Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8279816
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 37
Found at i:243204 original size:2 final size:2
Alignment explanation
Indices: 243197--243232 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
243187 ATTTCTATTA
243197 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
243233 TCACTCTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:244728 original size:29 final size:29
Alignment explanation
Indices: 244685--244767 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
244675 CTCACCTAAC
*
244685 TAAATTGATGTAAGCAATGACGTCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
244715 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
244744 TAAATGATGTAAGCAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
244768 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:249467 original size:29 final size:29
Alignment explanation
Indices: 249424--249506 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
249414 CTCACCTAAC
249424 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
249454 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
*
249483 TAAATGATGTAAGCAATGGCATCA
1 TAAATGATGTAAGCAATGACATCA
249507 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:251078 original size:31 final size:31
Alignment explanation
Indices: 251043--251117 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
251033 ATTGAGCTTG
251043 ACTCAACTCGAAAAGTTTAAAAT-TGAGTTCA
1 ACTCAACTCGAAAAGTTT-AAATGTGAGTTCA
* *
251074 ACTCAACTTGAAAAGTTTAAATGTGAGTTCG
1 ACTCAACTCGAAAAGTTTAAATGTGAGTTCA
251105 ACTCAACTC-AAAA
1 ACTCAACTCGAAAA
251118 TTGTCAAGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 8 0.20
31 32 0.80
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (31 bp):
ACTCAACTCGAAAAGTTTAAATGTGAGTTCA
Found at i:254696 original size:113 final size:112
Alignment explanation
Indices: 254559--255023 Score: 680
Period size: 111 Copynumber: 4.1 Consensus size: 112
254549 TTGTCGGTTT
* * ** *
254559 GTGTCGATAATTTATAAAATTATATTAATCCATAACAATATAATAGGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
254624 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
254672 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * * *
254736 GGTCTATAAATGACAAAACATGTAAATCGTTACAGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
254783 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
254848 GGTTTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * * *
254895 GTGTCGATATTTTATAAAAAATGTATCGATCCATAATAATATAACAGGTAAAAAAAATAACAAAA
1 GTGTCGATACTTTAT-AAAAATATATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAA
* * * * * *
254960 CCGATCTATGAATGACAAAACAGGTAAAGCGCTATCAGATATGTTGATA
64 CCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
255009 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
255024 TATAAGTATC
Statistics
Matches: 319, Mismatches: 30, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
111 104 0.33
112 71 0.22
113 75 0.24
114 69 0.22
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.27
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:255201 original size:182 final size:182
Alignment explanation
Indices: 254892--255344 Score: 656
Period size: 182 Copynumber: 2.5 Consensus size: 182
254882 GGATATATTG
* * *
254892 AAAGTGTCGATATTTTATAAAAAATGTATCGATCCATAATAATATAACAGGTAAAAAAAATAACA
1 AAAGTGTCGATACTTTAT-AAAAATGTATCGATCCATAATAATATAACAGGT-AAAAATATGACA
* * * *
254957 AAACCGATCTATG-AATGACAAAACAGGTAAAGCGCTATCAGATATGTTGATAGTGTCGATACTT
64 AAACCGATCT-CGAAATGACAAAACAGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTT
* * *
255021 TATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGATCTAAT
128 TATTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAATTATAGAGCTAAT
* * *
255076 AAAGTGTTGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAA
* * * * *
255141 ACCGGTCTCGAAATGACAATACCGGTAAAGAGCTACCGGATATTTTGAAAGTGTCGATACTTTAT
66 ACCGATCTCGAAATGACAAAACAGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTAT
*
255206 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAATTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAATTATAGAGCTAAT
* * *
255258 AAAATGTCGATACTTTATAAAAATGTATTGATCCATAATAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAA
* *
255323 ATCGATCTCGAAATGAAAAAAC
66 ACCGATCTCGAAATGACAAAAC
255345 CGATAGTAAA
Statistics
Matches: 239, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
181 1 0.00
182 191 0.80
183 31 0.13
184 16 0.07
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.29
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAA
ACCGATCTCGAAATGACAAAACAGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAATTATAGAGCTAAT
Found at i:255993 original size:23 final size:23
Alignment explanation
Indices: 255957--256013 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
255947 TTAGTTAGAA
* *
255957 AATATATCAATATAAGTACTACCT
1 AATATAT-TATATAAGCACTACCT
* **
255981 ATTATATTATATAAGCGTTACCT
1 AATATATTATATAAGCACTACCT
256004 AATATATTAT
1 AATATATTAT
256014 TGTACTTGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (23 bp):
AATATATTATATAAGCACTACCT
Found at i:262659 original size:56 final size:56
Alignment explanation
Indices: 262592--262704 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
262582 TTGTAGAAAT
* * *
262592 GCAAGTACACATCTTTCAATAG-ATTCTGATGATGTTCATGGGCCCACTGGAACCTG
1 GCAAGTACACATCTTTCAATAGAATT-TGATGATATTCACGGGCCAACTGGAACCTG
* *
262648 GCAAGTACACATCTTTCTATAGAATTTGATGATATTCACGGGCCAACTGGAATCTG
1 GCAAGTACACATCTTTCAATAGAATTTGATGATATTCACGGGCCAACTGGAACCTG
262704 G
1 G
262705 TATAGTCATC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 48 0.94
57 3 0.06
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (56 bp):
GCAAGTACACATCTTTCAATAGAATTTGATGATATTCACGGGCCAACTGGAACCTG
Found at i:271508 original size:29 final size:29
Alignment explanation
Indices: 271462--271547 Score: 145
Period size: 29 Copynumber: 3.0 Consensus size: 29
271452 AGTGTTGGCC
*
271462 GTAGGTCGTCATGTACTCCGGGCGACCTT
1 GTAGGTCGTCATGCACTCCGGGCGACCTT
271491 GTAGGTCGTCATGCACTCCGGGCGACCTT
1 GTAGGTCGTCATGCACTCCGGGCGACCTT
* *
271520 GTAGGTCGCCATGCACTTCGGGCGACCT
1 GTAGGTCGTCATGCACTCCGGGCGACCT
271548 ACCCTTGCTC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.14, C:0.30, G:0.31, T:0.24
Consensus pattern (29 bp):
GTAGGTCGTCATGCACTCCGGGCGACCTT
Found at i:271582 original size:12 final size:12
Alignment explanation
Indices: 271565--271589 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
271555 CTCAAACAGA
271565 GAGAATGAACGT
1 GAGAATGAACGT
271577 GAGAATGAACGT
1 GAGAATGAACGT
271589 G
1 G
271590 TTGCATGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (12 bp):
GAGAATGAACGT
Found at i:271651 original size:29 final size:29
Alignment explanation
Indices: 271618--271702 Score: 118
Period size: 29 Copynumber: 2.9 Consensus size: 29
271608 TCCCAACACA
271618 TAGGTCGCCATGCCCTCCGGGAGACCTTG
1 TAGGTCGCCATGCCCTCCGGGAGACCTTG
271647 TAGGTCGCCATGCCCTCC-GGACGACCTTG
1 TAGGTCGCCATGCCCTCCGGGA-GACCTTG
* * * *
271676 TAGGTCGTCATGCACTTCGGGCGACCT
1 TAGGTCGCCATGCCCTCCGGGAGACCT
271703 ACACTCGCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.06
29 45 0.90
30 2 0.04
ACGTcount: A:0.14, C:0.34, G:0.29, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCCGGGAGACCTTG
Found at i:271747 original size:23 final size:24
Alignment explanation
Indices: 271720--271772 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
271710 CTCGGCTTCC
271720 CTCGGATT-CCCTCGCATAGCTCG
1 CTCGGATTGCCCTCGCATAGCTCG
271743 CTCGG-TTGCCCTCGCATAGCTCG
1 CTCGGATTGCCCTCGCATAGCTCG
*
271766 TTCGGAT
1 CTCGGAT
271773 GGCCTTGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 2 0.07
23 24 0.89
24 1 0.04
ACGTcount: A:0.11, C:0.36, G:0.25, T:0.28
Consensus pattern (24 bp):
CTCGGATTGCCCTCGCATAGCTCG
Found at i:271792 original size:20 final size:20
Alignment explanation
Indices: 271767--271804 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
271757 CATAGCTCGT
*
271767 TCGGATGGCCTTGGATGCTC
1 TCGGATGGCCTCGGATGCTC
271787 TCGGATGGCCTCGGATGC
1 TCGGATGGCCTCGGATGC
271805 CCAGCGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:271880 original size:29 final size:29
Alignment explanation
Indices: 271843--271900 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
271833 GCAATCTCTT
*
271843 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
* *
271872 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
271901 CGGCCAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGGCGACCTA
Found at i:287519 original size:23 final size:23
Alignment explanation
Indices: 287493--287541 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
287483 TCATACTTAA
*
287493 CTCGATTGAAGCTCAAACTCAAG
1 CTCGATTGAAGCTCAAACGCAAG
* * *
287516 CTCGATTTAAGTTCTAACGCAAG
1 CTCGATTGAAGCTCAAACGCAAG
287539 CTC
1 CTC
287542 AAATTTGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (23 bp):
CTCGATTGAAGCTCAAACGCAAG
Found at i:287593 original size:21 final size:22
Alignment explanation
Indices: 287569--287609 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
287559 GACAACGCCG
*
287569 TAATTGTCAA-ATAAATAAACC
1 TAATTCTCAATATAAATAAACC
*
287590 TAATTCTCAATTTAAATAAA
1 TAATTCTCAATATAAATAAA
287610 TAAAGTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.34
Consensus pattern (22 bp):
TAATTCTCAATATAAATAAACC
Found at i:295854 original size:2 final size:2
Alignment explanation
Indices: 295847--295879 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
295837 ATTAAAATTT
295847 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
295880 TAATCAAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:298877 original size:28 final size:28
Alignment explanation
Indices: 298845--298898 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
298835 TCCGTTTACA
*
298845 TTATGTCGACAAGTCAATGTTTGAAACT
1 TTATGTCGACAAGTCAATGCTTGAAACT
* * *
298873 TTATGTTGGCGAGTCAATGCTTGAAA
1 TTATGTCGACAAGTCAATGCTTGAAA
298899 GCATGACGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (28 bp):
TTATGTCGACAAGTCAATGCTTGAAACT
Found at i:300763 original size:17 final size:16
Alignment explanation
Indices: 300741--300797 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
300731 TTAATTTTTA
300741 ATTTTATATATAATAAT
1 ATTTTA-ATATAATAAT
300758 ATTTTAAATATTATATAA-
1 ATTTT-AATA-TA-ATAAT
* *
300776 AATTTAATACAATAAT
1 ATTTTAATATAATAAT
300792 ATTTTA
1 ATTTTA
300798 CTTTGCATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
15 4 0.12
16 6 0.18
17 12 0.36
18 7 0.21
19 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTAATATAATAAT
Found at i:305384 original size:124 final size:125
Alignment explanation
Indices: 305230--305558 Score: 432
Period size: 130 Copynumber: 2.6 Consensus size: 125
305220 CATTGTATAT
* *
305230 TACTAAAACAAAAATAAAAGCTCATTTAATTAACCACATGTTAGATTACATCCTAAACCCTAAAC
1 TACTAAAAGAAAAATAAAAGCTCATTTAATTAAACACATGTTAGATTACA-CCTAAACCCTAAAC
** * * * *
305295 CCTAAATTCTAATCCCTA-ATC-CCTAAGCCCTAAGCTCTTAATCTAATTATGTGATAGGG
65 CCTAAACCCTAAGCCCTATATCACCTAAACCCTAAACTCTTAATATAATTATGTGATAGGG
** * * *
305354 TTTTAAAAGAAAAATAAAAGCTTATTTAATTAAGCACGTGTTAGATTACACCCTAAACCC-AAAC
1 TACTAAAAGAAAAATAAAAGCTCATTTAATTAAACACATGTTAGATTACA-CCTAAACCCTAAAC
305418 CCTAAACCCTAAGCCCTATATCTTAAATCCTAAACCCTAAACTCTTAATATAATTATGTGATAGG
65 CCTAAACCCTAAGCCCTATATC----A-CCTAAACCCTAAACTCTTAATATAATTATGTGATAGG
305483 G
125 G
* *
305484 TACTAAAAGAAAAATAAAAGCTCATTTAATTAAACACATGTTAGATTAC-CCTAAACCTTAAGCC
1 TACTAAAAGAAAAATAAAAGCTCATTTAATTAAACACATGTTAGATTACACCTAAACCCTAAACC
305548 CTAAACCCTAA
66 CTAAACCCTAA
305559 ACACTTAATC
Statistics
Matches: 177, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
123 19 0.11
124 56 0.32
128 8 0.05
129 15 0.08
130 79 0.45
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (125 bp):
TACTAAAAGAAAAATAAAAGCTCATTTAATTAAACACATGTTAGATTACACCTAAACCCTAAACC
CTAAACCCTAAGCCCTATATCACCTAAACCCTAAACTCTTAATATAATTATGTGATAGGG
Found at i:305424 original size:7 final size:7
Alignment explanation
Indices: 305403--305459 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
305393 GTTAGATTAC
305403 ACCCTAA
1 ACCCTAA
305410 ACCC-AA
1 ACCCTAA
305416 ACCCTAA
1 ACCCTAA
305423 ACCCTAA
1 ACCCTAA
* *
305430 GCCCTAT
1 ACCCTAA
* *
305437 ATCTTAA
1 ACCCTAA
*
305444 ATCCTAA
1 ACCCTAA
305451 ACCCTAA
1 ACCCTAA
305458 AC
1 AC
305460 TCTTAATATA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 6 0.15
7 35 0.85
ACGTcount: A:0.40, C:0.39, G:0.02, T:0.19
Consensus pattern (7 bp):
ACCCTAA
Found at i:307633 original size:33 final size:30
Alignment explanation
Indices: 307543--307633 Score: 137
Period size: 30 Copynumber: 2.9 Consensus size: 30
307533 AGCTAACTGG
307543 TTGACATGTTGCAATCTTTTGTAAGTAAAC
1 TTGACATGTTGCAATCTTTTGTAAGTAAAC
*
307573 TTGACATGTTGCAATCTCTTGTAAGTAAAC
1 TTGACATGTTGCAATCTTTTGTAAGTAAAC
*
307603 TTGACATGTTGATGCCATCTTTTGTAAGTAA
1 TTGACATG-T--TGCAATCTTTTGTAAGTAA
307634 GCTTAACTGG
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
30 37 0.67
31 1 0.02
33 17 0.31
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.40
Consensus pattern (30 bp):
TTGACATGTTGCAATCTTTTGTAAGTAAAC
Found at i:307795 original size:36 final size:36
Alignment explanation
Indices: 307721--307788 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 36
307711 AGGAAAATAG
* *
307721 TGTCATCTTGTATAAATTTGGATATGTTGTCATATT
1 TGTCATCTTGTATAAATTTAGATATGTTGCCATATT
* *
307757 TGTCAT-TTTTATAAATTTAGATGTGTTGCCAT
1 TGTCATCTTGTATAAATTTAGATATGTTGCCAT
307789 GTTTTGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 22 0.79
36 6 0.21
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.50
Consensus pattern (36 bp):
TGTCATCTTGTATAAATTTAGATATGTTGCCATATT
Found at i:308020 original size:17 final size:17
Alignment explanation
Indices: 307998--308034 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
307988 ATTCGAGTTT
307998 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
308015 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
308032 GAG
1 GAG
308035 CTCAAATTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.27
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:308045 original size:29 final size:29
Alignment explanation
Indices: 308011--308075 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
308001 TTCGAGCTTG
308011 AATCGAGTTCGAGCTTGAATCGAGCTCAA
1 AATCGAGTTCGAGCTTGAATCGAGCTCAA
*
308040 ATTCGAGTTCGAGCTTGAATCGAGCTCAA
1 AATCGAGTTCGAGCTTGAATCGAGCTCAA
308069 AATCGAG
1 AATCGAG
308076 CTTCAATCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (29 bp):
AATCGAGTTCGAGCTTGAATCGAGCTCAA
Found at i:308064 original size:11 final size:11
Alignment explanation
Indices: 308048--308091 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
308038 AAATTCGAGT
308048 TCGAGCTTGAA
1 TCGAGCTTGAA
**
308059 TCGAGCTCAAAA
1 TCGAGCT-TGAA
*
308071 TCGAGCTTCAA
1 TCGAGCTTGAA
308082 TCGAGCTTGA
1 TCGAGCTTGA
308092 GTCTCGAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:308078 original size:23 final size:25
Alignment explanation
Indices: 308019--308088 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 25
308009 TGAATCGAGT
308019 TCGAGCTTGAATCGAGCTCAAATTCGAG
1 TCGAGCTTGAATCGAGCTCAAA-T--AG
308047 TTCGAGCTTGAATCGAGCTCAAA-A-
1 -TCGAGCTTGAATCGAGCTCAAATAG
*
308071 TCGAGCTTCAATCGAGCT
1 TCGAGCTTGAATCGAGCT
308089 TGAGTCTCGA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 17 0.43
25 1 0.03
29 22 0.55
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
TCGAGCTTGAATCGAGCTCAAATAG
Found at i:308199 original size:31 final size:31
Alignment explanation
Indices: 308139--308199 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
308129 GTTCGAGCCT
* *
308139 TTTCGAGTTCGAGTCGAGTTTCAATATTTTC
1 TTTCGAGTTCGAGTCGAGCTTCAAAATTTTC
*
308170 TTTCGAGTTCGAGTCGAGCTTGAAAATTTT
1 TTTCGAGTTCGAGTCGAGCTTCAAAATTTT
308200 AGGCTCGCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (31 bp):
TTTCGAGTTCGAGTCGAGCTTCAAAATTTTC
Found at i:315475 original size:13 final size:13
Alignment explanation
Indices: 315457--315482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
315447 TAAAATTAAA
315457 ATAAATAAATAAT
1 ATAAATAAATAAT
315470 ATAAATAAATAAT
1 ATAAATAAATAAT
315483 TTAATAATAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAATAAATAAT
Found at i:322395 original size:3 final size:3
Alignment explanation
Indices: 322381--322453 Score: 84
Period size: 3 Copynumber: 25.0 Consensus size: 3
322371 AGCATTTATA
322381 TTC TTC TT- TTC TTC TTTC TTC TTTC TTC TTC TTC TTC TTC -TC TT-
1 TTC TTC TTC TTC TTC -TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC
322425 TT- TTC TTC TT- TTC TTTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC
322454 CTCACACCCC
Statistics
Matches: 63, Mismatches: 0, Indels: 14
0.82 0.00 0.18
Matches are distributed among these distances:
2 10 0.16
3 44 0.70
4 9 0.14
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:322401 original size:15 final size:16
Alignment explanation
Indices: 322381--322453 Score: 95
Period size: 15 Copynumber: 4.9 Consensus size: 16
322371 AGCATTTATA
322381 TTCTTCTT-TTCTTCT
1 TTCTTCTTCTTCTTCT
322396 TTCTTC-T-TTCTTC-
1 TTCTTCTTCTTCTTCT
322409 TTCTTCTTCTTC-TCT
1 TTCTTCTTCTTCTTCT
*
322424 TTTTTCTTCTT-TTCT
1 TTCTTCTTCTTCTTCT
322439 TTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTC
322454 CTCACACCCC
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
13 6 0.12
14 10 0.20
15 32 0.63
16 3 0.06
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCTTCTTCTTCTTCT
Found at i:322439 original size:36 final size:39
Alignment explanation
Indices: 322382--322453 Score: 123
Period size: 36 Copynumber: 1.9 Consensus size: 39
322372 GCATTTATAT
322382 TCTTCTTTTCTTCTTTCTTCTTTCTTCTTCTTCTTCTTC
1 TCTTCTTTTCTTCTTTCTTCTTTCTTCTTCTTCTTCTTC
322421 TCTT-TTTTCTTC-TT-TTCTTTCTTCTTCTTCTTC
1 TCTTCTTTTCTTCTTTCTTCTTTCTTCTTCTTCTTC
322454 CTCACACCCC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 19 0.58
37 2 0.06
38 8 0.24
39 4 0.12
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (39 bp):
TCTTCTTTTCTTCTTTCTTCTTTCTTCTTCTTCTTCTTC
Found at i:322480 original size:33 final size:33
Alignment explanation
Indices: 322443--322520 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
322433 TTTTCTTTCT
322443 TCTTCTTCTTC-CTCACACCCCCGTTAACCTCAC
1 TCTTCTTCTTCTCTCACA-CCCCGTTAACCTCAC
* *
322476 TCTTCTTCTTCTCTCACACCCTGTTAACTTCAC
1 TCTTCTTCTTCTCTCACACCCCGTTAACCTCAC
322509 TCTTCTTCTTCT
1 TCTTCTTCTTCT
322521 ATTCTCCCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
33 36 0.86
34 6 0.14
ACGTcount: A:0.13, C:0.42, G:0.03, T:0.42
Consensus pattern (33 bp):
TCTTCTTCTTCTCTCACACCCCGTTAACCTCAC
Found at i:325163 original size:30 final size:31
Alignment explanation
Indices: 325129--325202 Score: 105
Period size: 32 Copynumber: 2.4 Consensus size: 31
325119 AAATAGAAGA
325129 AGAGAAGAAGAGTG-GGTTAATAGGGGTATG
1 AGAGAAGAAGAGTGAGGTTAATAGGGGTATG
* *
325159 AGAGAAAGAAGAGTGAGGTTAATGGGGGTGTG
1 AGAG-AAGAAGAGTGAGGTTAATAGGGGTATG
325191 AGAAGAAGAAGA
1 AG-AGAAGAAGA
325203 AGAAGAAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 4 0.10
31 10 0.26
32 23 0.59
33 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.43, T:0.16
Consensus pattern (31 bp):
AGAGAAGAAGAGTGAGGTTAATAGGGGTATG
Found at i:325199 original size:3 final size:3
Alignment explanation
Indices: 325191--325256 Score: 105
Period size: 3 Copynumber: 21.3 Consensus size: 3
325181 TGGGGGTGTG
325191 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGAA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA
*
325237 GGA AGA ATGA AGA AGA AGA A
1 AGA AGA A-GA AGA AGA AGA A
325257 CCGGGGTTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
3 53 0.90
4 6 0.10
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:328390 original size:24 final size:25
Alignment explanation
Indices: 328362--328418 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
328352 TTACAATATT
*
328362 TAAAATAA-CAA-ATAAAAGTAAAAG
1 TAAAATAAGCAACATAAAA-TAAAAA
328386 TAAAA-AAGCAACATAAAATAAAAA
1 TAAAATAAGCAACATAAAATAAAAA
328410 TAAACATAA
1 TAAA-ATAA
328419 ACACAAGGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 2 0.07
24 17 0.61
25 7 0.25
26 2 0.07
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (25 bp):
TAAAATAAGCAACATAAAATAAAAA
Found at i:331538 original size:147 final size:147
Alignment explanation
Indices: 331271--331568 Score: 587
Period size: 147 Copynumber: 2.0 Consensus size: 147
331261 AACAAGATCT
331271 AGGTTCCCTTGCAAGCCAATGCCAAATATATTGGCAAATCTTTTACTCTCACCTGTTGATGTTGC
1 AGGTTCCCTTGCAAGCCAATGCCAAATATATTGGCAAATCTTTTACTCTCACCTGTTGATGTTGC
331336 TGGTTCGTGCCCAATTACTTCTACTTCTTGTTTGAGTTTATTTATAAGCACATCAAACAAGATTT
66 TGGTTCGTGCCCAATTACTTCTACTTCTTGTTTGAGTTTATTTATAAGCACATCAAACAAGATTT
331401 GCCCTTAACTTAAGCTA
131 GCCCTTAACTTAAGCTA
*
331418 AGGTTCCCTTGCAAGCCAATGCCAAATATATTGGCAAATCTTTTACTCTCACCTGTTGATGTTGT
1 AGGTTCCCTTGCAAGCCAATGCCAAATATATTGGCAAATCTTTTACTCTCACCTGTTGATGTTGC
331483 TGGTTCGTGCCCAATTACTTCTACTTCTTGTTTGAGTTTATTTATAAGCACATCAAACAAGATTT
66 TGGTTCGTGCCCAATTACTTCTACTTCTTGTTTGAGTTTATTTATAAGCACATCAAACAAGATTT
331548 GCCCTTAACTTAAGCTA
131 GCCCTTAACTTAAGCTA
331565 AGGT
1 AGGT
331569 GCACCCCCCA
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 150 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (147 bp):
AGGTTCCCTTGCAAGCCAATGCCAAATATATTGGCAAATCTTTTACTCTCACCTGTTGATGTTGC
TGGTTCGTGCCCAATTACTTCTACTTCTTGTTTGAGTTTATTTATAAGCACATCAAACAAGATTT
GCCCTTAACTTAAGCTA
Found at i:337396 original size:13 final size:13
Alignment explanation
Indices: 337378--337402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
337368 CCGGTCAATG
337378 GTCAACGGGTCGA
1 GTCAACGGGTCGA
337391 GTCAACGGGTCG
1 GTCAACGGGTCG
337403 GGTCGGGTTG
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:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGA
Found at i:340076 original size:2 final size:2
Alignment explanation
Indices: 340071--340105 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
340061 ATATATTCTA
340071 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
340106 AATTAGAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:342129 original size:18 final size:18
Alignment explanation
Indices: 342108--342150 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
342098 CTAGTGAATC
*
342108 GTTCGAAACTGCTGAACT
1 GTTCGAAACCGCTGAACT
*
342126 GTTCAAAACCGCTGAACT
1 GTTCGAAACCGCTGAACT
*
342144 ATTCGAA
1 GTTCGAA
342151 CCGAACCGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (18 bp):
GTTCGAAACCGCTGAACT
Found at i:343813 original size:14 final size:14
Alignment explanation
Indices: 343796--343828 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
343786 ATTTCTATGT
*
343796 AGGGAATTATTTGC
1 AGGGAATTATTTAC
343810 AGGGAATTATTTAC
1 AGGGAATTATTTAC
343824 AGGGA
1 AGGGA
343829 TTACTCCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (14 bp):
AGGGAATTATTTAC
Found at i:344765 original size:3 final size:3
Alignment explanation
Indices: 344759--344800 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
344749 TAGAGTTTTA
344759 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
344801 ATAATATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:348797 original size:27 final size:27
Alignment explanation
Indices: 348767--348830 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
348757 TGCTGGCAGT
*
348767 AGCTGTTGAGAAGTTAGGTAGTTAGGA
1 AGCTGTTGAGAAGTTAGGCAGTTAGGA
* *
348794 AGCTGTTGAGAAGTTAGGCGGTTAGGG
1 AGCTGTTGAGAAGTTAGGCAGTTAGGA
348821 AGCTGTTGAG
1 AGCTGTTGAG
348831 CTTCTGTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.25, C:0.06, G:0.41, T:0.28
Consensus pattern (27 bp):
AGCTGTTGAGAAGTTAGGCAGTTAGGA
Found at i:349054 original size:27 final size:27
Alignment explanation
Indices: 349013--349076 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
349003 TTAACAGAAG
*
349013 CTCAACAGCTCCCTAACCGCCTAACTT
1 CTCAACAGCTCCCTAACCCCCTAACTT
*
349040 CTCAACAGCTTCCTAACCCCCTAACTT
1 CTCAACAGCTCCCTAACCCCCTAACTT
*
349067 TTCAACAGCT
1 CTCAACAGCT
349077 ACTTCCAGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.27, C:0.42, G:0.06, T:0.25
Consensus pattern (27 bp):
CTCAACAGCTCCCTAACCCCCTAACTT
Found at i:350781 original size:29 final size:29
Alignment explanation
Indices: 350747--350805 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
350737 CCTAAATTAA
350747 TTTGATGACATTGCTTACATCAATTTAGT
1 TTTGATGACATTGCTTACATCAATTTAGT
*
350776 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGACATTGCTTACATCAATTTAGT
350805 T
1 T
350806 AGGAGTACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
TTTGATGACATTGCTTACATCAATTTAGT
Found at i:352119 original size:14 final size:14
Alignment explanation
Indices: 352085--352122 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
352075 AAAAAATATA
352085 TTATTTCAT-TATTT
1 TTATTT-ATATATTT
352099 TTAATTTATATATTT
1 TT-ATTTATATATTT
352114 TTATTTATA
1 TTATTTATA
352123 GAATCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTTATATATTT
Found at i:359525 original size:48 final size:48
Alignment explanation
Indices: 359471--359567 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
359461 TATTCTTTTT
*
359471 TGGGTGGTAATAGTGTAGAAGCAAATTTTATTAGTATTTTGAAATTAA
1 TGGGTGGTAATAGTGTAGAAGCAAATTTGATTAGTATTTTGAAATTAA
359519 TGGGTGGTAATAGTGTAGAAGCAAATTTGATTAGTATTTTGAAATTAA
1 TGGGTGGTAATAGTGTAGAAGCAAATTTGATTAGTATTTTGAAATTAA
359567 T
1 T
359568 TAATATTTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.39
Consensus pattern (48 bp):
TGGGTGGTAATAGTGTAGAAGCAAATTTGATTAGTATTTTGAAATTAA
Found at i:359676 original size:21 final size:21
Alignment explanation
Indices: 359629--359677 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
359619 TCGACTGAAT
**
359629 TATTTTTTTAAAACTATTTGA
1 TATTTTTTTAAAAAGATTTGA
359650 TAATTTTTTTAAAAAGAGTTT-A
1 T-ATTTTTTTAAAAAGA-TTTGA
359672 TATTTT
1 TATTTT
359678 GTTCTTTGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.25
22 15 0.62
23 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (21 bp):
TATTTTTTTAAAAAGATTTGA
Found at i:359847 original size:14 final size:14
Alignment explanation
Indices: 359828--359860 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
359818 ATCATTTTCT
359828 TTTTCTT-TTTATTG
1 TTTTCTTGTTTA-TG
359842 TTTTCTTGTTTATG
1 TTTTCTTGTTTATG
359856 TTTTC
1 TTTTC
359861 ATCCCATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.06, C:0.09, G:0.09, T:0.76
Consensus pattern (14 bp):
TTTTCTTGTTTATG
Found at i:366820 original size:14 final size:14
Alignment explanation
Indices: 366786--366823 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
366776 AAAAAATATA
366786 TTATTTCAT-TATTT
1 TTATTT-ATATATTT
366800 TTAATTTATATATTT
1 TT-ATTTATATATTT
366815 TTATTTATA
1 TTATTTATA
366824 GAATCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTTATATATTT
Found at i:373017 original size:25 final size:25
Alignment explanation
Indices: 372989--373049 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
372979 TTTGGGATTA
372989 TACAGTTGCAGCGGCTTGCTTATTT
1 TACAGTTGCAGCGGCTTGCTTATTT
*
373014 TACAGTTGCAGTGGCTTGCTTATTT
1 TACAGTTGCAGCGGCTTGCTTATTT
373039 TACAGTTGCAG
1 TACAGTTGCAG
373050 ACAAGATTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (25 bp):
TACAGTTGCAGCGGCTTGCTTATTT
Found at i:376490 original size:18 final size:16
Alignment explanation
Indices: 376457--376498 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
376447 TCATGGCATT
*
376457 TAAATATAATTTAATA
1 TAAAAATAATTTAATA
*
376473 TAAAAATAATTTAAAA
1 TAAAAATAATTTAATA
376489 TATAAAATAA
1 TA-AAAATAA
376499 AAGTAGATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAAAATAATTTAATA
Found at i:379179 original size:15 final size:17
Alignment explanation
Indices: 379142--379181 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
379132 TGTTTTCTAT
379142 TTTTTTTCTTTCGAACA
1 TTTTTTTCTTTCGAACA
*
379159 TCTTTTT-TTTC-AACA
1 TTTTTTTCTTTCGAACA
379174 TTTTTTTC
1 TTTTTTTC
379182 CGATGGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 10 0.50
16 4 0.20
17 6 0.30
ACGTcount: A:0.15, C:0.17, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTTTTCTTTCGAACA
Found at i:382126 original size:21 final size:22
Alignment explanation
Indices: 382100--382140 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
382090 ATCGAAGAAA
*
382100 AAATAATAATAAAAA-ATAAAT
1 AAATAAAAATAAAAATATAAAT
382121 AAATAAAAATAAAAATATAA
1 AAATAAAAATAAAAATATAA
382141 CGAAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (22 bp):
AAATAAAAATAAAAATATAAAT
Found at i:382140 original size:14 final size:14
Alignment explanation
Indices: 382098--382140 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
382088 TGATCGAAGA
*
382098 AAAAATAATAATA-
1 AAAAATAAAAATAT
382111 AAAAATAAATAA-AT
1 AAAAATAAA-AATAT
382125 AAAAATAAAAATAT
1 AAAAATAAAAATAT
382139 AA
1 AA
382141 CGAAATTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATAAAAATAT
Found at i:387635 original size:18 final size:19
Alignment explanation
Indices: 387612--387655 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
387602 TTTAAGTAGT
*
387612 AATAAAAATGATTAAA-TA
1 AATAAAAACGATTAAAGTA
*
387630 AATAAAAGCGATTAAAGTA
1 AATAAAAACGATTAAAGTA
387649 AA-AAAAA
1 AATAAAAA
387656 AGAATAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.20
Consensus pattern (19 bp):
AATAAAAACGATTAAAGTA
Found at i:390623 original size:7 final size:7
Alignment explanation
Indices: 390611--390641 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
390601 GTCAAAGAAA
390611 GTCAACG
1 GTCAACG
390618 GTCAACG
1 GTCAACG
390625 GTCAACG
1 GTCAACG
390632 GTCAACG
1 GTCAACG
390639 GTC
1 GTC
390642 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:390648 original size:5 final size:5
Alignment explanation
Indices: 390638--390695 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
390628 AACGGTCAAC
* * *
390638 GGTCG GGTCG GGTCA GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
390687 GGTCG GGTC
1 GGTCG GGTC
390696 AGACCGGTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 36 0.82
7 8 0.18
ACGTcount: A:0.09, C:0.22, G:0.50, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:390659 original size:22 final size:22
Alignment explanation
Indices: 390631--390697 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
390621 AACGGTCAAC
390631 GGTCAACGGTCGGGTCGGGTCA
1 GGTCAACGGTCGGGTCGGGTCA
*
390653 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCA
390675 GGTCAACGGTCGGGTCGGGTCA
1 GGTCAACGGTCGGGTCGGGTCA
390697 G
1 G
390698 ACCGGTCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.12, C:0.22, G:0.48, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCA
Found at i:390675 original size:27 final size:28
Alignment explanation
Indices: 390624--390679 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
390614 AACGGTCAAC
390624 GGTCAACGGTCAACGGTCGGGTCGGGTCA
1 GGTCAACGGTC-ACGGTCGGGTCGGGTCA
*
390653 GGTCAACGGTC-GGGTCGGGTCGGGTCA
1 GGTCAACGGTCACGGTCGGGTCGGGTCA
390680 ACGGTCGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 15 0.58
29 11 0.42
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (28 bp):
GGTCAACGGTCACGGTCGGGTCGGGTCA
Found at i:390716 original size:19 final size:19
Alignment explanation
Indices: 390694--390791 Score: 101
Period size: 19 Copynumber: 5.1 Consensus size: 19
390684 TCGGGTCGGG
390694 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
390713 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
390732 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
*
390751 TCAAACCGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
* * *
390771 TGAAAACCGGTTAAACCGGT
1 T-CAGACCGGTCAAACCGGT
390791 T
1 T
390792 TCCAGCAGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
18 3 0.04
19 39 0.57
20 17 0.25
21 9 0.13
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:390722 original size:10 final size:9
Alignment explanation
Indices: 390692--390790 Score: 90
Period size: 9 Copynumber: 10.3 Consensus size: 9
390682 GGTCGGGTCG
*
390692 GGTCAGACC
1 GGTCAAACC
390701 GGTCAAACC
1 GGTCAAACC
*
390710 GGTTCAGACC
1 GG-TCAAACC
390720 GGTCAAACC
1 GGTCAAACC
*
390729 GGTTCGAACC
1 GG-TCAAACC
*
390739 GGTTGAAACC
1 GG-TCAAACC
390749 GGTCAAACC
1 GGTCAAACC
390758 GGTCAGAACC
1 GGTCA-AACC
*
390768 GGTTGAAAACC
1 GG-T-CAAACC
*
390779 GGTTAAACC
1 GGTCAAACC
390788 GGT
1 GGT
390791 TTCCAGCAGC
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
9 37 0.49
10 31 0.41
11 7 0.09
12 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.28, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:390749 original size:29 final size:28
Alignment explanation
Indices: 390693--390790 Score: 124
Period size: 29 Copynumber: 3.4 Consensus size: 28
390683 GTCGGGTCGG
* * *
390693 GTCAGACCGGTCAAACCGGTTCAGACCG
1 GTCAAACCGGTCAAACCGGTTGAAACCG
*
390721 GTCAAACCGGTTCGAACCGGTTGAAACCG
1 GTCAAACCGG-TCAAACCGGTTGAAACCG
390750 GTCAAACCGGTCAGAACCGGTTGAAAACCG
1 GTCAAACCGGTCA-AACCGGTTG-AAACCG
*
390780 GTTAAACCGGT
1 GTCAAACCGGT
390791 TTCCAGCAGC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 11 0.18
29 34 0.56
30 16 0.26
ACGTcount: A:0.29, C:0.28, G:0.28, T:0.16
Consensus pattern (28 bp):
GTCAAACCGGTCAAACCGGTTGAAACCG
Found at i:397983 original size:22 final size:22
Alignment explanation
Indices: 397956--397998 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
397946 AACGATCAAC
397956 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
397978 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
397999 AGACCGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:398013 original size:9 final size:9
Alignment explanation
Indices: 397995--398064 Score: 68
Period size: 9 Copynumber: 7.3 Consensus size: 9
397985 GGTCGGGTCG
*
397995 GGTCAGACC
1 GGTCAAACC
398004 GGTCAAACC
1 GGTCAAACC
*
398013 GGTTCAGACC
1 GG-TCAAACC
398023 GGTCAAACC
1 GGTCAAACC
398032 GGTCAGAACC
1 GGTCA-AACC
*
398042 GGTTGAAAACC
1 GG-T-CAAACC
*
398053 GGTTAAACC
1 GGTCAAACC
398062 GGT
1 GGT
398065 TTCCAGCAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
9 29 0.56
10 15 0.29
11 7 0.13
12 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.29, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:398019 original size:19 final size:18
Alignment explanation
Indices: 397995--398044 Score: 82
Period size: 19 Copynumber: 2.7 Consensus size: 18
397985 GGTCGGGTCG
397995 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
398013 GGTTCAGACCGGTCAAACC
1 GG-TCAGACCGGTCAAACC
398032 GGTCAGAACCGGT
1 GGTCAG-ACCGGT
398045 TGAAAACCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.20
19 24 0.80
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.14
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:398063 original size:20 final size:21
Alignment explanation
Indices: 398027--398065 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
398017 CAGACCGGTC
398027 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTCAGAACCGGTTGA
*
398048 AAACCGGTTA-AACCGGTT
1 AAACCGGTCAGAACCGGTT
398066 TCCAGCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (21 bp):
AAACCGGTCAGAACCGGTTGA
Found at i:401999 original size:21 final size:20
Alignment explanation
Indices: 401975--402083 Score: 78
Period size: 21 Copynumber: 5.2 Consensus size: 20
401965 ACTTCGACTA
*
401975 TCGCATTGCGATAGTCCAAGT
1 TCGC-TTGCGATAGTCCAAAT
* *
401996 TCGCGTTGCGATTTATTACAAAT
1 TCGC-TTGCGA--TAGTCCAAAT
* *
402019 TCG-TTGCGATAATCCAAGT
1 TCGCTTGCGATAGTCCAAAT
*
402038 TCGCGTTGCGATTTATTCCAAAT
1 TCGC-TTGCGA--TAGTCCAAAT
*
402061 TCG-TTGCGATAGTCCAAAA
1 TCGCTTGCGATAGTCCAAAT
402080 TCGC
1 TCGC
402084 AACGACTGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
19 21 0.30
21 28 0.40
23 21 0.30
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (20 bp):
TCGCTTGCGATAGTCCAAAT
Found at i:402027 original size:42 final size:42
Alignment explanation
Indices: 401980--402077 Score: 178
Period size: 42 Copynumber: 2.3 Consensus size: 42
401970 GACTATCGCA
401980 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAAATTCG
* *
402022 TTGCGATAATCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAAATTCG
402064 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
402078 AATCGCAACG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAAATTCG
Found at i:402063 original size:23 final size:21
Alignment explanation
Indices: 401999--402070 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
401989 TCCAAGTTCG
*
401999 CGTTGCGATTTATTACAAATT
1 CGTTGCGATTTATTCCAAATT
* *
402020 CGTTGCGA--TAATCCAAGTT
1 CGTTGCGATTTATTCCAAATT
402039 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
402062 CGTTGCGAT
1 CGTTGCGAT
402071 AGTCCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 8 0.19
21 25 0.60
23 9 0.21
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:402852 original size:12 final size:11
Alignment explanation
Indices: 402822--402855 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
402812 GCCGTCCGTC
402822 TCGGGTCG-GG
1 TCGGGTCGTGG
402832 TCGGGTCGTGG
1 TCGGGTCGTGG
402843 TCGTGGTCGTGG
1 TCG-GGTCGTGG
402855 T
1 T
402856 AATGGTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 5 0.23
12 9 0.41
ACGTcount: A:0.00, C:0.18, G:0.53, T:0.29
Consensus pattern (11 bp):
TCGGGTCGTGG
Found at i:403087 original size:42 final size:42
Alignment explanation
Indices: 402960--403125 Score: 174
Period size: 42 Copynumber: 3.7 Consensus size: 42
402950 TGCGATTTTG
* *
402960 GACTATCGCAATGAATTTGGAATAAATCACAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
403002 GACTATCGCAACGCAAACTTGGACAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTAT-----CGC-AAC---G--AATTTGGAATAAATCGCAACGCGAACTTC
* *
403055 GACTATCGCAACGAATTTGGAATAAATTGCAACGTGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
403097 GACTATCACAACGAATTTGG-A-AAATCGCA
1 GACTATCGCAACGAATTTGGAATAAATCGCA
403126 TTGCGATAGT
Statistics
Matches: 107, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
40 7 0.07
41 1 0.01
42 52 0.49
44 1 0.01
47 6 0.06
48 5 0.05
51 1 0.01
53 34 0.32
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:403150 original size:21 final size:21
Alignment explanation
Indices: 403121--403173 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
403111 ATTTGGAAAA
* *
403121 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAATCGAAGT
*
403142 TCGCGTTGCGATAATCGATGT
1 TCGCGTTGCGATAATCGAAGT
403163 TCGCGTTGCGA
1 TCGCGTTGCGA
403174 ATCTGGAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAATCGAAGT
Found at i:404608 original size:18 final size:16
Alignment explanation
Indices: 404582--404649 Score: 54
Period size: 16 Copynumber: 4.3 Consensus size: 16
404572 ACTCAATTTC
404582 AAATAATTAATTTTTTAA
1 AAATAATT-A-TTTTTAA
*
404600 AAATGATTATTTTTAA
1 AAATAATTATTTTTAA
* *
404616 AAAT-A--CTTTCTAA
1 AAATAATTATTTTTAA
404629 AAATGAA-TATTTTTAA
1 AAAT-AATTATTTTTAA
404645 AAATA
1 AAATA
404650 CTTTCTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 10 0.24
15 3 0.07
16 21 0.50
17 1 0.02
18 7 0.17
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (16 bp):
AAATAATTATTTTTAA
Found at i:404614 original size:16 final size:15
Alignment explanation
Indices: 404593--404648 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
404583 AATAATTAAT
404593 TTTTTAAAAATGATTA
1 TTTTTAAAAATGA-TA
*
404609 TTTTTAAAAAT-A-C
1 TTTTTAAAAATGATA
*
404622 TTTCTAAAAATGAATA
1 TTTTTAAAAATG-ATA
404638 TTTTTAAAAAT
1 TTTTTAAAAAT
404649 ACTTTCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 10 0.30
15 2 0.06
16 21 0.64
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (15 bp):
TTTTTAAAAATGATA
Found at i:404639 original size:29 final size:29
Alignment explanation
Indices: 404597--404659 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
404587 ATTAATTTTT
*
404597 TAAAAATGATTATTTTTAAAAATACTTTC
1 TAAAAATGAATATTTTTAAAAATACTTTC
404626 TAAAAATGAATATTTTTAAAAATACTTTC
1 TAAAAATGAATATTTTTAAAAATACTTTC
404655 TAAAA
1 TAAAA
404660 TTACATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.41
Consensus pattern (29 bp):
TAAAAATGAATATTTTTAAAAATACTTTC
Found at i:413274 original size:2 final size:2
Alignment explanation
Indices: 413267--413328 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
413257 AAAGTTTTCA
413267 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
413309 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
413329 GGGCAGAGTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:414786 original size:107 final size:109
Alignment explanation
Indices: 414518--414819 Score: 437
Period size: 107 Copynumber: 2.8 Consensus size: 109
414508 GATCACCCTT
* * * **
414518 AAACTGTCCAAGTGATTGGGATTTGGGAGTCGTGTATTCAATCAAGGACACAACTATATGTAGTC
1 AAACTGTCCAAGTGATTGGGATTTGGGAGCCATGCATTCAATCAAGGACGGAACTATATGTAGTC
* *
414583 CAGGGAGGCCACTGCCCCCCCCCCCACCTCAACCACTCTTAACTC
66 CAGGGAGGCCACTG-CCCCCCCCCCACCTCAACAACCCTTAACTC
* *
414628 AAACTGTCCAAGTGATTGGGATTTGGGAGCCATGCATTCAATAAAGGACGGAACTATATGTACTC
1 AAACTGTCCAAGTGATTGGGATTTGGGAGCCATGCATTCAATCAAGGACGGAACTATATGTAGTC
414693 CAGGGAGGCCACTGCCCCCCCCCC-CC-CAACAACCCTTAACTC
66 CAGGGAGGCCACTGCCCCCCCCCCACCTCAACAACCCTTAACTC
* * * * * *
414735 TAACTGACCAAGTGATTGGGATTTGGGAGCCATACATTCAATCAAGAACGGAACTCTATATAGTC
1 AAACTGTCCAAGTGATTGGGATTTGGGAGCCATGCATTCAATCAAGGACGGAACTATATGTAGTC
*
414800 CAGGGAGGGCACTGCCCCCC
66 CAGGGAGGCCACTGCCCCCC
414820 AACACACACA
Statistics
Matches: 174, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
107 90 0.52
108 2 0.01
109 10 0.06
110 72 0.41
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (109 bp):
AAACTGTCCAAGTGATTGGGATTTGGGAGCCATGCATTCAATCAAGGACGGAACTATATGTAGTC
CAGGGAGGCCACTGCCCCCCCCCCACCTCAACAACCCTTAACTC
Found at i:415266 original size:15 final size:15
Alignment explanation
Indices: 415246--415274 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
415236 AAAAAAAGTT
415246 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
415261 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
415275 CAGTTTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:418385 original size:24 final size:24
Alignment explanation
Indices: 418353--418411 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
418343 AATTTTGTTC
*
418353 TGATTTCTGATCTGGATTCTATTA
1 TGATTTCTGATCTGAATTCTATTA
* * *
418377 TGATATCTGATCTGAATTCTGTTT
1 TGATTTCTGATCTGAATTCTATTA
418401 TGATTTCTGAT
1 TGATTTCTGAT
418412 ATCTCCGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTCTATTA
Found at i:421066 original size:43 final size:43
Alignment explanation
Indices: 421019--421169 Score: 203
Period size: 43 Copynumber: 3.5 Consensus size: 43
421009 AATAAATGGA
*
421019 CTCAATTATAAATGTAGAAAGTAAGATTAAAAAAATTATAGGC
1 CTCAATTATAAATGTAAAAAGTAAGATTAAAAAAATTATAGGC
* * *
421062 CTCAATTATAAATGCAAAAAGTGAGATTGAAAAAAATTAAAGGC
1 CTCAATTATAAATGTAAAAAGTAAGATT-AAAAAAATTATAGGC
* * * *
421106 ATCAATTATAAATGTAAAAATTAAGATTGAAAAAATTATAAGC
1 CTCAATTATAAATGTAAAAAGTAAGATTAAAAAAATTATAGGC
* *
421149 CTCAATTATAAAAGTATAAAG
1 CTCAATTATAAATGTAAAAAG
421170 CGGGAATGAA
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 54 0.59
44 38 0.41
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (43 bp):
CTCAATTATAAATGTAAAAAGTAAGATTAAAAAAATTATAGGC
Found at i:421180 original size:87 final size:87
Alignment explanation
Indices: 421020--421184 Score: 240
Period size: 87 Copynumber: 1.9 Consensus size: 87
421010 ATAAATGGAC
* * * *
421020 TCAATTATAAATGTAGAAAGTAAGATTAAAAAAATTATAGGCCTCAATTATAAATGCAAAAAGTG
1 TCAATTATAAATGTAAAAAGTAAGATTAAAAAAATTATAAGCCTCAATTATAAAAGCAAAAAGCG
*
421085 AGATTGAAAAAAATTAAAGGCA
66 AGAATGAAAAAAATTAAAGGCA
* * * *
421107 TCAATTATAAATGTAAAAATTAAGATTGAAAAAATTATAAGCCTCAATTATAAAAGTATAAAGCG
1 TCAATTATAAATGTAAAAAGTAAGATTAAAAAAATTATAAGCCTCAATTATAAAAGCAAAAAGCG
*
421172 GGAATGAAAAAAA
66 AGAATGAAAAAAA
421185 AAATTAAGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (87 bp):
TCAATTATAAATGTAAAAAGTAAGATTAAAAAAATTATAAGCCTCAATTATAAAAGCAAAAAGCG
AGAATGAAAAAAATTAAAGGCA
Found at i:431323 original size:14 final size:15
Alignment explanation
Indices: 431296--431328 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
431286 ACAAATAATT
431296 TTAAAATAAAAAAAA
1 TTAAAATAAAAAAAA
431311 TTAAAAT-AAAAAAA
1 TTAAAATAAAAAAAA
431325 TTAA
1 TTAA
431329 CATGAAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TTAAAATAAAAAAAA
Found at i:431866 original size:2 final size:2
Alignment explanation
Indices: 431859--431979 Score: 53
Period size: 2 Copynumber: 69.5 Consensus size: 2
431849 CCGCCCCGAT
*
431859 TA TA TA TA TA TA TA -A TA TA -A TA T- TT TA TA T- TA -A T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
431895 TA TA TA TA -A TA T- TT TA TA TT TT TT TA TA T- TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
431932 TA TA TA TA TA -A TA T- TT TA TA TA T- TT TA TA T- TA -A T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
431968 TA TA TA TA -A TA T
1 TA TA TA TA TA TA T
431980 TTTCGGGTTC
Statistics
Matches: 95, Mismatches: 6, Indels: 36
0.69 0.04 0.26
Matches are distributed among these distances:
1 18 0.19
2 77 0.81
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:431947 original size:39 final size:38
Alignment explanation
Indices: 431857--431975 Score: 164
Period size: 38 Copynumber: 3.3 Consensus size: 38
431847 CCCCGCCCCG
431857 ATTATATATATATATAATA---TA-ATATTTTATATTA
1 ATTATATATATATATAATATTTTATATATTTTATATTA
*
431891 A-T-TA--TATATATAATATTTTATATTTTTTTATATTA
1 ATTATATATATATATAATATTTTATA-TATTTTATATTA
431926 ATTATATATATATATAATATTTTATATATTTTATATTA
1 ATTATATATATATATAATATTTTATATATTTTATATTA
431964 ATTATATATATA
1 ATTATATATATA
431976 ATATTTTCGG
Statistics
Matches: 74, Mismatches: 2, Indels: 14
0.82 0.02 0.16
Matches are distributed among these distances:
30 11 0.15
32 2 0.03
33 3 0.04
34 2 0.03
35 12 0.16
36 1 0.01
37 2 0.03
38 23 0.31
39 18 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (38 bp):
ATTATATATATATATAATATTTTATATATTTTATATTA
Found at i:432311 original size:16 final size:16
Alignment explanation
Indices: 432290--432321 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
432280 AGCAACGATT
432290 TGGAGAACAGTGTCGA
1 TGGAGAACAGTGTCGA
432306 TGGAGAACAGTGTCGA
1 TGGAGAACAGTGTCGA
432322 GACTTCTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.38, T:0.19
Consensus pattern (16 bp):
TGGAGAACAGTGTCGA
Found at i:434817 original size:35 final size:35
Alignment explanation
Indices: 434777--434912 Score: 193
Period size: 35 Copynumber: 3.9 Consensus size: 35
434767 AAAAGATGAA
*
434777 CATTTGAATCGAAAGTGTTGATGCTTCCTTCCGTT
1 CATTTGAATCGAAAGTGTCGATGCTTCCTTCCGTT
**
434812 CATTTGAATCGAAAGTACCGATGCTTCCTTCCGTT
1 CATTTGAATCGAAAGTGTCGATGCTTCCTTCCGTT
*
434847 CTTCTTGAATCGAAAGTGTCGATGCTTCCTTCCGTT
1 CAT-TTGAATCGAAAGTGTCGATGCTTCCTTCCGTT
* *
434883 CACTTT-AATCGAAAGTGCCAATGCTTCCTT
1 CA-TTTGAATCGAAAGTGTCGATGCTTCCTT
434913 TCATTCTTCT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
35 56 0.62
36 33 0.37
37 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (35 bp):
CATTTGAATCGAAAGTGTCGATGCTTCCTTCCGTT
Found at i:434896 original size:71 final size:71
Alignment explanation
Indices: 434780--434923 Score: 227
Period size: 71 Copynumber: 2.0 Consensus size: 71
434770 AGATGAACAT
* * *
434780 TTGAATCGAAAGTGTTGATGCTTCCTTCCGTTCATTTGAATCGAAAGTACCGATGCTTCCTTCCG
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCATTTGAATCGAAAGTACCAATGCTTCCTTCCA
434845 TTCTTC
66 TTCTTC
* *
434851 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTT-AATCGAAAGTGCCAATGCTTCCTTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCA-TTTGAATCGAAAGTACCAATGCTTCCTTCC
434915 ATTCTTC
65 ATTCTTC
434922 TT
1 TT
434924 ATTCACCTTC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
71 64 0.96
72 3 0.04
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (71 bp):
TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCATTTGAATCGAAAGTACCAATGCTTCCTTCCA
TTCTTC
Found at i:437129 original size:64 final size:63
Alignment explanation
Indices: 437040--437190 Score: 187
Period size: 64 Copynumber: 2.3 Consensus size: 63
437030 ATGCACATTC
* * * *
437040 ATAAGTGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCATA
1 ATAA-TGCATCGATGCA-TCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
* *
437104 GATAATGCATCGATGCATCCTTTTAAAATAAAAACATCGAATGCATTTTATGCACCGATGCACA
1 -ATAATGCATCGATGCATCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
*
437168 AGTAGTGCATCGATGCATACCTT
1 A-TAATGCATCGATGCAT-CCTT
437191 CATTGAAAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
63 4 0.05
64 64 0.84
65 8 0.11
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (63 bp):
ATAATGCATCGATGCATCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
Found at i:437931 original size:31 final size:31
Alignment explanation
Indices: 437837--437944 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 31
437827 AGTCGAGGGT
* *
437837 TTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
437868 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
437899 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
437930 -TTGCCAAGGTTCTTT
1 TTTACCTAGGTTCTTT
437945 ATGACCTCTG
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
30 13 0.21
31 47 0.75
32 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:437951 original size:30 final size:30
Alignment explanation
Indices: 437859--437964 Score: 88
Period size: 31 Copynumber: 3.5 Consensus size: 30
437849 TTTCGAGACA
* * * *
437859 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCAAGGTTCTTTAGG-ACC
* *
437890 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCAAGGTTCTTTAGGACC
* *
437921 TATGGACAGTTGCCAAGGTTCTTTATGACC
1 TATGGACAGTTACCAAGGTTCTTTAGGACC
* *
437951 TCTGGATAGTTACC
1 TATGGACAGTTACC
437965 GGGGTCTGTG
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
30 28 0.45
31 30 0.48
32 4 0.06
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (30 bp):
TATGGACAGTTACCAAGGTTCTTTAGGACC
Found at i:441281 original size:64 final size:63
Alignment explanation
Indices: 441192--441342 Score: 187
Period size: 64 Copynumber: 2.3 Consensus size: 63
441182 ATGCACATTC
* * * *
441192 ATAAGTGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCATA
1 ATAA-TGCATCGATGCA-TCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
* *
441256 GATAATGCATCGATGCATCCTTTTAAAATAAAAACATCGAATGCATTTTATGCACCGATGCACA
1 -ATAATGCATCGATGCATCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
*
441320 AGTAGTGCATCGATGCATACCTT
1 A-TAATGCATCGATGCAT-CCTT
441343 CATTGAAAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
63 4 0.05
64 64 0.84
65 8 0.11
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (63 bp):
ATAATGCATCGATGCATCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
Found at i:442063 original size:31 final size:31
Alignment explanation
Indices: 442008--442082 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
441998 GTCTTTCGAG
* *
442008 ACATATGGACA-TATACCTATGTTCTAAGGA
1 ACATATGGACAGTTTACCTAGGTTCTAAGGA
** *
442038 ACATATGGACAGTTTACCTAGGTTCTTTGGG
1 ACATATGGACAGTTTACCTAGGTTCTAAGGA
*
442069 ACCTATGGACAGTT
1 ACATATGGACAGTT
442083 GCCGAGGTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
30 11 0.29
31 27 0.71
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (31 bp):
ACATATGGACAGTTTACCTAGGTTCTAAGGA
Found at i:442102 original size:30 final size:30
Alignment explanation
Indices: 442041--442116 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
442031 CTAAGGAACA
* *
442041 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTAGGACC
* *
442072 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
442102 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
442117 GGGTCTGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 29 0.76
31 9 0.24
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:445664 original size:20 final size:20
Alignment explanation
Indices: 445639--445679 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
445629 CTACACACAG
445639 CCATGAGATTACTACTGCCT
1 CCATGAGATTACTACTGCCT
445659 CCATGAGATTACTACTGCCT
1 CCATGAGATTACTACTGCCT
445679 C
1 C
445680 TTCACTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (20 bp):
CCATGAGATTACTACTGCCT
Found at i:447569 original size:18 final size:18
Alignment explanation
Indices: 447542--447576 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
447532 AGAGGTGAGA
*
447542 TGTAACACAGATTATTAG
1 TGTAACACAGAATATTAG
*
447560 TGTAATACAGAATATTA
1 TGTAACACAGAATATTA
447577 ACATTCACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (18 bp):
TGTAACACAGAATATTAG
Found at i:450410 original size:36 final size:36
Alignment explanation
Indices: 450370--450677 Score: 243
Period size: 36 Copynumber: 8.6 Consensus size: 36
450360 TTTTTTTAAA
* *
450370 AAAATATATATATTATATAGTTTCGAAAACATTTCG
1 AAAATATATATATTATATAGTTTTGAAAACATTTTG
450406 AAAATATATATATTATATAGTTTTTGAAAA-ATTTTG
1 AAAATATATATATTATATAG-TTTTGAAAACATTTTG
* * *
450442 AAAACATATATAATGTATA-ATTTTTGAAAATACTTTTG
1 AAAATATATAT-AT-TATATAGTTTTGAAAACA-TTTTG
450480 AAAATATATA-A-TATATAGTTTT-AAAATCATTTTG
1 AAAATATATATATTATATAGTTTTGAAAA-CATTTTG
450514 AAAATATATATATAATATATAGTTTTGAAAACATTTTTTG
1 AAAATATATATAT--TATATAGTTTTGAAAACA--TTTTG
* * **
450554 -AAATCT-TATA-TA-ATA-TTTTTAAATTATTTTTG
1 AAAATATATATATTATATAGTTTTGAAAACA-TTTTG
* * *
450586 AAAACTATATA-A-TATATAGTTTTGTAAA-TTTTTT
1 AAAA-TATATATATTATATAGTTTTGAAAACATTTTG
* * * *
450620 AAGA-ATATA-A-TATATAGTTTTAAAAAAATATTTTT
1 AAAATATATATATTATATAGTTTT--GAAAACATTTTG
450655 AAAATATATATATTATATAGTTT
1 AAAATATATATATTATATAGTTT
450678 ATATTATATT
Statistics
Matches: 225, Mismatches: 22, Indels: 48
0.76 0.07 0.16
Matches are distributed among these distances:
32 23 0.10
33 11 0.05
34 41 0.18
35 22 0.10
36 56 0.25
37 13 0.06
38 45 0.20
39 9 0.04
40 5 0.02
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (36 bp):
AAAATATATATATTATATAGTTTTGAAAACATTTTG
Found at i:450631 original size:32 final size:31
Alignment explanation
Indices: 450523--450667 Score: 98
Period size: 32 Copynumber: 4.4 Consensus size: 31
450513 GAAAATATAT
* *
450523 ATATAATATATAGTTTTGAAAACATTTTTTGAA
1 ATATAATATATAGTTTTG-TAA-ATTTTTTAAA
* *
450556 ATCTTATATAATA-TTTT-TAAATTATTTTTGAAAA
1 ATATAATAT-ATAGTTTTGTAAA-T-TTTTT--AAA
450590 CTATATAATATATAGTTTTGTAAATTTTTTAAGA
1 --ATATAATATATAGTTTTGTAAATTTTTTAA-A
**
450624 ATATAATATATAGTTTTAAAAAAATATTTTTAAA
1 ATATAATATATAGTTTT--GTAAAT-TTTTTAAA
450658 ATAT-ATATAT
1 ATATAATATAT
450668 TATATAGTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
30 1 0.01
31 3 0.03
32 22 0.24
33 19 0.21
34 15 0.16
35 15 0.16
36 12 0.13
37 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (31 bp):
ATATAATATATAGTTTTGTAAATTTTTTAAA
Found at i:451831 original size:5 final size:5
Alignment explanation
Indices: 451797--451830 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
451787 TTTTTATATA
*
451797 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTA TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
451831 ACTTTTGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (5 bp):
TTTTG
Found at i:451967 original size:21 final size:21
Alignment explanation
Indices: 451943--451987 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
451933 CATTTTGGCT
451943 TTTTTATTATTT-GTTCTTCTA
1 TTTTTATT-TTTGGTTCTTCTA
* *
451964 TTTTTCTTTTTGGTTTTTCTA
1 TTTTTATTTTTGGTTCTTCTA
451985 TTT
1 TTT
451988 GTTTTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.09, C:0.09, G:0.07, T:0.76
Consensus pattern (21 bp):
TTTTTATTTTTGGTTCTTCTA
Found at i:452124 original size:13 final size:12
Alignment explanation
Indices: 452108--452169 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 12
452098 TACTTTTTCC
452108 TTTGTTTTTTTAT
1 TTTGTTTTTTT-T
452121 TTTGTTTTTGTTT
1 TTTGTTTTT-TTT
*
452134 ATTGTTTTTTTT
1 TTTGTTTTTTTT
* *
452146 GTATG-TTTTATT
1 -TTTGTTTTTTTT
452158 TTTGTTTATTTT
1 TTTGTTT-TTTT
452170 ATCATTCTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 3 0.08
12 11 0.28
13 23 0.59
14 2 0.05
ACGTcount: A:0.08, C:0.00, G:0.11, T:0.81
Consensus pattern (12 bp):
TTTGTTTTTTTT
Found at i:452170 original size:15 final size:15
Alignment explanation
Indices: 452112--452171 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
452102 TTTTCCTTTG
*
452112 TTTT-TTTATTTTGT
1 TTTTGTTTATTTTAT
*
452126 TTTTGTTTATTGTTTT
1 TTTTGTTTATT-TTAT
* *
452142 TTTTGTATGTTTTAT
1 TTTTGTTTATTTTAT
452157 TTTTGTTTATTTTAT
1 TTTTGTTTATTTTAT
452172 CATTCTATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
14 4 0.11
15 22 0.58
16 12 0.32
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (15 bp):
TTTTGTTTATTTTAT
Found at i:452192 original size:36 final size:33
Alignment explanation
Indices: 452151--452236 Score: 93
Period size: 36 Copynumber: 2.5 Consensus size: 33
452141 TTTTTGTATG
452151 TTTTATTTTTGTTTATTTTATCATTCTATTTATTT
1 TTTTATTTTTGTTTATTTTATCATT-TATTTA-TT
* * * *
452186 TGTTTATTTCTCTTTACTTTATCATTTTTTTATT
1 T-TTTATTTTTGTTTATTTTATCATTTATTTATT
*
452220 TTTTA-TGTTGTTTATTT
1 TTTTATTTTTGTTTATTT
452237 ATTTCGTATT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
32 8 0.19
33 4 0.10
34 3 0.07
35 6 0.14
36 21 0.50
ACGTcount: A:0.15, C:0.07, G:0.05, T:0.73
Consensus pattern (33 bp):
TTTTATTTTTGTTTATTTTATCATTTATTTATT
Found at i:455955 original size:14 final size:14
Alignment explanation
Indices: 455936--455962 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
455926 AATATCATGG
455936 GAGAGAGAAAAGTA
1 GAGAGAGAAAAGTA
455950 GAGAGAGAAAAGT
1 GAGAGAGAAAAGT
455963 TAAAAGGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.37, T:0.07
Consensus pattern (14 bp):
GAGAGAGAAAAGTA
Found at i:456163 original size:17 final size:19
Alignment explanation
Indices: 456141--456175 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
456131 GCTTTTGTTC
456141 AGTTTG-AGAGGG-AATCT
1 AGTTTGAAGAGGGCAATCT
456158 AGTTTGAAGAGGGCAATC
1 AGTTTGAAGAGGGCAATC
456176 GAGATGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (19 bp):
AGTTTGAAGAGGGCAATCT
Found at i:472349 original size:52 final size:51
Alignment explanation
Indices: 472266--472366 Score: 132
Period size: 52 Copynumber: 2.0 Consensus size: 51
472256 ACCTTAAAAC
*
472266 CATTCAACCCACACAAAAACCCTCCTATCCAAAAGAAACCCAAGACCACCAG
1 CATTCAACACACACAAAAACCCTCCTATCCAAAAGAAA-CCAAGACCACCAG
* * * *
472318 CATTCAATACACACAAACACCTTTCCT-TCCAAAAGAAACCTAGACCACC
1 CATTCAACACACACAAAAACC-CTCCTATCCAAAAGAAACCAAGACCACC
472367 CAAACAAATC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 10 0.23
52 29 0.67
53 4 0.09
ACGTcount: A:0.43, C:0.39, G:0.05, T:0.14
Consensus pattern (51 bp):
CATTCAACACACACAAAAACCCTCCTATCCAAAAGAAACCAAGACCACCAG
Found at i:479831 original size:25 final size:25
Alignment explanation
Indices: 479800--479847 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
479790 TTCTTCAGGT
479800 TAACTAGAGTGTAAGTGAAATGAGG
1 TAACTAGAGTGTAAGTGAAATGAGG
479825 TAACTAGAGTGTAAGTGAAATGA
1 TAACTAGAGTGTAAGTGAAATGA
479848 AACCTCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.29, T:0.25
Consensus pattern (25 bp):
TAACTAGAGTGTAAGTGAAATGAGG
Found at i:482708 original size:20 final size:20
Alignment explanation
Indices: 482680--482720 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
482670 AAAATTAAAT
482680 ATGAATAAAATGAAAGTTTA
1 ATGAATAAAATGAAAGTTTA
* * *
482700 ATGAGTAAATTGAAATTTTA
1 ATGAATAAAATGAAAGTTTA
482720 A
1 A
482721 AATTTTAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (20 bp):
ATGAATAAAATGAAAGTTTA
Found at i:484402 original size:3 final size:3
Alignment explanation
Indices: 484388--484467 Score: 110
Period size: 3 Copynumber: 26.7 Consensus size: 3
484378 CTCTTCGAGA
*
484388 TCT TCC TCT TCT TCT TCT TCT TCTT TCT T-T TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT
*
484433 TCT TCTT TCT T-T TCT TCT TCT TCT TCG TCT TCT TC
1 TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
484468 AGGGGGATCA
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.06
3 59 0.86
4 6 0.09
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:492420 original size:25 final size:25
Alignment explanation
Indices: 492382--492440 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
492372 AAACTCGAGC
*
492382 AACTCGACTAGACT-TGAATTTTATA
1 AACTCGACTAGACTAT-AATTTCATA
* *
492407 AACTCGGCTTGACTATAATTTCATA
1 AACTCGACTAGACTATAATTTCATA
492432 AACTCGACT
1 AACTCGACT
492441 CTAAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (25 bp):
AACTCGACTAGACTATAATTTCATA
Found at i:510557 original size:31 final size:31
Alignment explanation
Indices: 510521--510579 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
510511 AACTTAAAAG
* *
510521 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
510552 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
510580 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:510628 original size:21 final size:21
Alignment explanation
Indices: 510602--510641 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
510592 AATAATAAAT
510602 TATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
510623 TATTTAAAATAAATCAATC
1 TATTTAAAATAAATCAATC
510642 TATACTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (21 bp):
TATTTAAAATAAATCAATCCA
Found at i:510734 original size:22 final size:23
Alignment explanation
Indices: 510659--510733 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
510649 ATAAATTATT
510659 TAAAATAAATCAATTCATAC-AA
1 TAAAATAAATCAATTCATACTAA
* **
510681 TTACAATAATAAATCAATTTATA-TTT
1 -T--AA-AATAAATCAATTCATACTAA
510707 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATTCATACTAA
510730 TAAA
1 TAAA
510734 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAAATAAATCAATTCATACTAA
Found at i:510752 original size:54 final size:54
Alignment explanation
Indices: 510688--511707 Score: 519
Period size: 54 Copynumber: 19.2 Consensus size: 54
510678 CAATTACAAT
** *
510688 AATAAATCAATTTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * *
510742 AATAAATCAATCTATATTTT-AAATAAATCAATCTATATTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
510795 AATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCAAAC-AACTACA--A--T--
1 AATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
*
510853 AATAAATCAATCTATATTTT-AAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * ** * ** **
510906 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
** * ** * * * **
510960 AATAAATCAATCCATACTAATAAATTATTTAAAAT--AAATTAATCCA-TATTTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
* * * * *
511014 AATAAATCAATTCATACTAATAAATTATTAAAATAAATCAATCAATATTTTAA-AAATCAATCAA
1 AATAAATCAA-TC---C--AT--ATT-TTAAAATAAATCAATCCATA--CTAATAAATTATTTAA
* * * * *
511078 TATTAATAAAT---TA-TTTAAAATAAATCAATCCATAC-ACTACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
511121 AATAAATCAATCTATATTTT-AAA-AAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
511173 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
511226 AAT-AATC-ATCCATATTTTGAAATAAATCAATCTATACTAATAAATTATTTAAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT-AA
* * * * ** * * * * *
511279 AATCAATCCATACA-ACTACAATAATAAACCAATCCATATTTTAAAATAAATCAATCTAT
1 AATAAATCAATCCATATTTTAA-AATAAATCAATCCATA--CT--AATAAAT-TATTTAA
* * **
511338 ACT-AATAAAT---TA-TTTAAAATAAATCAATCCATA-TTTTAAA--A--T-A
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * * **
511381 AATCAATCCATACTAATAATTATTAAAATAAATCAATCCATA-TTTTAAA--A--T-A
1 AATAAATCAAT-C-CAT-ATT-TTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * * * * *
511433 AATCAATCTATACTAATAATTATTTAAAGTAAATCAATCGATAC-----AACTA--T--
1 AATAAATCAAT-C-CAT-A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
511483 AATAAATCAATTCATATTTTAAAAT-AATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
511536 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * *
511590 AATAAATCAATCTATATTTTAAAAATAAATCAATTCATATTAATAAATTA-TTAA
1 AATAAATCAATCCATATTTT-AAAATAAATCAATCCATACTAATAAATTATTTAA
*
511644 AATAAATC-ATCCATA-TTTAAAATAAATCAATACATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
511696 AATAAATAAATC
1 AATAAATCAATC
511708 TATTCAACTA
Statistics
Matches: 779, Mismatches: 96, Indels: 183
0.74 0.09 0.17
Matches are distributed among these distances:
43 10 0.01
44 18 0.02
45 20 0.03
46 11 0.01
47 25 0.03
48 9 0.01
49 15 0.02
50 12 0.02
51 84 0.11
52 97 0.12
53 131 0.17
54 190 0.24
55 57 0.07
56 6 0.01
57 3 0.00
58 16 0.02
59 12 0.02
60 6 0.01
61 5 0.01
62 10 0.01
63 8 0.01
64 29 0.04
65 5 0.01
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:510765 original size:21 final size:21
Alignment explanation
Indices: 510735--510780 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
510725 ACTAATAAAT
510735 TATTTAAAATAAATCAATCTA
1 TATTTAAAATAAATCAATCTA
*
510756 TATTTTAAATAAATCAATCTA
1 TATTTAAAATAAATCAATCTA
510777 TATT
1 TATT
510781 AATAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (21 bp):
TATTTAAAATAAATCAATCTA
Found at i:510798 original size:32 final size:33
Alignment explanation
Indices: 510756--510838 Score: 134
Period size: 32 Copynumber: 2.6 Consensus size: 33
510746 AATCAATCTA
* *
510756 TATTTTAAATAAATCAATCT-ATATTAATAAAT
1 TATTTAAAATAAATCAATCTCATACTAATAAAT
510788 TATTTAAAATAAATCAAT-TCATACTAATAAAT
1 TATTTAAAATAAATCAATCTCATACTAATAAAT
510820 TATTTAAAATAAATCAATC
1 TATTTAAAATAAATCAATC
510839 CAAACAACTA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
31 1 0.02
32 46 0.98
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (33 bp):
TATTTAAAATAAATCAATCTCATACTAATAAAT
Found at i:510800 original size:14 final size:14
Alignment explanation
Indices: 510781--510833 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
510771 AATCTATATT
510781 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
510795 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
510813 AATAAATTATTTAA
1 AATAAATTATTTAA
510827 AATAAAT
1 AATAAAT
510834 CAATCCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:510803 original size:165 final size:164
Alignment explanation
Indices: 510607--511791 Score: 685
Period size: 165 Copynumber: 7.4 Consensus size: 164
510597 TAAATTATTT
**
510607 AAAATAAATCAATCCATATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAA
1 AAAATAAATCAATAAATATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAA
* * * *
510672 TTCATACAATTACAATAATAAATCAATTTATATTTTAAAATAAATCAATTCATACTAATAAATTA
66 TCCATACAACTACAATAATAAATCAATCTATATTTT-AAATAAATCAATCCATACTAATAAATTA
* **
510737 TTTAAAATAAATCAATCTATA-TTTTAAATAAATC
130 TTTAAAATAAATCAATCCATACTAATAAATAAATC
** * *
510771 AATCTATATTAATAAATTATTTAAAATAAATCAAT-TCATACTAATAAATTATTTAAAATAAATC
1 AAAATAAATCAATAAA-TATTTAAAATAAATCAATCT-ATACTAATAAATTATTTAAAATAAATC
*
510835 AATCCAAACAACTACAATAATAAATCAATCTATATTTTAAATAAATCAATCCATACTAATAAATT
64 AATCCATACAACTACAATAATAAATCAATCTATATTTTAAATAAATCAATCCATACTAATAAATT
* * *
510900 ATTTAAAATAAATCAATCCATACTAATAAATTATTT
129 ATTTAAAATAAATCAATCCATACTAATAAATAAATC
** * *
510936 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATTA
1 AAAATAAATCAATAAATA-TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCA
* ** ** * * * ** *
511001 ATCCAT---ATTTTAA-AATAAATCAAT-TCATACTAATAAATTATTAAAATAAAT-C-AATCAA
65 ATCCATACAACTACAATAATAAATCAATCT-ATA-TTTTAAATAAAT-CAATCCATACTAATAAA
* * * * * *
511059 -TATTT-TAA-AAATCAATCAATATTAATAAATTATTT
127 TTATTTAAAATAAATCAATCCATACTAATAAATAAATC
** ** * * *
511094 AAAATAAATCAATCCATACACTACAAT-AATAAATCAAT-CT-AT--A-T-TTT-AAA-AAATCA
1 AAAATAAATCAATAAATA-TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCA
* * *
511150 ATCTATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTA
65 ATCCATAC-AACTACA--A--T--AATAAATCAATCTATATTTT-AAATAAATCAATCCATACTA
**
511214 AT-AATTATTTAAAAT-AATC-ATCCATA-TTTTGAAATAAATC
122 ATAAATTATTTAAAATAAATCAATCCATACTAAT-AAATAAATC
** * * * *
511254 AATCTATA-CTAATAAATTATTT--AA-AAATCAATCCATAC-AACTACA--A--T--AATAAAC
1 AAAATAAATC-AATAAA-TATTTAAAATAAATCAATCTATACTAA-TAAATTATTTAAAATAAAT
* ** * * ** * * *
511308 CAATCCAT---ATTTTAA-AATAAATCAATCTATA--CT-AATAAAT-TATTTAAAATAAATCAA
63 CAATCCATACAACTACAATAATAAATCAATCTATATTTTAAATAAATCAATCCATACT-AATAAA
* *
511365 TCCATATTTTAAAATAAATCAATCCATACTAAT-AAT-TATT
127 T---TA-TTTAAAATAAATCAATCCATACTAATAAATAAATC
** *
511405 AAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAAT-AATTATTTAAAGTAAATCA
1 AAAATAAATCAATAAATA-TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCA
*
511469 ATCGATACAACT---ATAATAAATCAAT-TCATATTTTAAA-ATAATCAATCCATACTAATAAAT
65 ATCCATACAACTACAATAATAAATCAATCT-ATATTTTAAATA-AATCAATCCATACTAATAAAT
**
511529 TATTTAAAATAAATCAATCCATA-TTTTAAAATAAATC
128 TATTTAAAATAAATCAATCCATACTAAT-AAATAAATC
** ** * *
511566 --AATCCATACTAATAAATTATTTAAAATAAATCAATCTATA-TTTTAAA--A-AT-AAATCAAT
1 AAAATAAAT-C-AATAAA-TATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAAT-AAA
** * * * * *
511624 TCATATTAATA-AATTATTAA-AATAAATC-ATCCATATTTAAAATAAATCAATACATACTAATA
62 TCA-ATCCATACAACTA-CAATAATAAATCAATCTATATTTTAAATAAATCAATCCATACTAATA
* * *
511686 AATTATTTAAAATAAATAAATCTATTC-AACTACAAT-AAT-
125 AATTATTTAAAATAAATCAATCCATACTAA-TA-AATAAATC
** * * *
511725 -AAACCAATC--CACAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
1 AAAATAAATCAATAAATATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAA
511786 TCCATA
66 TCCATA
511792 TTTTAAAATA
Statistics
Matches: 786, Mismatches: 142, Indels: 193
0.70 0.13 0.17
Matches are distributed among these distances:
145 5 0.01
146 10 0.01
147 3 0.00
148 1 0.00
149 10 0.01
150 22 0.03
151 25 0.03
152 11 0.01
153 12 0.02
154 37 0.05
155 12 0.02
156 5 0.01
157 21 0.03
158 83 0.11
159 83 0.11
160 130 0.17
161 69 0.09
162 21 0.03
163 16 0.02
164 65 0.08
165 145 0.18
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (164 bp):
AAAATAAATCAATAAATATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAA
TCCATACAACTACAATAATAAATCAATCTATATTTTAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACTAATAAATAAATC
Found at i:510909 original size:32 final size:32
Alignment explanation
Indices: 510867--511056 Score: 206
Period size: 32 Copynumber: 6.6 Consensus size: 32
510857 AATCAATCTA
*
510867 TATTTTAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACTAATAAAT
510899 TATTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACTAATAAAT
510931 TATTTAAAATAAATCAAT-C---C--AT--A-
1 TATTTAAAATAAATCAATCCATACTAATAAAT
510954 T-TTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACTAATAAAT
*
510985 TATTTAAAATAAATTAAT-C---C--AT--A-
1 TATTTAAAATAAATCAATCCATACTAATAAAT
*
511008 T-TTTAAAATAAATCAATTCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACTAATAAAT
511039 TA-TTAAAATAAATCAATC
1 TATTTAAAATAAATCAATC
511057 AATATTTTAA
Statistics
Matches: 134, Mismatches: 4, Indels: 41
0.75 0.02 0.23
Matches are distributed among these distances:
22 31 0.23
23 4 0.03
24 2 0.01
26 6 0.04
28 6 0.04
30 2 0.01
31 19 0.14
32 64 0.48
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (32 bp):
TATTTAAAATAAATCAATCCATACTAATAAAT
Found at i:510959 original size:22 final size:22
Alignment explanation
Indices: 510933--510975 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
510923 TAATAAATTA
510933 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
510955 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
510976 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Done.