
33 5 0.05
34 47 0.51
35 35 0.38
36 5 0.05
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (33 bp):
TACATAACTTAATAGCTTACATAATACAGCACT
Found at i:47037162 original size:25 final size:25
Alignment explanation
Indices: 47037134--47037215 Score: 101
Period size: 25 Copynumber: 3.3 Consensus size: 25
47037124 ATACAGCACT
**
47037134 TACATAACTTACATAGGTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
47037159 TACATAACTTAAATAACTTATATAA
1 TACATAACTTACATAACTTACATAA
* *
47037184 TACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
*
47037209 TATATAA
1 TACATAA
47037216 ATATATATCA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:47037252 original size:43 final size:41
Alignment explanation
Indices: 47037177--47037262 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 41
47037167 TTAAATAACT
* *
47037177 TATATAATACATAACTTACATAATTTACTTAATATATAAATA
1 TATATAATACATAACTTACATAACTCACTTAAT-TATAAATA
* * *
47037219 TATATCATATCATAACTTACATAACTCATTTAATTTTAAATA
1 TATATAATA-CATAACTTACATAACTCACTTAATTATAAATA
47037261 TA
1 TA
47037263 AGTGAACAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 17 0.45
43 21 0.55
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (41 bp):
TATATAATACATAACTTACATAACTCACTTAATTATAAATA
Found at i:47037588 original size:624 final size:624
Alignment explanation
Indices: 47036400--47038266 Score: 3599
Period size: 624 Copynumber: 3.0 Consensus size: 624
47036390 TCCATAATAC
47036400 ATAGACTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATA
1 ATAGACTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATA
47036465 ATACATAGCCTACATAACTTAATTTGCCTTACATAATACAGCACTTACATAACTTACATAGGTTA
66 ATACATAGCCTACATAACTTAATTTGCCTTACATAATACAGCACTTACATAACTTACATAGGTTA
47036530 CATAATACATAACTTAAATAACTTATATAATACATAACTTACATAATTTACTTAATACATAAATA
131 CATAATACATAACTTAAATAACTTATATAATACATAACTTACATAATTTACTTAATACATAAATA
*
47036595 TATATCATATCATAACTTACATAACTCATTTAATTTTAAATATAAGTGAACAACTTATGTACCCT
196 TATATCATATCATAACTTACATAACTCATTTAATTTTAAATATAAGTGAACAACTTACGTACCCT
*
47036660 TGTATTTTCTGGTGGAAATCAGACTTCAAGAATTAAGAAATAGACCGGTCTTGGATGAATTTGTC
261 TGTATTTTCTGGTGGAAATCAGACTTCAAGAATTAAGAAATAGACCAGTCTTGGATGAATTTGTC
*
47036725 AAGGGTAAGCAACAGTTATTGAAATGGAGTTCAGAGTTTTCTAAATTTTTCATTTCAACATGCAA
326 AAGGGTAAGCAACAATTATTGAAATGGAGTTCAGAGTTTTCTAAATTTTTCATTTCAACATGCAA
*
47036790 GCCAATAGAACATGATTCTTTGCCCCTGTAACAAGTGTGTCAACATAAACTGGCATTATCGTGAA
391 GCCAAGAGAACATGATTCTTTGCCCCTGTAACAAGTGTGTCAACATAAACTGGCATTATCGTGAA
* *
47036855 GTTGTATACAAGCATCTAATTGTTGATGGGTTTGTTTGGGGTTATAAAAAATGGCTTTTTCATGG
456 GTTGTATACGAGCATCTAATTGTTGATGGTTTTGTTTGGGGTTATAAAAAATGGCTTTTTCATGG
47036920 AGAATGCCCGCCTAGTACCTCCTCTTCAACGATGGATGTATCTTATCCTGGTACTGCTTACTATC
521 AGAATGCCCGCCTAGTACCTCCTCTTCAACGATGGATGTATCTTATCCTGGTACTGCTTACTATC
47036985 AGTCTGTTGGAGGGGATGACATGGAAGGTATGTTGCAGG
586 AGTCTGTTGGAGGGGATGACATGGAAGGTATGTTGCAGG
47037024 ATAGACTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATA
1 ATAGACTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATA
47037089 ATACATAGCCTACATAACTTAATTTGCCTTACATAATACAGCACTTACATAACTTACATAGGTTA
66 ATACATAGCCTACATAACTTAATTTGCCTTACATAATACAGCACTTACATAACTTACATAGGTTA
*
47037154 CATAATACATAACTTAAATAACTTATATAATACATAACTTACATAATTTACTTAATATATAAATA
131 CATAATACATAACTTAAATAACTTATATAATACATAACTTACATAATTTACTTAATACATAAATA
47037219 TATATCATATCATAACTTACATAACTCATTTAATTTTAAATATAAGTGAACAACTTACGTACCCT
196 TATATCATATCATAACTTACATAACTCATTTAATTTTAAATATAAGTGAACAACTTACGTACCCT
47037284 TGTATTTTCTGGTGGAAATCAGACTTCAAGAATTAAGAAATAGACCAGTCTTGGATGAATTTGTC
261 TGTATTTTCTGGTGGAAATCAGACTTCAAGAATTAAGAAATAGACCAGTCTTGGATGAATTTGTC
47037349 AAGGGTAAGCAACAATTATTGAAATGGAGTTCAGAGTTTTCTAAATTTTTCATTTCAACATGCAA
326 AAGGGTAAGCAACAATTATTGAAATGGAGTTCAGAGTTTTCTAAATTTTTCATTTCAACATGCAA
47037414 GCCAAGAGAACATGATTCTTTGCCCCTGTAACAAGTGTGTCAACATAAACTGGCATTATCGTGAA
391 GCCAAGAGAACATGATTCTTTGCCCCTGTAACAAGTGTGTCAACATAAACTGGCATTATCGTGAA
47037479 GTTGTATACGAGCATCTAATTGTTGATGGTTTTGTTTGGGGTTATAAAAAATGGCTTTTTCATGG
456 GTTGTATACGAGCATCTAATTGTTGATGGTTTTGTTTGGGGTTATAAAAAATGGCTTTTTCATGG
*
47037544 AGAATGCCCGCCTAGTACCTCATCTTCAACGATGGATGTATCTTATCCTGGTACTGCTTACTATC
521 AGAATGCCCGCCTAGTACCTCCTCTTCAACGATGGATGTATCTTATCCTGGTACTGCTTACTATC
* *
47037609 AGTCTGTTGGAGGGGATGACATGAAAGGTATGTTGCGGG
586 AGTCTGTTGGAGGGGATGACATGGAAGGTATGTTGCAGG
47037648 ATAGACTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATA
1 ATAGACTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATA
47037713 ATACATAGCCTACATAACTTAATTTGCCTTACATAATACAGCACTTACATAACTTACATAGGTTA
66 ATACATAGCCTACATAACTTAATTTGCCTTACATAATACAGCACTTACATAACTTACATAGGTTA
47037778 CATAATACATAACTTAAATAACTTATATAATACATAACTTACATAATTTACTTAATACATAAATA
131 CATAATACATAACTTAAATAACTTATATAATACATAACTTACATAATTTACTTAATACATAAATA
47037843 TATATCATATCATAACTTACATAACTCATTTAATTTTAAATATAAGTGAACAACTTACGTACCCT
196 TATATCATATCATAACTTACATAACTCATTTAATTTTAAATATAAGTGAACAACTTACGTACCCT
*
47037908 TGTATTTTCTGGTGGAAATCAGACTTCAAGAATTAAGAAAAAGACCAGTCTTGGATGAATTTGTC
261 TGTATTTTCTGGTGGAAATCAGACTTCAAGAATTAAGAAATAGACCAGTCTTGGATGAATTTGTC
47037973 AAGGGTAAGCAACAATTATTGAAATGGAGTTCAGAGTTTTCTAAATTTTTCATTTCAACATGCAA
326 AAGGGTAAGCAACAATTATTGAAATGGAGTTCAGAGTTTTCTAAATTTTTCATTTCAACATGCAA
* * *
47038038 GCCAAGAGAACATGATTCTTTGCCCCTGTAACAAGTGTGTCAAAATAAAATAGCATTATCGTGAA
391 GCCAAGAGAACATGATTCTTTGCCCCTGTAACAAGTGTGTCAACATAAACTGGCATTATCGTGAA
47038103 GTTGTATACGAGCATCTAATTGTTGATGGTTTTGTTTGGGGTTATAAAAAATGGCTTTTTCATGG
456 GTTGTATACGAGCATCTAATTGTTGATGGTTTTGTTTGGGGTTATAAAAAATGGCTTTTTCATGG
*
47038168 AGAATGCCCGCCTAGTACCTCCTCTTCAACTATGGATGTATCTTATCCTGGTACTGCTTACTATC
521 AGAATGCCCGCCTAGTACCTCCTCTTCAACGATGGATGTATCTTATCCTGGTACTGCTTACTATC
47038233 AGTCTGTTGGAGGGGATGACATGGAAGGTATGTT
586 AGTCTGTTGGAGGGGATGACATGGAAGGTATGTT
47038267 ACGGGATGCA
Statistics
Matches: 1225, Mismatches: 18, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
624 1225 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (624 bp):
ATAGACTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATA
ATACATAGCCTACATAACTTAATTTGCCTTACATAATACAGCACTTACATAACTTACATAGGTTA
CATAATACATAACTTAAATAACTTATATAATACATAACTTACATAATTTACTTAATACATAAATA
TATATCATATCATAACTTACATAACTCATTTAATTTTAAATATAAGTGAACAACTTACGTACCCT
TGTATTTTCTGGTGGAAATCAGACTTCAAGAATTAAGAAATAGACCAGTCTTGGATGAATTTGTC
AAGGGTAAGCAACAATTATTGAAATGGAGTTCAGAGTTTTCTAAATTTTTCATTTCAACATGCAA
GCCAAGAGAACATGATTCTTTGCCCCTGTAACAAGTGTGTCAACATAAACTGGCATTATCGTGAA
GTTGTATACGAGCATCTAATTGTTGATGGTTTTGTTTGGGGTTATAAAAAATGGCTTTTTCATGG
AGAATGCCCGCCTAGTACCTCCTCTTCAACGATGGATGTATCTTATCCTGGTACTGCTTACTATC
AGTCTGTTGGAGGGGATGACATGGAAGGTATGTTGCAGG
Found at i:47037767 original size:9 final size:9
Alignment explanation
Indices: 47037755--47037868 Score: 80
Period size: 9 Copynumber: 13.3 Consensus size: 9
47037745 ATAATACAGC
47037755 ACTTACATA
1 ACTTACATA
47037764 ACTTACATA
1 ACTTACATA
**
47037773 GGTTACATA
1 ACTTACATA
47037782 A--TACATA
1 ACTTACATA
*
47037789 ACTTAAATA
1 ACTTACATA
*
47037798 ACTTATATA
1 ACTTACATA
47037807 A--TACATA
1 ACTTACATA
47037814 ACTTACATA
1 ACTTACATA
* *
47037823 ATTTACTTA
1 ACTTACATA
47037832 A--TACATA
1 ACTTACATA
* *
47037839 A-ATATATA
1 ACTTACATA
* *
47037847 TCATATCATA
1 ACTTA-CATA
47037857 ACTTACATA
1 ACTTACATA
47037866 ACT
1 ACT
47037869 CATTTAATTT
Statistics
Matches: 84, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
7 19 0.23
8 5 0.06
9 54 0.64
10 6 0.07
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (9 bp):
ACTTACATA
Found at i:47037767 original size:69 final size:69
Alignment explanation
Indices: 47037648--47037802 Score: 220
Period size: 69 Copynumber: 2.2 Consensus size: 69
47037638 ATGTTGCGGG
* *
47037648 ATAGACTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTGCATA
1 ATAGCCTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTACATA
47037713 ATAC
66 ATAC
* * * **
47037717 ATAGCCTACATAACTTAATTTGCCTTACATAATACAGCACTTACATAACTTACATAGGTTACATA
1 ATAGCCTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTACATA
47037782 ATAC
66 ATAC
* * *
47037786 ATAACTTAAATAACTTA
1 ATAGCCTACATAACTTA
47037803 TATAATACAT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 76 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.32
Consensus pattern (69 bp):
ATAGCCTACATAACTTAATTTGCCTTACATAATACAACACTTACACAACTTAAATAACTTACATA
ATAC
Found at i:47037784 original size:34 final size:33
Alignment explanation
Indices: 47037654--47037802 Score: 122
Period size: 34 Copynumber: 4.3 Consensus size: 33
47037644 CGGGATAGAC
* *
47037654 TACATAACTTAATTTGCCTTACATAATACAACACT
1 TACATAACTTAA-TAG-CTTACATAATACAGCACT
* * *
47037689 TACACAACTTAAATAACTTGCATAATACATAGC-C-
1 TACATAACTT-AATAGCTTACATAATAC--AGCACT
*
47037723 TACATAACTTAATTTGCCTTACATAATACAGCACT
1 TACATAACTTAA-TAG-CTTACATAATACAGCACT
* **
47037758 TACATAACTTACATAGGTTACATAATACATAACT
1 TACATAACTTA-ATAGCTTACATAATACAGCACT
*
47037792 TAAATAACTTA
1 TACATAACTTA
47037803 TATAATACAT
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
33 5 0.05
34 47 0.51
35 35 0.38
36 5 0.05
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (33 bp):
TACATAACTTAATAGCTTACATAATACAGCACT
Found at i:47037786 original size:25 final size:25
Alignment explanation
Indices: 47037758--47037839 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 25
47037748 ATACAGCACT
**
47037758 TACATAACTTACATAGGTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
47037783 TACATAACTTAAATAACTTATATAA
1 TACATAACTTACATAACTTACATAA
* *
47037808 TACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
47037833 TACATAA
1 TACATAA
47037840 ATATATATCA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:47043925 original size:84 final size:86
Alignment explanation
Indices: 47043750--47043938 Score: 267
Period size: 84 Copynumber: 2.2 Consensus size: 86
47043740 GCGTTTTTAA
* * * *
47043750 AAAAACGCCACTAAAGGTCATGGTTTTTAGCGGCGTTTGATGGAAAAGCGCCGCTAAAGGTCTTG
1 AAAAGCGCCGCTAAAGGTCATAGTTTTTAGCGGCGTTTGATGGAAAAGCGCCACTAAAGGTCTTG
*
47043815 GCCTTTAGCGGCGTTTGTGGG
66 GCCTTTAGCGACGTTTGTGGG
* * *
47043836 GAAAGCGCCGCT-AAGGTCATAGTTTTTAGCGGCGTTTG-TGGAGAAGTGCCACTAAAGGTCTTG
1 AAAAGCGCCGCTAAAGGTCATAGTTTTTAGCGGCGTTTGATGGAAAAGCGCCACTAAAGGTCTTG
*
47043899 GTCTTTCA-CGACGTTTGTGGG
66 GCCTTT-AGCGACGTTTGTGGG
47043920 AAAAGCGCCGCTAAAGGTC
1 AAAAGCGCCGCTAAAGGTC
47043939 TTGTTCTTTT
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
84 50 0.55
85 32 0.35
86 9 0.10
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.26
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAGGTCATAGTTTTTAGCGGCGTTTGATGGAAAAGCGCCACTAAAGGTCTTG
GCCTTTAGCGACGTTTGTGGG
Found at i:47043939 original size:43 final size:43
Alignment explanation
Indices: 47043750--47043957 Score: 221
Period size: 43 Copynumber: 4.9 Consensus size: 43
47043740 GCGTTTTTAA
* * *
47043750 AAAAACGCCACTAAAGGTCATGGT-TTTTAGCGGCGTTTGATGG
1 AAAAGCGCCGCTAAAGGTCTTGGTCTTTTAGCGGCGTTTG-TGG
*
47043793 AAAAGCGCCGCTAAAGGTCTTGG-CCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCTTGGTCTTTTAGCGGCGTTTGT-GG
* * *
47043836 GAAAGCGCCGCT-AAGGTCATAGT-TTTTAGCGGCGTTTGTGG
1 AAAAGCGCCGCTAAAGGTCTTGGTCTTTTAGCGGCGTTTGTGG
* * * * *
47043877 AGAAGTGCCACTAAAGGTCTTGGTCTTTCA-CGACGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCTTGGTCTTTTAGCGGCGTTTGT-GG
* *
47043920 AAAAGCGCCGCTAAAGGTCTTGTTCTTTT-GCGGTGTTT
1 AAAAGCGCCGCTAAAGGTCTTGGTCTTTTAGCGGCGTTT
47043958 TTCTCCGTAA
Statistics
Matches: 135, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
41 10 0.07
42 42 0.31
43 83 0.61
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCTTGGTCTTTTAGCGGCGTTTGTGG
Found at i:47044428 original size:8 final size:8
Alignment explanation
Indices: 47044417--47044451 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
47044407 TATTTATTAA
47044417 TATATTTT
1 TATATTTT
*
47044425 TATAATTTC
1 TAT-ATTTT
47044434 TATATTTT
1 TATATTTT
47044442 TATATTTT
1 TATATTTT
47044450 TA
1 TA
47044452 ACTCATCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (8 bp):
TATATTTT
Found at i:47045515 original size:72 final size:72
Alignment explanation
Indices: 47045396--47045623 Score: 334
Period size: 72 Copynumber: 3.2 Consensus size: 72
47045386 CGTCACTAAA
* * *
47045396 GAAAAAGCGTCGCAAAAAACCTAAGCCCAACGACATCGTTTTGTGACCTTTCAAGGCTTTAGCGA
1 GAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTTGACCTTTCAAGGCTTTAGCGG
*
47045461 CATTTTT
66 CGTTTTT
* *
47045468 GAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCATTTTTTGACCTTTCAGGGCTTTAGCGG
1 GAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTTGACCTTTCAAGGCTTTAGCGG
47045533 CGTTTTT
66 CGTTTTT
* * * *
47045540 TAAAAAGCGCCGTAAAAAACCTAAGCTCAAC-AAATCGTTTTTTGACCTTTC-AGTGCTTTAGCG
1 GAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTTGACCTTTCAAG-GCTTTAGCG
47045603 GCGTTTTT
65 GCGTTTTT
*
47045611 GAAAAAGTGCCGC
1 GAAAAAGCGCCGC
47045624 TAATGCTCAG
Statistics
Matches: 140, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
70 1 0.01
71 45 0.32
72 94 0.67
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (72 bp):
GAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTTGACCTTTCAAGGCTTTAGCGG
CGTTTTT
Found at i:47045724 original size:114 final size:114
Alignment explanation
Indices: 47045518--47045850 Score: 469
Period size: 114 Copynumber: 2.9 Consensus size: 114
47045508 TTTTGACCTT
* * * * *
47045518 TCAGGGCTTTAGCGGCGTTTTTT-AAAAAGCGCCGTAAAAAACCTAAGCTCAAC-AAATCGTTTT
1 TCAGAGCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTT
* *
47045581 TTGACCTTTCAGTGCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGC
66 TTGACCTTTCAGTGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
*
47045630 TCAGAGCTTTAGTGGCGTTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTT
1 TCAGAGCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTT
*
47045695 TTGACCTTTCAGTGCTTTAACGGCATTTTTGAAAAAGCGCCGCTAATGC
66 TTGACCTTTCAGTGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
* * * *
47045744 TCAAAGCTTTACCGGCGCTTTTTGGAAAAGCGTCGC-AAAAACCTAAGCCCAACGACATCG-TTT
1 TCAGAGCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTT
* * *
47045807 TTGACCTTTTAAG-GCTTTAGCGACATTTTTTAGAAAAGCGCCGC
66 TTGACC-TTTCAGTGCTTTAGCGGCATTTTTGA-AAAAGCGCCGC
47045851 AAAAAACCTA
Statistics
Matches: 199, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
112 46 0.23
113 67 0.34
114 86 0.43
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (114 bp):
TCAGAGCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTT
TTGACCTTTCAGTGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
Found at i:47045880 original size:72 final size:71
Alignment explanation
Indices: 47045762--47045923 Score: 211
Period size: 72 Copynumber: 2.3 Consensus size: 71
47045752 TTACCGGCGC
* * * *
47045762 TTTTTGGAAAAGCGTCGCAAAAACCTAAGCCCAACGACATC-GTTTTTGACCTTTTAAGGCTTTA
1 TTTTTAGAAAAGCGCCGCAAAAACCTAAGCCCAACGACATCATTTTTTGACCTTTCAAGGCTTTA
47045826 GC-GACAT
66 GCAG-C-T
*
47045833 TTTTTAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCATTTTTTTGACCTTTCAGGGCTT
1 TTTTTAGAAAAGCGCCGC-AAAAACCTAAGCCCAACGACATCA-TTTTTTGACCTTTCAAGGCTT
47045898 TAGCAGCT
64 TAGCAGCT
* *
47045906 TATTTAAAAAAGCGCCGC
1 TTTTTAGAAAAGCGCCGC
47045924 TAATGCTCAG
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
71 16 0.20
72 23 0.29
73 17 0.21
74 23 0.29
75 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (71 bp):
TTTTTAGAAAAGCGCCGCAAAAACCTAAGCCCAACGACATCATTTTTTGACCTTTCAAGGCTTTA
GCAGCT
Found at i:47045958 original size:115 final size:114
Alignment explanation
Indices: 47045820--47046249 Score: 629
Period size: 115 Copynumber: 3.8 Consensus size: 114
47045810 ACCTTTTAAG
* * *
47045820 GCTTTAGCGACATTTTTTAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCATTTTTTTGA
1 GCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCA-TTTTTTGA
47045885 CCTTTCAGGGCTTTAGCAGC-TTATTTAAAAAAGCGCCGCTAATGCTCAGA
65 CCTTTCAGGGCTTTAGCAGCGTT-TTTAAAAAAGCGCCGCTAATGCTCAGA
* *
47045935 GCTTTAGCGGCGTTTTATGGAAAAGCGCCGGAAAAAACCTAAGCCCAACGACATCATTTTTTGAC
1 GCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCATTTTTTGAC
** * * *
47046000 CTTTCAGGGCTTTAGTGGAGTTTTTGAAAAAGCGCCGCTAATGCTCAAA
66 CTTTCAGGGCTTTAGCAGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGA
*
47046049 GCTTTAGCGGCGTTTTTTTGGAAAAGCGCCGCAAAAAACCTAAG-CCAACGACATC-GTTTTTGA
1 GCTTTAGCGGCG-TTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCATTTTTTGA
* * *
47046112 CCTTTCAGGGCTTTAGCGGCGTTTTTAAAATAGCGCCG-TAATTCTCAGA
65 CCTTTCAGGGCTTTAGCAGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGA
* **
47046161 GCTTTAGCGGC-TTTTTT-AAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATTGTTTTTTTGA
1 GCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACA-TCATTTTTTGA
47046224 CCTTTCAGGGCTTTAGCAGCGTTTTT
65 CCTTTCAGGGCTTTAGCAGCGTTTTT
47046250 TGAAAAAAAG
Statistics
Matches: 287, Mismatches: 23, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
109 23 0.08
110 15 0.05
111 1 0.00
112 52 0.18
113 41 0.14
114 73 0.25
115 82 0.29
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (114 bp):
GCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCATTTTTTGAC
CTTTCAGGGCTTTAGCAGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGA
Found at i:47045958 original size:186 final size:187
Alignment explanation
Indices: 47045647--47046014 Score: 564
Period size: 186 Copynumber: 2.0 Consensus size: 187
47045637 TTTAGTGGCG
* *
47045647 TTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTTGACCTTTCAGTGCTT
1 TTTTTTAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTTGACCTTTCAGGGCTT
* * *
47045712 TAACGGCATTTTTGAAAAAGCGCCGCTAATGCTCAAAGCTTTACCGGCGCTTTTTGGAAAAGCGT
66 TAACAGCATTTTTAAAAAAGCGCCGCTAATGCTCAAAGCTTTACCGGCGCTTTTTGGAAAAGCGC
* *
47045777 C-GCAAAAACCTAAGCCCAACGACATC-GTTTTTGACCTTTTAAGGCTTTAGCGACA
131 CGGAAAAAACCTAAGCCCAACGACATCAGTTTTTGACCTTTCAAGGCTTTAGCGACA
*
47045832 TTTTTTAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCATTTTTTTGACCTTTCAGGGCT
1 TTTTTTAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATC-GTTTTTTGACCTTTCAGGGCT
* * *
47045897 TTAGCAGC-TTATTTAAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCG-TTTTATGGAAAAG
65 TTAACAGCATT-TTTAAAAAAGCGCCGCTAATGCTCAAAGCTTTACCGGCGCTTTT-TGGAAAAG
* *
47045960 CGCCGGAAAAAACCTAAGCCCAACGACATCATTTTTTGACCTTTCAGGGCTTTAG
128 CGCCGGAAAAAACCTAAGCCCAACGACATCAGTTTTTGACCTTTCAAGGCTTTAG
47046015 TGGAGTTTTT
Statistics
Matches: 165, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
185 48 0.29
186 72 0.44
187 24 0.15
188 21 0.13
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (187 bp):
TTTTTTAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTTGACCTTTCAGGGCTT
TAACAGCATTTTTAAAAAAGCGCCGCTAATGCTCAAAGCTTTACCGGCGCTTTTTGGAAAAGCGC
CGGAAAAAACCTAAGCCCAACGACATCAGTTTTTGACCTTTCAAGGCTTTAGCGACA
Found at i:47046026 original size:300 final size:299
Alignment explanation
Indices: 47045463--47046149 Score: 1035
Period size: 300 Copynumber: 2.3 Consensus size: 299
47045453 TTTAGCGACA
* *
47045463 TTTTTGAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCATTTTTTGACCTTTCAGGGCTTT
1 TTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATC-GTTTTTGACCTTTCAGGGCTTT
* * * *
47045528 AGCGGCGTTTTTTAAAAAGCGCCGTAAAAAACCTAAGCTCAACAAATCGTTTTTTGACCTTTCAG
65 AGCGACATTTTTTAAAAAGCGCCGCAAAAAACCTAAGCCCAACAAATCGTTTTTTGACCTTTCAG
* * * * * *
47045593 TGCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTCAGAGCTTTAGTGGCGTTTTTTGGAAA
130 GGCTTTAGCAGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTATGGAAA
* *
47045658 AGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTTGACCTTTCAGTGCTTTAACGGCATTT
195 AGCGCCGCAAAAAACCTAAGCCCAACGACATCATTTTTTGACCTTTCAGGGCTTTAACGGCATTT
47045723 TTGAAAAAGCGCCGCTAATGCTCAAAGCTTTACCGGCG-C
260 TTGAAAAAGCGCCGCTAATGCTCAAAGCTTTACCGGCGTC
* * *
47045762 TTTTTGGAAAAGCGTCGC-AAAAACCTAAGCCCAACGACATCGTTTTTGACCTTTTAAGGCTTTA
1 TTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTGACCTTTCAGGGCTTTA
* *
47045826 GCGACATTTTTTAGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCATTTTTTTGACCTTTC
66 GCGACATTTTTTA-AAAAGCGCCGCAAAAAACCTAAGCCCAAC-AAATC-GTTTTTTGACCTTTC
47045891 AGGGCTTTAGCAGC-TTATTTAAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTATGG
128 AGGGCTTTAGCAGCGTT-TTTAAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTATGG
* **
47045955 AAAAGCGCCGGAAAAAACCTAAGCCCAACGACATCATTTTTTGACCTTTCAGGGCTTTAGTGG-A
192 AAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCATTTTTTGACCTTTCAGGGCTTTAACGGCA
* *
47046019 GTTTTTGAAAAAGCGCCGCTAATGCTCAAAGCTTTAGCGGCGTT
257 -TTTTTGAAAAAGCGCCGCTAATGCTCAAAGCTTTACCGGCGTC
47046063 TTTTTGGAAAAGCGCCGCAAAAAACCTAAG-CCAACGACATCGTTTTTGACCTTTCAGGGCTTTA
1 TTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTGACCTTTCAGGGCTTTA
* *
47046127 GCGGC-GTTTTTAAAATAGCGCCG
66 GCGACATTTTTTAAAA-AGCGCCG
47046150 TAATTCTCAG
Statistics
Matches: 351, Mismatches: 29, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
297 31 0.09
298 50 0.14
299 26 0.07
300 180 0.51
301 53 0.15
302 11 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (299 bp):
TTTTTGGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTGACCTTTCAGGGCTTTA
GCGACATTTTTTAAAAAGCGCCGCAAAAAACCTAAGCCCAACAAATCGTTTTTTGACCTTTCAGG
GCTTTAGCAGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTATGGAAAA
GCGCCGCAAAAAACCTAAGCCCAACGACATCATTTTTTGACCTTTCAGGGCTTTAACGGCATTTT
TGAAAAAGCGCCGCTAATGCTCAAAGCTTTACCGGCGTC
Found at i:47047479 original size:5 final size:5
Alignment explanation
Indices: 47047469--47047494 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47047459 TTTTCCCTGT
47047469 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
47047495 GTAAAATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:47049238 original size:29 final size:29
Alignment explanation
Indices: 47049177--47049239 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
47049167 ATCTATGTTT
**
47049177 AGATAATTATACATAGAATGTATAAGTTT
1 AGATAATTATACATAGAATGTATAAGTAA
* *
47049206 AGATTATTATACATAGAATGTCCTAA-TAA
1 AGATAATTATACATAGAATGT-ATAAGTAA
47049235 AGATA
1 AGATA
47049240 TCAAGAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (29 bp):
AGATAATTATACATAGAATGTATAAGTAA
Found at i:47050601 original size:16 final size:16
Alignment explanation
Indices: 47050569--47050614 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
47050559 AATTATTATT
*
47050569 TTAAATTA--TATAAG
1 TTAAATTATTTATATG
47050583 TTAAATTATTTATATG
1 TTAAATTATTTATATG
*
47050599 TTAATTTATCTTATAT
1 TTAAATTAT-TTATAT
47050615 ATCATGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 8 0.30
16 13 0.48
17 6 0.22
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (16 bp):
TTAAATTATTTATATG
Found at i:47051223 original size:16 final size:17
Alignment explanation
Indices: 47051197--47051232 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
47051187 AAACAATTGA
47051197 ATTGTTATTACGCCTCT
1 ATTGTTATTACGCCTCT
*
47051214 ATTG-TATTACGTCTCT
1 ATTGTTATTACGCCTCT
47051230 ATT
1 ATT
47051233 CCATTACAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.50
Consensus pattern (17 bp):
ATTGTTATTACGCCTCT
Found at i:47053215 original size:17 final size:17
Alignment explanation
Indices: 47053195--47053241 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
47053185 CACATTTTAT
47053195 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
47053212 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
47053230 A-TATTTATATTA
1 ATTATTTATATTA
47053242 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:47055335 original size:32 final size:32
Alignment explanation
Indices: 47055299--47055366 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
47055289 TAGTATTTTT
47055299 GTTAAAAAATC-AATTTGACTCTATTTTAAAAA
1 GTTAAAAAATCAAATTTGACTCT-TTTTAAAAA
***
47055331 GTT-AATGGTCAAATTTGACTCTTTTTAAAAA
1 GTTAAAAAATCAAATTTGACTCTTTTTAAAAA
47055362 GTTAA
1 GTTAA
47055367 GGTCCAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (32 bp):
GTTAAAAAATCAAATTTGACTCTTTTTAAAAA
Found at i:47055360 original size:31 final size:32
Alignment explanation
Indices: 47055310--47055382 Score: 114
Period size: 31 Copynumber: 2.3 Consensus size: 32
47055300 TTAAAAAATC
47055310 AATTTGACTCTATTTTAAAAAGTTAATGGT-CA
1 AATTTGACTCTATTTTAAAAAGTTAA-GGTCCA
47055342 AATTTGACTCT-TTTTAAAAAGTTAAGGTCCA
1 AATTTGACTCTATTTTAAAAAGTTAAGGTCCA
*
47055373 AATTTAACTC
1 AATTTGACTC
47055383 AAAAAAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 3 0.08
31 25 0.64
32 11 0.28
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (32 bp):
AATTTGACTCTATTTTAAAAAGTTAAGGTCCA
Found at i:47063304 original size:19 final size:19
Alignment explanation
Indices: 47063282--47063324 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
47063272 TAATAAATAA
47063282 TAAAATTT-AGAAAAATTAT
1 TAAAATTTAAGAAAAATT-T
* *
47063301 TAAATTTTAATAAAAATTT
1 TAAAATTTAAGAAAAATTT
47063320 TAAAA
1 TAAAA
47063325 AATTAGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAAATTTAAGAAAAATTT
Found at i:47063337 original size:29 final size:30
Alignment explanation
Indices: 47063277--47063355 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
47063267 AAATATAATA
* *
47063277 AATAATAAAATTTAGAAAAATTATTAAATTTT
1 AATAA-AAATTTTA-AAAAATTATGAAATTTT
*
47063309 AATAAAAATTTTAAAAAATTA-GAATTTTT
1 AATAAAAATTTTAAAAAATTATGAAATTTT
* **
47063338 TATAAAAATCGTAAAAAA
1 AATAAAAATTTTAAAAAA
47063356 ATAAAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 21 0.51
30 8 0.20
31 7 0.17
32 5 0.12
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (30 bp):
AATAAAAATTTTAAAAAATTATGAAATTTT
Found at i:47064514 original size:51 final size:51
Alignment explanation
Indices: 47064458--47064935 Score: 620
Period size: 51 Copynumber: 9.3 Consensus size: 51
47064448 CTTACATATG
* * * *
47064458 ATCACTTATCACTTGTCTCTGATCAGATAAGTATAGCTAAAGCTACCAGTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * *
47064509 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAACTGAAGCTAACACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* *
47064560 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
*
47064611 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * * *
47064662 ATCACTTGCCACTTGTCACTGATAAGATAAGCTGATAAGATAAGTGTAGCTA-AAGC-T
1 ATCACTTGTCACTTGTCACTGATCAGATAAG-TG-T-AGCTAA----AGCTACCA-CTT
*
47064719 ACCAC-TGATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTG-TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
** * * * *
47064770 ATCACTTACCACTTGTCACTGATCAGATAAGTGTAGTTGAAGCTATCAATT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * *
47064821 ATCACTCGCCACTTGTCACTGATCAGATAAGTGTGGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* *
47064872 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
47064923 ATCACTTGTCACT
1 ATCACTTGTCACT
47064936 GATCAGAAGT
Statistics
Matches: 375, Mismatches: 40, Indels: 24
0.85 0.09 0.05
Matches are distributed among these distances:
50 6 0.02
51 318 0.85
52 3 0.01
53 1 0.00
54 9 0.02
55 1 0.00
56 4 0.01
57 27 0.07
58 6 0.02
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
Found at i:47064698 original size:13 final size:13
Alignment explanation
Indices: 47064680--47064705 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47064670 CCACTTGTCA
47064680 CTGATAAGATAAG
1 CTGATAAGATAAG
47064693 CTGATAAGATAAG
1 CTGATAAGATAAG
47064706 TGTAGCTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
CTGATAAGATAAG
Found at i:47064825 original size:210 final size:210
Alignment explanation
Indices: 47064517--47064902 Score: 637
Period size: 210 Copynumber: 1.8 Consensus size: 210
47064507 TTATCACTTG
* *
47064517 TCACTTGTCACTGATCAGATAAGTGTAACTGAAGCTAACACTTATCACTTGCCACTTGTCACTGA
1 TCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTAACACTTATCACTTACCACTTGTCACTGA
* * *
47064582 TCAGATAAGTGTAACTAAAGCTACCACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAA
66 TCAGATAAGTGTAACTAAAGCTACCAATTATCACTCGCCACTTGTCACTGATCAGATAAGTGTAA
47064647 CTAAAGCTACCACTTATCACTTGCCACTTGTCACTGATAAGATAAGCTGATAAGATAAGTGTAGC
131 CTAAAGCTACCACTTATCACTTGCCACTTGTCACTGATAAGATAAGCTGATAAGATAAGTGTAGC
47064712 TAAAGCTACCACTGA
196 TAAAGCTACCACTGA
* *
47064727 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTACCACTTGTCACTGA
1 TCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTAACACTTATCACTTACCACTTGTCACTGA
** * * **
47064792 TCAGATAAGTGTAGTTGAAGCTATCAATTATCACTCGCCACTTGTCACTGATCAGATAAGTGTGG
66 TCAGATAAGTGTAACTAAAGCTACCAATTATCACTCGCCACTTGTCACTGATCAGATAAGTGTAA
* *
47064857 CTAAAGCTACCACTTATCACTTGTCACTTGTCACTGATCAGATAAG
131 CTAAAGCTACCACTTATCACTTGCCACTTGTCACTGATAAGATAAG
47064903 TGTAGCTGAA
Statistics
Matches: 161, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
210 161 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (210 bp):
TCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTAACACTTATCACTTACCACTTGTCACTGA
TCAGATAAGTGTAACTAAAGCTACCAATTATCACTCGCCACTTGTCACTGATCAGATAAGTGTAA
CTAAAGCTACCACTTATCACTTGCCACTTGTCACTGATAAGATAAGCTGATAAGATAAGTGTAGC
TAAAGCTACCACTGA
Found at i:47064927 original size:261 final size:261
Alignment explanation
Indices: 47064460--47064935 Score: 799
Period size: 261 Copynumber: 1.8 Consensus size: 261
47064450 TACATATGAT
* * * **
47064460 CACTTATCACTTGTCTCTGATCAGATAAGTATAGCTAAAGCTACCAGTTATCACTTGTCACTTGT
1 CACTGATCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTACCACTTATCACTTACCACTTGT
* *
47064525 CACTGATCAGATAAGTGTAACTGAAGCTAACACTTATCACTTGCCACTTGTCACTGATCAGATAA
66 CACTGATCAGATAAGTGTAACTGAAGCTAACAATTATCACTCGCCACTTGTCACTGATCAGATAA
47064590 GTGTAACTAAAGCTACCACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAACTAAAGCT
131 GTGTAACTAAAGCTACCACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAACTAAAGCT
47064655 ACCACTTATCACTTGCCACTTGTCACTGATAAGATAAGCTGATAAGATAAGTGTAGCTAAAGCTA
196 ACCACTTATCACTTGCCACTTGTCACTGATAAGATAAGCTGATAAGATAAGTGTAGCTAAAGCTA
47064720 C
261 C
*
47064721 CACTGATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTACCACTTGT
1 CACTGATCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTACCACTTATCACTTACCACTTGT
** *
47064786 CACTGATCAGATAAGTGTAGTTGAAGCTATCAATTATCACTCGCCACTTGTCACTGATCAGATAA
66 CACTGATCAGATAAGTGTAACTGAAGCTAACAATTATCACTCGCCACTTGTCACTGATCAGATAA
** * *
47064851 GTGTGGCTAAAGCTACCACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCT
131 GTGTAACTAAAGCTACCACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAACTAAAGCT
* *
47064916 ATCACTTATCACTTGTCACT
196 ACCACTTATCACTTGCCACT
47064936 GATCAGAAGT
Statistics
Matches: 198, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
261 198 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (261 bp):
CACTGATCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTACCACTTATCACTTACCACTTGT
CACTGATCAGATAAGTGTAACTGAAGCTAACAATTATCACTCGCCACTTGTCACTGATCAGATAA
GTGTAACTAAAGCTACCACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAACTAAAGCT
ACCACTTATCACTTGCCACTTGTCACTGATAAGATAAGCTGATAAGATAAGTGTAGCTAAAGCTA
C
Found at i:47071038 original size:51 final size:51
Alignment explanation
Indices: 47070982--47071299 Score: 494
Period size: 51 Copynumber: 6.2 Consensus size: 51
47070972 TTACATATGG
* * *
47070982 TCACTTATCACTTGTC-CTTGATCAGATAAGTATAGCTAAAGCTACCAGTTA
1 TCACTTGTCACTTGTCAC-TGATCAGATAAGTGTAGCTAAAGCTACCACTTA
*
47071033 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
* **
47071084 TCACTTGCCACTTGTCACTGATCAGATAAGTGTAATTAAAGCTACCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
47071135 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
** * *
47071186 TCACTTACCACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTACCACTGA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
* * *
47071237 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGTTGAAGCTATCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
47071288 TCACTTGTCACT
1 TCACTTGTCACT
47071300 GATCAGAAGT
Statistics
Matches: 244, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
51 243 1.00
52 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (51 bp):
TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
Found at i:47083138 original size:16 final size:16
Alignment explanation
Indices: 47083117--47083149 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47083107 TAAGGGCATT
*
47083117 AAATGTATTTTTAACA
1 AAATGTACTTTTAACA
47083133 AAATGTACTTTTAACA
1 AAATGTACTTTTAACA
47083149 A
1 A
47083150 TTAAATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (16 bp):
AAATGTACTTTTAACA
Found at i:47092674 original size:18 final size:18
Alignment explanation
Indices: 47092651--47092693 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
47092641 AATTTTAAAA
* *
47092651 AATTTTATAAGTATTTTG
1 AATTTTAAAAATATTTTG
47092669 AATTTTTAAAAATATTTTG
1 AA-TTTTAAAAATATTTTG
*
47092688 GATTTT
1 AATTTT
47092694 TTGTTGAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (18 bp):
AATTTTAAAAATATTTTG
Found at i:47094424 original size:14 final size:15
Alignment explanation
Indices: 47094402--47094436 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
47094392 ATAATATTTG
*
47094402 GATAGAATGTAATA-
1 GATAAAATGTAATAT
47094416 GATAAAATGTAATAT
1 GATAAAATGTAATAT
47094431 GATAAA
1 GATAAA
47094437 TTAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (15 bp):
GATAAAATGTAATAT
Found at i:47094743 original size:45 final size:47
Alignment explanation
Indices: 47094679--47094773 Score: 133
Period size: 45 Copynumber: 2.1 Consensus size: 47
47094669 TTAAAATTTA
* *
47094679 AAAATTATAAAAATATATAAAATTTATTTTTAAAATT-AAAAATCATT
1 AAAATTATAAAAATATATAAAA-ATATTTTTAAAATTAAAAAATAATT
*
47094726 AAAATT-TAAAAA-GTATAAAAATATTTTTAAAATTAAAAAATAATT
1 AAAATTATAAAAATATATAAAAATATTTTTAAAATTAAAAAATAATT
47094771 AAA
1 AAA
47094774 TGCTTACATG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 13 0.30
45 19 0.43
46 6 0.14
47 6 0.14
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (47 bp):
AAAATTATAAAAATATATAAAAATATTTTTAAAATTAAAAAATAATT
Found at i:47094762 original size:44 final size:47
Alignment explanation
Indices: 47094679--47094773 Score: 135
Period size: 44 Copynumber: 2.1 Consensus size: 47
47094669 TTAAAATTTA
*
47094679 AAAATTATAAAAATATATAAAATTTATTTTTAAAATT-AAAAATCATT
1 AAAATTATAAAAATATATAAAA-TTATTTTTAAAATTAAAAAATAATT
47094726 AAAATT-TAAAAAGTATA-AAAA-TATTTTTAAAATTAAAAAATAATT
1 AAAATTATAAAAA-TATATAAAATTATTTTTAAAATTAAAAAATAATT
47094771 AAA
1 AAA
47094774 TGCTTACATG
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
44 13 0.29
45 12 0.27
46 10 0.22
47 10 0.22
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (47 bp):
AAAATTATAAAAATATATAAAATTATTTTTAAAATTAAAAAATAATT
Found at i:47095619 original size:5 final size:5
Alignment explanation
Indices: 47095609--47095634 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47095599 GCATGCATGC
47095609 ATGGG ATGGG ATGGG ATGGG ATGGG A
1 ATGGG ATGGG ATGGG ATGGG ATGGG A
47095635 AGCCGCTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.58, T:0.19
Consensus pattern (5 bp):
ATGGG
Found at i:47116501 original size:27 final size:28
Alignment explanation
Indices: 47116450--47116511 Score: 117
Period size: 27 Copynumber: 2.2 Consensus size: 28
47116440 AAAAATAACC
47116450 AAAATATTATAACTTTTTTTTATTTACT
1 AAAATATTATAACTTTTTTTTATTTACT
47116478 AAAATATTATAA-TTTTTTTTATTTACT
1 AAAATATTATAACTTTTTTTTATTTACT
47116505 AAAATAT
1 AAAATAT
47116512 ACCAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 22 0.65
28 12 0.35
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (28 bp):
AAAATATTATAACTTTTTTTTATTTACT
Found at i:47117259 original size:58 final size:57
Alignment explanation
Indices: 47117188--47117301 Score: 219
Period size: 58 Copynumber: 2.0 Consensus size: 57
47117178 ATAACTCTAT
47117188 TTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTTTAAAAAAATTAAA
1 TTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA-TTTAAAAAAATTAAA
47117246 TTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTTAAAAAAATTAA
1 TTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTTAAAAAAATTAA
47117302 GTAAACTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 14 0.25
58 42 0.75
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.46
Consensus pattern (57 bp):
TTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTTAAAAAAATTAAA
Found at i:47117377 original size:18 final size:19
Alignment explanation
Indices: 47117329--47117385 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 19
47117319 AATTTTTTTA
47117329 AAATTAAAAATAGAGTTATT
1 AAATT-AAAATAGAGTTATT
* * *
47117349 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
47117367 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
47117386 GCTTAATTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 15 0.50
19 11 0.37
20 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:47117500 original size:135 final size:137
Alignment explanation
Indices: 47117264--47117520 Score: 439
Period size: 135 Copynumber: 1.9 Consensus size: 137
47117254 AATAAACTAT
* ** *
47117264 TCTCATTTAATAACTCTATTTTAATTTAAAAAAATTAAGTAAACTTTTTTAATTTAATTTTTTTA
1 TCTCATTTAATAACTCTATTTTAATTTAAAAAAATTAAGTAAAATAGTTTAACTTAATTTTTTTA
47117329 AAATTAAAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTGCTTAATT
66 AAATTAAAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTGCTTAATT
47117394 AGAATTC
131 AGAATTC
*
47117401 TCTCATTTAATAACTCTATTTTAATTTAAAAAAATTAAATTAAAATAGTTT-ACTTAATTTTTTT
1 TCTCATTTAATAACTCTATTTTAATTTAAAAAAATT-AAGTAAAATAGTTTAACTTAATTTTTTT
47117465 -AAATT-AAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATT
65 AAAATTAAAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATT
47117521 AAATGAGAAT
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
135 51 0.45
136 5 0.04
137 48 0.42
138 10 0.09
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (137 bp):
TCTCATTTAATAACTCTATTTTAATTTAAAAAAATTAAGTAAAATAGTTTAACTTAATTTTTTTA
AAATTAAAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTGCTTAATT
AGAATTC
Found at i:47117505 original size:37 final size:37
Alignment explanation
Indices: 47117463--47117669 Score: 396
Period size: 37 Copynumber: 5.6 Consensus size: 37
47117453 CTTAATTTTT
47117463 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
47117500 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
*
47117537 TTAAATTAAAATAAAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
47117574 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
*
47117611 TTAAATTAAAATAAAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
47117648 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
47117670 CTTAATTAAA
Statistics
Matches: 166, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 166 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
Found at i:47117961 original size:27 final size:27
Alignment explanation
Indices: 47117931--47117991 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
47117921 ATTTTTTGGT
*
47117931 ATATTTTGATAAATAAAAAAATTAATA
1 ATATTTTGATAAATAAAAAAAGTAATA
* *
47117958 ATATTTTGGTAAATAAAAAAAGTCATA
1 ATATTTTGATAAATAAAAAAAGTAATA
47117985 ATATTTT
1 ATATTTT
47117992 AGTTATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (27 bp):
ATATTTTGATAAATAAAAAAAGTAATA
Found at i:47119780 original size:263 final size:263
Alignment explanation
Indices: 47119313--47119841 Score: 1040
Period size: 263 Copynumber: 2.0 Consensus size: 263
47119303 ACTTAGAAAG
47119313 GTTATTTTCCTTTTCTGATACAAGAAACCATTGTAGTAAACGATGTTGTATGTATATTGTTTCCA
1 GTTATTTTCCTTTTCTGATACAAGAAACCATTGTAGTAAACGATGTTGTATGTATATTGTTTCCA
47119378 TATGCTTTATTTTCTGGTTATTAGGGTTTGTTGTGTTGGTGCTCATATTCAAGAGTCCTTACTGG
66 TATGCTTTATTTTCTGGTTATTAGGGTTTGTTGTGTTGGTGCTCATATTCAAGAGTCCTTACTGG
47119443 TAGAAAAAGCAAGGATCTTTTGGACATTTTATGTTTATTATGAAACATGCTTATTAGTGGGATTT
131 TAGAAAAAGCAAGGATCTTTTGGACATTTTATGTTTATTATGAAACATGCTTATTAGTGGGATTT
47119508 GAGAATCATGTGATGTCGATACCATCATGCAATTTCCGAGCTGCTGCTTATGTCTTTGAGTCTTT
196 GAGAATCATGTGATGTCGATACCATCATGCAATTTCCGAGCTGCTGCTTATGTCTTTGAGTCTTT
47119573 GCA
261 GCA
* *
47119576 GTTATTTTCCTTTTCTGATTCAAGAAACCATTGTAGTAAACGATGTTGTATGTATGTTGTTTCCA
1 GTTATTTTCCTTTTCTGATACAAGAAACCATTGTAGTAAACGATGTTGTATGTATATTGTTTCCA
47119641 TATGCTTTATTTTCTGGTTATTAGGGTTTGTTGTGTTGGTGCTCATATTCAAGAGTCCTTACTGG
66 TATGCTTTATTTTCTGGTTATTAGGGTTTGTTGTGTTGGTGCTCATATTCAAGAGTCCTTACTGG
47119706 TAGAAAAAGCAAGGATCTTTTGGACATTTTATGTTTATTATGAAACATGCTTATTAGTGGGATTT
131 TAGAAAAAGCAAGGATCTTTTGGACATTTTATGTTTATTATGAAACATGCTTATTAGTGGGATTT
47119771 GAGAATCATGTGATGTCGATACCATCATGCAATTTCCGAGCTGCTGCTTATGTCTTTGAGTCTTT
196 GAGAATCATGTGATGTCGATACCATCATGCAATTTCCGAGCTGCTGCTTATGTCTTTGAGTCTTT
47119836 GCA
261 GCA
47119839 GTT
1 GTT
47119842 TTCTCTTTCT
Statistics
Matches: 264, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
263 264 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.42
Consensus pattern (263 bp):
GTTATTTTCCTTTTCTGATACAAGAAACCATTGTAGTAAACGATGTTGTATGTATATTGTTTCCA
TATGCTTTATTTTCTGGTTATTAGGGTTTGTTGTGTTGGTGCTCATATTCAAGAGTCCTTACTGG
TAGAAAAAGCAAGGATCTTTTGGACATTTTATGTTTATTATGAAACATGCTTATTAGTGGGATTT
GAGAATCATGTGATGTCGATACCATCATGCAATTTCCGAGCTGCTGCTTATGTCTTTGAGTCTTT
GCA
Found at i:47127669 original size:15 final size:15
Alignment explanation
Indices: 47127649--47127705 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
47127639 CAGCCAAGTA
47127649 AATTAATTAATTTTT
1 AATTAATTAATTTTT
* *
47127664 AATTAAATAA-ATTT
1 AATTAATTAATTTTT
*
47127678 AATTAATTGAAATTTCTA
1 AATTAATT--AATTT-TT
47127696 AATTAATTAA
1 AATTAATTAA
47127706 AGGAAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
14 10 0.30
15 9 0.27
16 4 0.12
17 1 0.03
18 9 0.27
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATTAATTAATTTTT
Found at i:47130871 original size:16 final size:16
Alignment explanation
Indices: 47130850--47130894 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
47130840 TGCAACAACC
*
47130850 AAGAAATATTATAAAG
1 AAGAAATATTAAAAAG
47130866 AAGAAA-AGTTAAAAAG
1 AAGAAATA-TTAAAAAG
*
47130882 CAGAAATATTAAA
1 AAGAAATATTAAA
47130895 CTAACCAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.13, T:0.20
Consensus pattern (16 bp):
AAGAAATATTAAAAAG
Found at i:47133344 original size:23 final size:21
Alignment explanation
Indices: 47133299--47133348 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
47133289 ATATTTGTTT
*
47133299 TAAAAA-AATAAATAAATAAA
1 TAAAAACAACAAATAAATAAA
47133319 TAAAAACAACAAATATATATAAA
1 TAAAAACAACAAATA-A-ATAAA
47133342 TAAAAAC
1 TAAAAAC
47133349 TAATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.23
21 7 0.27
22 1 0.04
23 12 0.46
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAAAACAACAAATAAATAAA
Found at i:47134021 original size:22 final size:23
Alignment explanation
Indices: 47133979--47134022 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
47133969 AAATTAAATT
47133979 TCTAAGATTACAAAATCATATCG
1 TCTAAGATTACAAAATCATATCG
*
47134002 TCTAAGATTAC-ATATCATATC
1 TCTAAGATTACAAAATCATATC
47134023 TAAGATTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCG
Found at i:47134026 original size:19 final size:20
Alignment explanation
Indices: 47133979--47134036 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
47133969 AAATTAAATT
*
47133979 TCTAAGATTACAAAATCATATC
1 TCTAAGATTAC-ATATCATA-C
47134001 GTCTAAGATTACATATCATA-
1 -TCTAAGATTACATATCATAC
*
47134021 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
47134037 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (20 bp):
TCTAAGATTACATATCATAC
Found at i:47146017 original size:13 final size:13
Alignment explanation
Indices: 47145999--47146023 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47145989 GCATTTAAAT
47145999 TTTTTATAATTTA
1 TTTTTATAATTTA
47146012 TTTTTATAATTT
1 TTTTTATAATTT
47146024 TTAATAATTT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTATAATTTA
Found at i:47146022 original size:23 final size:22
Alignment explanation
Indices: 47145992--47146081 Score: 76
Period size: 22 Copynumber: 3.9 Consensus size: 22
47145982 TATGTCAGCA
*
47145992 TTTAAATTTTTTATAATTTATT
1 TTTAAATTTTTAATAATTTATT
47146014 TTTATAATTTTTAATAATTTAAATTAT
1 TTTA-AATTTTTAATAATTT--A-T-T
*
47146041 TTTTAA-TTTTAATAATATT-TT
1 TTTAAATTTTTAATAAT-TTATT
* *
47146062 TTTGAATTTTTAAAAATTTA
1 TTTAAATTTTTAATAATTTA
47146082 AAAATTAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
21 8 0.14
22 14 0.25
23 14 0.25
25 11 0.20
26 5 0.09
27 4 0.07
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (22 bp):
TTTAAATTTTTAATAATTTATT
Found at i:47151865 original size:36 final size:34
Alignment explanation
Indices: 47151782--47151867 Score: 86
Period size: 35 Copynumber: 2.4 Consensus size: 34
47151772 CGGCATAAGT
* *
47151782 GTATATATATTATAAATATTTAAAGTTAAAATATA
1 GTATATATATTAT-AATATTAAAACTTAAAATATA
47151817 -TATTATAATATTATAATATTAAAACTTAAAAGT-TAA
1 GTA-TAT-ATATTATAATATTAAAACTTAAAA-TAT-A
47151853 GTATATATTATTATA
1 GTATATA-TATTATA
47151868 TTATAATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
34 2 0.05
35 20 0.47
36 19 0.44
37 2 0.05
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.44
Consensus pattern (34 bp):
GTATATATATTATAATATTAAAACTTAAAATATA
Found at i:47156309 original size:28 final size:28
Alignment explanation
Indices: 47156253--47156309 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
47156243 GCATAAGTGT
*
47156253 ATATATATTATAAATATTTAATGTGAAA
1 ATATATATTATAAATATTTAATATGAAA
*
47156281 ATATATATTAT-AATATTATAATATTAAA
1 ATATATATTATAAATATT-TAATATGAAA
47156309 A
1 A
47156310 ATTAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
ATATATATTATAAATATTTAATATGAAA
Found at i:47157107 original size:24 final size:24
Alignment explanation
Indices: 47157080--47157126 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
47157070 ATTGAAATGG
47157080 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
47157104 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
47157127 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:47157339 original size:41 final size:40
Alignment explanation
Indices: 47157282--47157417 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 40
47157272 CGACTTCGAG
47157282 TCGATGAGACACTGGGTGTTAATTTGTTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGTTAATTT-TTACTTCGGATTAAT
* ** * * * *
47157323 TCGATGAGGCACTGGGTG-CCA-CTTTACTTCAGTTTAAC
1 TCGATGAGACACTGGGTGTTAATTTTTACTTCGGATTAAT
*
47157361 T-GATGAGACACTGGGTGTTAATTTATTACTTCGAATT-AT
1 TCGATGAGACACTGGGTGTTAATTT-TTACTTCGGATTAAT
* * *
47157400 CCGATGAGGCACTAGGTG
1 TCGATGAGACACTGGGTG
47157418 CCAAACTGGT
Statistics
Matches: 73, Mismatches: 18, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
37 15 0.21
38 14 0.19
39 3 0.04
40 24 0.33
41 17 0.23
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTTAATTTTTACTTCGGATTAAT
Found at i:47161803 original size:24 final size:24
Alignment explanation
Indices: 47161775--47161826 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
47161765 TGAAATAATG
47161775 AAAATAACTTAAAA-TTTATATATA
1 AAAATAACTTAAAATTTTATAT-TA
**
47161799 AAAATATTTTAAAATTTTATATTA
1 AAAATAACTTAAAATTTTATATTA
47161823 AAAA
1 AAAA
47161827 ATATTTATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAATAACTTAAAATTTTATATTA
Found at i:47161833 original size:24 final size:24
Alignment explanation
Indices: 47161783--47161832 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
47161773 TGAAAATAAC
47161783 TTAAAATTTATATATAAAAATATT
1 TTAAAATTTATATATAAAAATATT
47161807 TTAAAATTT-TATATTAAAAAATATT
1 TTAAAATTTATATA-T-AAAAATATT
47161832 T
1 T
47161833 ATGAGTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 4 0.17
24 10 0.42
25 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAAAATTTATATATAAAAATATT
Found at i:47178652 original size:13 final size:13
Alignment explanation
Indices: 47178634--47178666 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
47178624 ACTCAAAATT
47178634 TCAAAAGTACTTC
1 TCAAAAGTACTTC
*
47178647 TCAAAAGTACTTT
1 TCAAAAGTACTTC
47178660 TCAAAAG
1 TCAAAAG
47178667 CATTGCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (13 bp):
TCAAAAGTACTTC
Found at i:47182569 original size:24 final size:24
Alignment explanation
Indices: 47182522--47182575 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
47182512 TCTTTCTAGA
* *
47182522 ATATTTAGTATTTATTAATTTAAT
1 ATATTTAGCATTTATTAATATAAT
*
47182546 ATATTTAGCATTTATTAGTATAAT
1 ATATTTAGCATTTATTAATATAAT
*
47182570 TTATTT
1 ATATTT
47182576 GACCTACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (24 bp):
ATATTTAGCATTTATTAATATAAT
Found at i:47183183 original size:15 final size:15
Alignment explanation
Indices: 47183135--47183185 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
47183125 ACAACACGAT
47183135 AATATAAGTGACTAA
1 AATATAAGTGACTAA
* * *
47183150 AACATAA-T-ATTTCA
1 AATATAAGTGA-CTAA
47183164 AATATAAGTGACTAA
1 AATATAAGTGACTAA
47183179 AATATAA
1 AATATAA
47183186 TCTGAGACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 1 0.04
14 9 0.33
15 16 0.59
16 1 0.04
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (15 bp):
AATATAAGTGACTAA
Found at i:47186334 original size:29 final size:29
Alignment explanation
Indices: 47186278--47186334 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
47186268 ATTTTAACCG
** ***
47186278 TTAACCGAACCGATTTTTTTTTTTTTAAA
1 TTAACCGAACCGAAATTTTTTCGGTTAAA
47186307 TTAACCGAACCGAAATTTTTTCGGTTAA
1 TTAACCGAACCGAAATTTTTTCGGTTAA
47186335 TAAGGTCGGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.44
Consensus pattern (29 bp):
TTAACCGAACCGAAATTTTTTCGGTTAAA
Found at i:47186404 original size:9 final size:9
Alignment explanation
Indices: 47186390--47186448 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
47186380 TTTGATTAAA
47186390 AATTACCCG
1 AATTACCCG
47186399 AATTACCCG
1 AATTACCCG
*
47186408 AATTAACCG
1 AATTACCCG
47186417 AATTA-CCG
1 AATTACCCG
*
47186425 AAAAATACCCG
1 --AATTACCCG
*
47186436 AATTACCCA
1 AATTACCCG
47186445 AATT
1 AATT
47186449 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
8 3 0.07
9 33 0.77
10 4 0.09
11 3 0.07
ACGTcount: A:0.42, C:0.27, G:0.08, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:47187289 original size:17 final size:17
Alignment explanation
Indices: 47187251--47187324 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 17
47187241 TCAATATGAC
*
47187251 TAAACAATATAATAATA
1 TAAATAATATAATAATA
*
47187268 TAAATAATATAA-AATG
1 TAAATAATATAATAATA
*
47187284 TGAAATTTAATTTAATAATA
1 T-AAA--TAATATAATAATA
*
47187304 TAAATAGTATACATAA-A
1 TAAATAATATA-ATAATA
47187321 TAAA
1 TAAA
47187325 ATTATTATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
16 4 0.09
17 24 0.52
18 4 0.09
19 10 0.22
20 4 0.09
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (17 bp):
TAAATAATATAATAATA
Found at i:47187577 original size:31 final size:30
Alignment explanation
Indices: 47187542--47187601 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
47187532 GGAGGTGGGA
47187542 TGGGAAGAGAATAAAAATTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
47187573 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
47187602 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:47187914 original size:9 final size:9
Alignment explanation
Indices: 47187897--47187927 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47187887 TCGAGTTGAT
47187897 TCGAATAAC
1 TCGAATAAC
*
47187906 TCGATTAAC
1 TCGAATAAC
47187915 TCGAATAAC
1 TCGAATAAC
47187924 TCGA
1 TCGA
47187928 TTCATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:47198803 original size:16 final size:15
Alignment explanation
Indices: 47198778--47198807 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47198768 AAGATTAAAT
47198778 AAGAAAAAAAAAAGA
1 AAGAAAAAAAAAAGA
47198793 AAGAGAAAAAAAAAG
1 AAGA-AAAAAAAAAG
47198808 TATGTGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAAAAGA
Found at i:47204078 original size:51 final size:52
Alignment explanation
Indices: 47204018--47204119 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
47204008 CTAATGCATA
* * * *
47204018 CTTTAGCTTTGCAGCAAT-TT-TTTGTTTCAAAACGAGTGATGTAGGATAAGG
1 CTTTAGCTTTGCA-AAATGTTGTATGTTTCAAAACAAGTGATGTAAGATAAGG
47204069 CTTTAGCTTTGCAAAATGTTGTATGTTTCAAAACAAGTGATGTAAGATAAG
1 CTTTAGCTTTGCAAAATGTTGTATGTTTCAAAACAAGTGATGTAAGATAAG
47204120 TAAGGAGAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
50 3 0.07
51 15 0.33
52 27 0.60
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (52 bp):
CTTTAGCTTTGCAAAATGTTGTATGTTTCAAAACAAGTGATGTAAGATAAGG
Found at i:47218103 original size:21 final size:21
Alignment explanation
Indices: 47218077--47218117 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47218067 ATCTGCTCAA
* *
47218077 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
47218098 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
47218118 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:47224018 original size:19 final size:19
Alignment explanation
Indices: 47223978--47224024 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
47223968 ATAGTAGTCA
*
47223978 TACTTAATAATCTCTTCTC
1 TACTTAATAATCTCTTCAC
*
47223997 TACTT-ATACTCTCTTACAC
1 TACTTAATAATCTCTT-CAC
47224016 TACTCTAAT
1 TACT-TAAT
47224025 GACTTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.39
19 11 0.48
20 1 0.04
21 2 0.09
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (19 bp):
TACTTAATAATCTCTTCAC
Found at i:47227313 original size:21 final size:21
Alignment explanation
Indices: 47227287--47227327 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47227277 AGACGAGCAA
* *
47227287 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
47227308 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
47227328 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:47244919 original size:11 final size:11
Alignment explanation
Indices: 47244905--47244934 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
47244895 GCTTTTTTTC
*
47244905 ATTATTTTGTT
1 ATTATTTTGCT
47244916 ATTATTTTGCT
1 ATTATTTTGCT
47244927 ATTATTTT
1 ATTATTTT
47244935 ATTGTTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (11 bp):
ATTATTTTGCT
Found at i:47247320 original size:18 final size:18
Alignment explanation
Indices: 47247284--47247320 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47247274 AAGAATTATT
* *
47247284 TTTTATTTTTTAAAGATA
1 TTTTATTTTTAAAAAATA
47247302 TTTTATTTTTAAAAAATA
1 TTTTATTTTTAAAAAATA
47247320 T
1 T
47247321 CTGTTGACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTATTTTTAAAAAATA
Found at i:47248999 original size:18 final size:18
Alignment explanation
Indices: 47248976--47249020 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
47248966 GAATAGATTT
47248976 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
47248994 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
47249012 TTAATTAAA
1 TTAATTAAA
47249021 CCTTGAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Done.