Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003744.1 Hibiscus syriacus cultivar Beakdansim tig00008013_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: 2457414
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 11
Found at i:460901 original size:43 final size:47
Alignment explanation
Indices: 460853--460940 Score: 121
Period size: 49 Copynumber: 1.9 Consensus size: 47
460843 TTGTTAGATT
460853 TTTTTTATTATAT-T-TTT-AT-TTACTTTATTTTGTTAAATTGTAA
1 TTTTTTATTATATCTATTTAATATTACTTTATTTTGTTAAATTGTAA
*
460896 TTTTTTATTATTTCTCATTTAATACTTACTTTATTTTGTTAAATT
1 TTTTTTATTATATCT-ATTTAATA-TTACTTTATTTTGTTAAATT
460941 TGTTGGATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
43 12 0.32
44 1 0.03
46 3 0.08
47 2 0.05
49 20 0.53
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (47 bp):
TTTTTTATTATATCTATTTAATATTACTTTATTTTGTTAAATTGTAA
Found at i:460941 original size:26 final size:24
Alignment explanation
Indices: 460870--460941 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
460860 TTATATTTTT
460870 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
460895 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
460917 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
460942 GTTGGATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:466529 original size:19 final size:19
Alignment explanation
Indices: 466494--466543 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
466484 TAAAGTTTTT
*
466494 AAAATTAAAATT-GAAATAA
1 AAAATT-AAATTAAAAATAA
* *
466513 AATATTATATTAAAAATAA
1 AAAATTAAATTAAAAATAA
466532 AAAATTAAATTA
1 AAAATTAAATTA
466544 TATCAAATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAATTAAATTAAAAATAA
Found at i:466563 original size:22 final size:23
Alignment explanation
Indices: 466497--466565 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
466487 AGTTTTTAAA
*
466497 ATTAAAATTGAAATAAAATATTAT
1 ATTAAAATTGAAA-AAAAAATTAT
*
466521 ATTAAAAAT-AAAAAATTAAATTAT
1 ATTAAAATTGAAAAAA--AAATTAT
*
466545 A-TCAAATTGAAAAAAAAATTA
1 ATTAAAATTGAAAAAAAAATTA
466566 AAATCTCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 9 0.24
23 8 0.21
24 21 0.55
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (23 bp):
ATTAAAATTGAAAAAAAAATTAT
Found at i:468782 original size:2 final size:2
Alignment explanation
Indices: 468777--468802 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
468767 GTTTGCCAGT
468777 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
468803 AATAGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:470602 original size:20 final size:22
Alignment explanation
Indices: 470562--470603 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
470552 TATGGTCTCG
*
470562 AATGTATAAATATATTATTTTT
1 AATGTATAAATATACTATTTTT
470584 AATGTAT-AATAT-CTATTTTT
1 AATGTATAAATATACTATTTTT
470604 TAATAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 5 0.26
22 7 0.37
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (22 bp):
AATGTATAAATATACTATTTTT
Found at i:491084 original size:22 final size:21
Alignment explanation
Indices: 491054--491128 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 21
491044 TGTATAATTT
*
491054 AATCCTAAATACTAAAATTTAA
1 AATCATAAAT-CTAAAATTTAA
*
491076 AATCATAAACTCTAAAA-TGATA
1 AATCATAAA-TCTAAAATTTA-A
* *
491098 AATCATAAACCATAACATTTAA
1 AATCATAAATC-TAAAATTTAA
*
491120 AATCTTAAA
1 AATCATAAA
491129 CCTTATATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 3 0.07
22 37 0.86
23 3 0.07
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (21 bp):
AATCATAAATCTAAAATTTAA
Found at i:491277 original size:35 final size:35
Alignment explanation
Indices: 491208--491277 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
491198 AAAAAGTTAC
*
491208 TAATATTAGTAGAAAAATTATTTGAAACATAAATT
1 TAATATTAGTAGAAAAATTATTTGAAACACAAATT
* * *
491243 TAATATTAGTAGGAAAATTATTTGATATACAAATT
1 TAATATTAGTAGAAAAATTATTTGAAACACAAATT
491278 GTGTAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.39
Consensus pattern (35 bp):
TAATATTAGTAGAAAAATTATTTGAAACACAAATT
Found at i:491321 original size:18 final size:19
Alignment explanation
Indices: 491295--491330 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
491285 TTAAAGTTTA
491295 AACAAATGTC-TATTTAAT
1 AACAAATGTCTTATTTAAT
*
491313 AACATATGTCTTATTTAA
1 AACAAATGTCTTATTTAA
491331 AGTTTATGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (19 bp):
AACAAATGTCTTATTTAAT
Found at i:493769 original size:18 final size:18
Alignment explanation
Indices: 493746--493781 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
493736 TCATTTAATA
493746 GGATATTTAATATGTGGG
1 GGATATTTAATATGTGGG
493764 GGATATTTAATATGTGGG
1 GGATATTTAATATGTGGG
493782 AAAGACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (18 bp):
GGATATTTAATATGTGGG
Found at i:495842 original size:17 final size:17
Alignment explanation
Indices: 495820--495860 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
495810 AGACTAATGA
495820 AGATCATGATAATCCAG
1 AGATCATGATAATCCAG
*
495837 AGATCATGATGATCCAG
1 AGATCATGATAATCCAG
*
495854 GGATCAT
1 AGATCAT
495861 TGCAGGTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (17 bp):
AGATCATGATAATCCAG
Found at i:499487 original size:20 final size:20
Alignment explanation
Indices: 499442--499513 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
499432 CAATGAACAA
* * *
499442 TATCGATATTGATTTAAGAAG
1 TATCGATATTGATGT-GGAGG
499463 TATCGATATTGATGTGGAGG
1 TATCGATATTGATGTGGAGG
** *
499483 TATCGATA-CCATGTGTAAGG
1 TATCGATATTGATGTG-GAGG
499503 TATCGATATTG
1 TATCGATATTG
499514 TAATGAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 5 0.12
20 22 0.54
21 14 0.34
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (20 bp):
TATCGATATTGATGTGGAGG
Found at i:499577 original size:17 final size:18
Alignment explanation
Indices: 499546--499590 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
499536 ATGCCAAAAT
499546 GGTATCGGTACTGAAGTG
1 GGTATCGGTACTGAAGTG
*
499564 GGTAT-GGTAGTGAAGTG
1 GGTATCGGTACTGAAGTG
*
499581 TGTATCGGTA
1 GGTATCGGTA
499591 ACATAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.22, C:0.07, G:0.40, T:0.31
Consensus pattern (18 bp):
GGTATCGGTACTGAAGTG
Found at i:500189 original size:24 final size:24
Alignment explanation
Indices: 500161--500218 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
500151 GAGTCGAGGG
500161 TTCTACGTGGT-CTTTCGAGACAAA
1 TTCTACGTGGTCCTTT-GAGACAAA
* * *
500185 TTCTACGCGGTCCTTTGGGATAAA
1 TTCTACGTGGTCCTTTGAGACAAA
*
500209 TTCTATGTGG
1 TTCTACGTGG
500219 CATTTCGGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (24 bp):
TTCTACGTGGTCCTTTGAGACAAA
Found at i:506141 original size:2 final size:2
Alignment explanation
Indices: 506134--506179 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
506124 GGTTGAGCTT
*
506134 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
506176 -A TA T
1 TA TA T
506180 TTATGGTTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:517615 original size:16 final size:16
Alignment explanation
Indices: 517596--517626 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
517586 CCAAATTTGT
517596 CCAAACCGAAAGCAAC
1 CCAAACCGAAAGCAAC
*
517612 CCAAACTGAAAGCAA
1 CCAAACCGAAAGCAA
517627 TCTGAACTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.32, G:0.13, T:0.03
Consensus pattern (16 bp):
CCAAACCGAAAGCAAC
Found at i:518765 original size:20 final size:20
Alignment explanation
Indices: 518740--518777 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
518730 TTCAGGTCGG
518740 GTAAACCATTAGATTTTCGA
1 GTAAACCATTAGATTTTCGA
**
518760 GTAAACTTTTAGATTTTC
1 GTAAACCATTAGATTTTC
518778 AGGTCAACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
GTAAACCATTAGATTTTCGA
Found at i:519211 original size:3 final size:3
Alignment explanation
Indices: 519149--519195 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
519139 TCATTTGTTT
* *
519149 TTA TTA TTT TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
519196 ATAAAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:520260 original size:56 final size:56
Alignment explanation
Indices: 520174--520289 Score: 196
Period size: 56 Copynumber: 2.1 Consensus size: 56
520164 ACTTAGACTC
**
520174 AATTATAGGGTCAAAGCTGAGTCGAAGTTCGATTCGGATTGAATGTGGGTAAACTA
1 AATTATAGGGTCAAAGCTGAGTCGAAGTTCGATTCGGATCAAATGTGGGTAAACTA
* *
520230 AATTATAGGGTCAAAGTTGTGTCGAAGTTCGATTCGGATCAAATGTGGGTAAACTA
1 AATTATAGGGTCAAAGCTGAGTCGAAGTTCGATTCGGATCAAATGTGGGTAAACTA
520286 AATT
1 AATT
520290 TGGGTTGCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (56 bp):
AATTATAGGGTCAAAGCTGAGTCGAAGTTCGATTCGGATCAAATGTGGGTAAACTA
Found at i:525152 original size:65 final size:64
Alignment explanation
Indices: 525048--525300 Score: 195
Period size: 65 Copynumber: 3.8 Consensus size: 64
525038 AGTTCTAAAA
*
525048 GAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAA-GAAAACATATTCAAACATTTTGTTTCAAG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTT-AAAGGAAAAC-TATTCAAACATTTTGTTTCAAG
525112 G
64 G
*
525113 GAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACTGTCTCAAGAGAGGCAAAATTTTG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACTAT-TC-A-A-A--C---ATTTTG
525178 TTTCAAGG
57 TTTCAAGG
* * * * * ** * ** *
525186 GAAACTATCTCAAGAGAGACGAAACTTATTTCAAGGGAAATGTTTTC-AATGTTTAAGTTTCAAG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTT-AAAGGAAAACTATTCAAACATTT-TGTTTCAAG
*
525250 A
64 G
* ** *
525251 GAAACTGTCTCAAGGGAGACAAAATTTTGTTTCGAGGGAAACTATCTCAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTTGTTTAAAGGAAAACTAT-TCAA
525301 GAGAGACAAA
Statistics
Matches: 147, Mismatches: 26, Indels: 28
0.73 0.13 0.14
Matches are distributed among these distances:
64 8 0.05
65 73 0.50
66 8 0.05
67 2 0.01
68 1 0.01
69 1 0.01
70 2 0.01
73 43 0.29
74 9 0.06
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (64 bp):
GAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACTATTCAAACATTTTGTTTCAAGG
Found at i:525190 original size:138 final size:138
Alignment explanation
Indices: 525012--525327 Score: 359
Period size: 138 Copynumber: 2.3 Consensus size: 138
525002 TGGGGGAAAT
* ** * * * *
525012 AAACTGTCTCAAGAGAGACAAAACTTAG-TTCTAAAAGAAACTGTCTCAAGGGAGACAAAATTTG
1 AAACTGTCTCAAGAGAGACAAAA-TTTGTTTC-AAGGGAAACTATCTCAAGAGAGACAAAACTTA
* *
525076 TTTCAAAGAAAACATATTCAAACATTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
64 TTTCAAAGAAAACATATTC-AACATTTAAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
525139 TGTTTAAAGGA
128 TGTTTAAAGGA
* *
525150 AAACTGTCTCAAGAGAGGCAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAACTTAT
1 AAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTTAT
* * ** * ** *
525215 TTCAAGGGAAATGTTTTCAATGTTTAAGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG
65 TTCAAAGAAAACATATTCAACATTTAAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTG
** *
525280 TTTCGAGGG
130 TTTAAAGGA
* *
525289 AAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAA
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
525328 TGTTTTCACT
Statistics
Matches: 149, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
137 5 0.03
138 110 0.74
139 34 0.23
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (138 bp):
AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTTATT
TCAAAGAAAACATATTCAACATTTAAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGT
TTAAAGGA
Found at i:525191 original size:37 final size:37
Alignment explanation
Indices: 525094--525531 Score: 255
Period size: 37 Copynumber: 12.6 Consensus size: 37
525084 AAAACATATT
525094 CAAACATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 CAAA-ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* * *
525132 CAAAA-TTTGTTTAAAGGAAAACTGTCTCAAGAGAGG
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
*
525168 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* * * * *
525205 CGAAA-CTTATTTCAAGGGAAA-TGTTTTC-A-A-TG-
1 CAAAATTTTGTTTCAAGGGAAACTG-TCTCAAGAGAGA
* * *
525237 -----TTTAAGTTTCAAGAGAAACTGTCTCAAGGGAGA
1 CAAAATTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGA
* *
525270 CAAAATTTTGTTTCGAGGGAAACTATCTCAAGAGAGA
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* *
525307 CAAAA-TTTATTTCAAGGGAAA-TGTTTTC-------A
1 CAAAATTTTGTTTCAAGGGAAACTG-TCTCAAGAGAGA
** * * *
525336 C--TGTTTATGTTTCAAGGGAAACTATCTTAAGGGAGA
1 CAAAATTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGA
* *
525372 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGCGAGA
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* ** * *
525409 TAAAA-TTCATTTCAAGGGAAA-TGTTTTC-A-A-TG-
1 CAAAATTTTGTTTCAAGGGAAACTG-TCTCAAGAGAGA
*
525441 -----TTTATGTTTCAAGAGAAACTGTCTCAA-AGGAGA
1 CAAAATTT-TGTTTCAAGGGAAACTGTCTCAAGA-GAGA
* *
525474 CACAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
**
525511 CAAAA-TTCATTTCAAGGGAAA
1 CAAAATTTTGTTTCAAGGGAAA
525532 TGTTTTCAAT
Statistics
Matches: 303, Mismatches: 56, Indels: 84
0.68 0.13 0.19
Matches are distributed among these distances:
28 5 0.02
29 45 0.15
30 8 0.03
32 2 0.01
33 2 0.01
34 1 0.00
35 5 0.02
36 100 0.33
37 121 0.40
38 14 0.05
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (37 bp):
CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
Found at i:525262 original size:102 final size:102
Alignment explanation
Indices: 525150--525628 Score: 680
Period size: 102 Copynumber: 4.7 Consensus size: 102
525140 GTTTAAAGGA
* *
525150 AAACTGTCTCAAGAGAGGCAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAACTTAT
1 AAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAAATTAT
*
525215 TTCAAGGGAAATGTTTTCAATGTTTAAGTTTCAAGAG
66 TTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAG
* *
525252 AAACTGTCTCAAGGGAGACAAAATTTTGTTTCGAGGGAAACTATCTCAAGAGAGAC-AAAATTTA
1 AAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAAA-TTA
* *
525316 TTTCAAGGGAAATGTTTTCACTGTTTATGTTTCAAGGG
65 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAG
* * * * *
525354 AAACTATCTTAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGCGAGA-TAAAATTCA
1 AAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAAATT-A
525418 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAG
65 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAG
*
525456 AAACTGTCTCAA-AGGAGACACAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC-AAAATTC
1 AAACTGTCTCAAGA-GAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAAATT-
525519 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAG
64 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAG
* * * ** * * * *
525558 AAACTGTCTCAAGAGAGACGAAACTTAG-TTCTAAAAGAAAATGTCTCAAGGGAGACGAAATTTA
1 AAACTGTCTCAAGAGAGACAAAATTTTGTTTC-AAGGGAAACTATCTCAAGAGAGACGAAAATTA
525622 TTTCAAG
65 TTTCAAG
525629 AGAGACGAGA
Statistics
Matches: 341, Mismatches: 28, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
101 8 0.02
102 327 0.96
103 6 0.02
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (102 bp):
AAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAAATTAT
TTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAG
Found at i:525631 original size:19 final size:21
Alignment explanation
Indices: 525603--525652 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
525593 AGAAAATGTC
*
525603 TCAAGGGAGACGAAATTTATT
1 TCAAGAGAGACGAAATTTATT
* *
525624 TCAAGAGAGACGAGATTTCTT
1 TCAAGAGAGACGAAATTTATT
525645 TCAAGAGA
1 TCAAGAGA
525653 AACTATCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (21 bp):
TCAAGAGAGACGAAATTTATT
Found at i:525761 original size:76 final size:72
Alignment explanation
Indices: 525673--525823 Score: 169
Period size: 72 Copynumber: 2.0 Consensus size: 72
525663 AGAGAGAATA
* * * *
525673 TTTTAAAAAAAACAGTCATGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCCCAAGAGA
1 TTTTAAAAAAAACAATCATGAGTAAAAT-AAAT--CTTCTTCCGAGT-AAAACAGTCCCAAGAGA
525738 GACAAA-TCTTG
62 GACAAAGT-TTG
* * * * *
525749 TTTTAAGAAAAACAATCTTGAGTAAAATAAATCTTCTTCCGAGTAAAATAGTCTCAAGTGAGACA
1 TTTTAAAAAAAACAATCATGAGTAAAATAAATCTTCTTCCGAGTAAAACAGTCCCAAGAGAGACA
525814 AAGTTTG
66 AAGTTTG
525821 TTT
1 TTT
525824 GAAATAAATC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
72 25 0.38
73 12 0.18
75 4 0.06
76 24 0.37
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (72 bp):
TTTTAAAAAAAACAATCATGAGTAAAATAAATCTTCTTCCGAGTAAAACAGTCCCAAGAGAGACA
AAGTTTG
Found at i:525854 original size:52 final size:52
Alignment explanation
Indices: 525773--525875 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
525763 ATCTTGAGTA
* *
525773 AAATAAATCTTCTTCCGAGTAAAATAGTCTCAAGTGAGACAAAGTTTGTTTG
1 AAATAAATCTTCTTCCGAGTAAAACAGTCTCAAGTGAGACAAAGTATGTTTG
*
525825 AAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGACAAAGTATGTTT
1 AAATAAATCTTCTTCCGAGTAAAACAGTCTCAAGTGAGACAAAGTATGTTT
525876 TAAGAAAAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (52 bp):
AAATAAATCTTCTTCCGAGTAAAACAGTCTCAAGTGAGACAAAGTATGTTTG
Found at i:527357 original size:183 final size:183
Alignment explanation
Indices: 527049--527402 Score: 584
Period size: 183 Copynumber: 1.9 Consensus size: 183
527039 ATCAGGTTTA
*
527049 ACTGAAGGGTTCGTCTCATCACAAAGTCTTCAGCCTGACAAAAGCAGTGGAGAAAACACCGAATT
1 ACTGAAGGGTTCGTCTCATCACAAAGTCTTCAGACTGACAAAAGCAGTGGAGAAAACACCGAATT
* * * *
527114 GCCAAGTTTTCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTAATCATAAAGCCAGAGCTTTCGAGTT
* *
527179 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCATCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTAAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
* * *
527232 ACTGAAGGGTTCTTCTCATCACAAAGTCTT-TGAACTGACAAAAGCAGTGGAGCAAACACCGAAT
1 ACTGAAGGGTTCGTCTCATCACAAAGTCTTCAG-ACTGACAAAAGCAGTGGAGAAAACACCGAAT
*
527296 TGCCAAGTGTCCGAGCAGTGTCATGGTTTGAATGTAATCTAATCATAAAGCCAGAGCTTTCGAGT
65 TGCCAAGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTAATCATAAAGCCAGAGCTTTCGAGT
*
527361 TTTCTCTATAACCAATTGCCTAAGTGGAATAGCTCAGCTTTA
130 TTCCTCTATAACCAATTGCCTAAGTGGAATAGCTCAGCTTTA
527403 CAGATTTAAT
Statistics
Matches: 158, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
182 1 0.01
183 157 0.99
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (183 bp):
ACTGAAGGGTTCGTCTCATCACAAAGTCTTCAGACTGACAAAAGCAGTGGAGAAAACACCGAATT
GCCAAGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTAATCATAAAGCCAGAGCTTTCGAGTT
TCCTCTATAACCAATTGCCTAAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:530423 original size:39 final size:39
Alignment explanation
Indices: 530380--530461 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
530370 TCTACCCGAA
* * *
530380 CATGCTTAGTATTCCTAC-TCGGACATGATCTCTATCCCG
1 CATGCTTAGTATTCATACAT-GGAAATGATCTATATCCCG
* *
530419 CATGCTTATTATTCATACATGGAAATGATTTATATCCCG
1 CATGCTTAGTATTCATACATGGAAATGATCTATATCCCG
530458 CATG
1 CATG
530462 TTAATTTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 36 0.97
40 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (39 bp):
CATGCTTAGTATTCATACATGGAAATGATCTATATCCCG
Found at i:530524 original size:13 final size:13
Alignment explanation
Indices: 530508--530534 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
530498 GTTCACATGC
530508 TTTGAACAGAAAG
1 TTTGAACAGAAAG
530521 TTTGAACAGAAAG
1 TTTGAACAGAAAG
530534 T
1 T
530535 AAAGCAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (13 bp):
TTTGAACAGAAAG
Found at i:533246 original size:29 final size:29
Alignment explanation
Indices: 533204--533261 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
533194 AGCCAACCCA
**
533204 TAGGTCGCCATGCACTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCCAGCGACCTTG
533233 TAGGTCGCCATGCACTCCCAGCGACCTTG
1 TAGGTCGCCATGCACTCCCAGCGACCTTG
533262 CTCCCCACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.36, G:0.28, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCCAGCGACCTTG
Found at i:533516 original size:12 final size:12
Alignment explanation
Indices: 533499--533541 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
533489 TAGTGCAACC
533499 GAGAAAGAAAGG
1 GAGAAAGAAAGG
533511 GAGAAAGGAAAGG
1 GAGAAA-GAAAGG
*
533524 AAGAAGAAGAAAGG
1 GAG-A-AAGAAAGG
533538 GAGA
1 GAGA
533542 TAAGGCTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 6 0.23
13 9 0.35
14 9 0.35
15 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (12 bp):
GAGAAAGAAAGG
Found at i:533523 original size:13 final size:13
Alignment explanation
Indices: 533499--533546 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
533489 TAGTGCAACC
533499 GAGAAA-GAAAGG
1 GAGAAAGGAAAGG
533511 GAGAAAGGAAAGG
1 GAGAAAGGAAAGG
* *
533524 AAGAAGAAGAAAGG
1 GAGAA-AGGAAAGG
533538 GAGATAAGG
1 GAGA-AAGG
533547 CTCTTGTGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 10 0.34
14 12 0.41
15 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.42, T:0.02
Consensus pattern (13 bp):
GAGAAAGGAAAGG
Found at i:534025 original size:15 final size:16
Alignment explanation
Indices: 533997--534031 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
533987 AAAGTTTACT
533997 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
534013 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
534028 TTAT
1 TTAT
534032 TTTTTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:536311 original size:14 final size:14
Alignment explanation
Indices: 536294--536339 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
536284 ATTAATATCA
536294 AATAATTAAAT-ATT
1 AATAA-TAAATAATT
*
536308 AATAATAAATCATT
1 AATAATAAATAATT
*
536322 ATTAAT-AATAATT
1 AATAATAAATAATT
536335 AATAA
1 AATAA
536340 ATCATTAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
AATAATAAATAATT
Found at i:536321 original size:59 final size:56
Alignment explanation
Indices: 536258--536378 Score: 152
Period size: 59 Copynumber: 2.1 Consensus size: 56
536248 TATTATAATT
* * *
536258 TCATTACTAGTAATCATTAGTAAATCATTAATATCAAATAATTAAATATTAATAATAAA
1 TCATTACTAATAATAATTAATAAATCATTAATATCAAATAATTAAATATT--TAA-AAA
* * * *
536317 TCATTATTAATAATAATTAATAAATCATTAGTATTAAATCATTAAATATTTAAAAA
1 TCATTACTAATAATAATTAATAAATCATTAATATCAAATAATTAAATATTTAAAAA
536373 TCATTA
1 TCATTA
536379 ATAAATTCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
56 9 0.16
57 3 0.05
59 43 0.78
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.40
Consensus pattern (56 bp):
TCATTACTAATAATAATTAATAAATCATTAATATCAAATAATTAAATATTTAAAAA
Found at i:536325 original size:24 final size:24
Alignment explanation
Indices: 536269--536346 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
536259 CATTACTAGT
*
536269 AATCATTAGTAAATCATTAAT-ATCA
1 AATCATTATTAAAT-ATTAATAAT-A
536294 AAT-A--ATTAAATATTAATAATA
1 AATCATTATTAAATATTAATAATA
*
536315 AATCATTATT-AATAATAATTAATA
1 AATCATTATTAAATATTAA-TAATA
536339 AATCATTA
1 AATCATTA
536347 GTATTAAATC
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
21 10 0.22
22 9 0.20
23 7 0.15
24 17 0.37
25 3 0.07
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.38
Consensus pattern (24 bp):
AATCATTATTAAATATTAATAATA
Found at i:538993 original size:55 final size:54
Alignment explanation
Indices: 538934--539369 Score: 448
Period size: 55 Copynumber: 7.9 Consensus size: 54
538924 AGACTTGAAA
* * * *
538934 AATCTTCAAATAACGGGTCTGCTCCCTATTCTTTTAAG-GAGTATA-AGACTCGAAT
1 AATCTTCAAA-AACGGGTCCGCTCTCTATTC-CTTAAGAGAGTATAGA-ACTCGAAC
** * * * * * *
538989 AATCTTCGGTAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATA-AGACTCGAAC
1 AATCTTC-AAAAACGGGTCCGCTCTCTATTCCTTAAGAGAGTATAGA-ACTCGAAC
* * * * *
539044 AATCTTCAATAAACAGGTCTGCTCTCTA-TCCGTTCAGGGAGTATAGAACTCGAAT
1 AATCTTCAA-AAACGGGTCCGCTCTCTATTCC-TTAAGAGAGTATAGAACTCGAAC
* *
539099 AATCTTAATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCA-AAAACGGGTCCGCTCTCTATTCCTTAAGAGAGTATAGAACTCGAAC
*
539154 AATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCAA-AAACGGGTCCGCTCTCTATTCCTTAAGAGAGTATAGAACTCGAAC
* *
539209 AATCTTCATAAAACGGGTCCGCTATCTATTCCTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCA-AAAACGGGTCCGCTCTCTATTCCTTAAGAGAGTATAGAACTCGAAC
* * *
539264 AATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCATAGATTATAGAACTCGAAC
1 AATCTTCA-AAAACGGGTCCGCTCTCTATTCCTTAAGAGAGTATAGAACTCGAAC
** * * * * *
539319 AATCTTCAACAAACTTGTCCGCTCCCTGTTCTTTCAGAGAGTATAGGACTC
1 AATCTTCAA-AAACGGGTCCGCTCTCTATTCCTTAAGAGAGTATAGAACTC
539370 AATCTTCAAC
Statistics
Matches: 340, Mismatches: 31, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
54 8 0.02
55 325 0.96
56 7 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (54 bp):
AATCTTCAAAAACGGGTCCGCTCTCTATTCCTTAAGAGAGTATAGAACTCGAAC
Found at i:539104 original size:110 final size:110
Alignment explanation
Indices: 538924--539369 Score: 496
Period size: 110 Copynumber: 4.1 Consensus size: 110
538914 AGGATAAGTG
* * * * * *
538924 AGACTTGAAAAATCTTCAA-ATAACGGGTCTGCTCCCTATTCTTTTA-AGGAGTATA-AGACTCG
1 AGACTCGAACAATCTTCAATA-AACGGGTCCGCTCTCTATTCCTTCAGA-GAGTATAGA-ACTCG
* ** * * * *
538986 AATAATCTTCGGT-AAACGTGTCTGCTCCCTATTCATTCAGGGAGTAT
63 AACAATCTTCAATAAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTAT
* * *
539033 AAGACTCGAACAATCTTCAATAAACAGGTCTGCTCTCTA-TCCGTTCAGGGAGTATAGAACTCGA
1 -AGACTCGAACAATCTTCAATAAACGGGTCCGCTCTCTATTCC-TTCAGAGAGTATAGAACTCGA
* *
539097 ATAATCTT-AATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTAT
64 ACAATCTTCAATAAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTAT
*
539143 AGAACTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAA
1 AG-ACTCGAACAATCTTCAATAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAA
**
539208 CAATCTTC-ATAAAACGGGTCCGCTATCTATTCCTTCAGAGAGTAT
65 CAATCTTCAATAAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTAT
* *
539253 AGAACTCGAACAATCTTC-ATAAAACGGGTCCGCTCTCTATTCCTTCATAGATTATAGAACTCGA
1 AG-ACTCGAACAATCTTCAAT-AAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGA
* ** * *
539317 ACAATCTTCAA-CAAACTTGTCCGCTCCCTGTTCTTTCAGAGAGTAT
64 ACAATCTTCAATAAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTAT
539363 AGGACTC
1 A-GACTC
539370 AATCTTCAAC
Statistics
Matches: 295, Mismatches: 30, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
109 6 0.02
110 282 0.96
111 7 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (110 bp):
AGACTCGAACAATCTTCAATAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
AATCTTCAATAAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTAT
Found at i:539253 original size:165 final size:164
Alignment explanation
Indices: 538945--539369 Score: 543
Period size: 165 Copynumber: 2.6 Consensus size: 164
538935 ATCTTCAAAT
* * * * * *** *
538945 AACGGGTCTGCTCCCTATTCTTTTAAGGAGTATA-AGACTCGAATAATCTTCGGTAAACGTGTCT
1 AACGGGTCCGCTCTCTATTCCTTCAA-GAGTATAGA-ACTCGAACAATCTTCAACAAACGTGTCC
* * *
539009 GCTCCCTATTCATTCAGGGAGTATA-AGACTCGAACAATCTTCAATAAACAGGTCTGCTCTCTAT
64 GCTCCCTATTCATTCAGAGAGTATAGA-ACTCGAACAATCTTCAATAAACAGGTCCGCTATCTAT
* *
539073 CCGTTCAGGGAGTATAGAACTCGAATAATCTTAATAA
128 CCGTTCAGAGAGTATAGAACTCGAACAATCTTAATAA
*
539110 AACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCG
1 AACGGGTCCGCTCTCTATTCCTTCA-AGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCG
* * *
539175 CTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTC-ATAAAACGGGTCCGCTATCTATT
65 CTCCCTATTCATTCAGAGAGTATAGAACTCGAACAATCTTCAAT-AAACAGGTCCGCTATCTA-T
*
539239 CC-TTCAGAGAGTATAGAACTCGAACAATCTTCATAA
128 CCGTTCAGAGAGTATAGAACTCGAACAATCTTAATAA
* *
539275 AACGGGTCCGCTCTCTATTCCTTCATAGATTATAGAACTCGAACAATCTTCAACAAACTTGTCCG
1 AACGGGTCCGCTCTCTATTCCTTCA-AGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCG
* * *
539340 CTCCCTGTTCTTTCAGAGAGTATAGGACTC
65 CTCCCTATTCATTCAGAGAGTATAGAACTC
539370 AATCTTCAAC
Statistics
Matches: 228, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
164 2 0.01
165 220 0.96
166 6 0.03
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (164 bp):
AACGGGTCCGCTCTCTATTCCTTCAAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCGC
TCCCTATTCATTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACAGGTCCGCTATCTATCCG
TTCAGAGAGTATAGAACTCGAACAATCTTAATAA
Found at i:540795 original size:15 final size:14
Alignment explanation
Indices: 540733--540929 Score: 109
Period size: 15 Copynumber: 13.0 Consensus size: 14
540723 TTGAACCCCC
540733 TTTTCATTTTTCTCTTT
1 TTTTCA-TTTT-TC-TT
* *
540750 TTTTTATTTTTAATT
1 TTTTCATTTTT-CTT
540765 TTTCTC-TTTCTTCTT
1 TTT-TCATTT-TTCTT
*
540780 TTTTCACTTTTGCTT
1 TTTTCA-TTTTTCTT
*
540795 TTTTCATTTTTCAT
1 TTTTCATTTTTCTT
540809 TTTTCATTTTTCATT
1 TTTTCATTTTTC-TT
*
540824 TTTT-TTCTTTTCATT
1 TTTTCAT-TTTTC-TT
*
540839 TCTTCATTTTTTCTT
1 TTTTCA-TTTTTCTT
540854 TTTCTC-TCTTTAT-TT
1 TTT-TCAT-TTT-TCTT
540869 TTTTCATTTTTCCTT
1 TTTTCATTTTT-CTT
540884 TTCTTC-TTTTT-TT
1 TT-TTCATTTTTCTT
540897 CTTTTCATTTTTCCATCAT
1 -TTTTCATTTTT-C-T--T
540916 TTTTCATTTTTCTT
1 TTTTCATTTTTCTT
540930 CAAGCGAAAT
Statistics
Matches: 145, Mismatches: 12, Indels: 49
0.70 0.06 0.24
Matches are distributed among these distances:
13 6 0.04
14 35 0.24
15 62 0.43
16 22 0.15
17 8 0.06
18 11 0.08
19 1 0.01
ACGTcount: A:0.09, C:0.17, G:0.01, T:0.74
Consensus pattern (14 bp):
TTTTCATTTTTCTT
Found at i:540795 original size:22 final size:23
Alignment explanation
Indices: 540771--540895 Score: 77
Period size: 22 Copynumber: 5.6 Consensus size: 23
540761 AATTTTTCTC
*
540771 TTTCTTCTTTTTTCACTTTTGC-
1 TTTCTTCTTTTTTCACTTTTTCA
* *
540793 TTTTTTCATTTTTCA-TTTTTCA
1 TTTCTTCTTTTTTCACTTTTTCA
**
540815 TTT-TTCATTTTTTTTC-TTTTCA
1 TTTCTTC-TTTTTTCACTTTTTCA
540837 TTTCTTCATTTTTT--CTTTTTC-
1 TTTCTTC-TTTTTTCACTTTTTCA
* * *
540858 TCTCTTTATTTTTTTCA-TTTTTCCT
1 TTTC-TT-CTTTTTTCACTTTTT-CA
540883 TTTCTTCTTTTTT
1 TTTCTTCTTTTTT
540896 TCTTTTCATT
Statistics
Matches: 82, Mismatches: 10, Indels: 21
0.73 0.09 0.19
Matches are distributed among these distances:
21 12 0.15
22 43 0.52
23 21 0.26
24 3 0.04
25 3 0.04
ACGTcount: A:0.07, C:0.18, G:0.01, T:0.74
Consensus pattern (23 bp):
TTTCTTCTTTTTTCACTTTTTCA
Found at i:540825 original size:29 final size:28
Alignment explanation
Indices: 540733--540929 Score: 129
Period size: 29 Copynumber: 6.8 Consensus size: 28
540723 TTGAACCCCC
*
540733 TTTTCA-TTTTTC-TCTT-TTTTTT-AT
1 TTTTCATTTTTTCTTTTTCTTTTTTCAT
*
540757 TTTTAATTTTTCTCTTTCTTCTTTTTTCACT
1 TTTTCATTTTT-TCTTT-TTCTTTTTTCA-T
* *
540788 TTTGC-TTTTTTCATTTTTCATTTTTCAT
1 TTTTCATTTTTTC-TTTTTCTTTTTTCAT
* *
540816 TTTTCATTTTTTTTCTTTTCATTTCTTCATT
1 TTTTCATTTTTTCT-TTTTC-TTTTTTCA-T
**
540847 TTTTC-TTTTTCTCTCTTTATTTTTTTCAT
1 TTTTCATTTTT-TCT-TTTTCTTTTTTCAT
*
540876 TTTTCCTTTTCTTCTTTTT-TTCTTTTCAT
1 TTTTCATTTT-TTCTTTTTCTT-TTTTCAT
540905 TTTTCCATCATTTTTCATTTTTCTT
1 TTTT-CAT--TTTTTC-TTTTTCTT
540930 CAAGCGAAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 33
0.74 0.08 0.18
Matches are distributed among these distances:
24 5 0.04
25 4 0.03
26 2 0.01
27 1 0.01
28 10 0.07
29 49 0.36
30 36 0.26
31 20 0.15
32 8 0.06
33 2 0.01
ACGTcount: A:0.09, C:0.17, G:0.01, T:0.74
Consensus pattern (28 bp):
TTTTCATTTTTTCTTTTTCTTTTTTCAT
Found at i:540901 original size:7 final size:7
Alignment explanation
Indices: 540733--540901 Score: 90
Period size: 8 Copynumber: 22.3 Consensus size: 7
540723 TTGAACCCCC
540733 TTTTCATT
1 TTTTC-TT
540741 TTTCTCTT
1 TTT-TCTT
*
540749 TTTTTTAT
1 TTTTCT-T
*
540757 TTTTAATT
1 TTTT-CTT
540765 TTTCTCTT
1 TTT-TCTT
*
540773 TCTTCTT
1 TTTTCTT
*
540780 TTTTCACT
1 TTTTC-TT
*
540788 TTTGCTT
1 TTTTCTT
*
540795 TTTTCAT
1 TTTTCTT
*
540802 TTTTCAT
1 TTTTCTT
*
540809 TTTTCAT
1 TTTTCTT
540816 TTTTCATT
1 TTTTC-TT
540824 TTTT-TT
1 TTTTCTT
540830 CTTTTCATT
1 -TTTTC-TT
*
540839 TCTTCATT
1 TTTTC-TT
540847 TTTTCTT
1 TTTTCTT
540854 TTTCTCTCT
1 TTT-TCT-T
*
540863 TTAT-TT
1 TTTTCTT
540869 TTTTCATT
1 TTTTC-TT
*
540877 TTTCCTT
1 TTTTCTT
540884 TTCTTCTTT
1 TT-TTC-TT
540893 TTTTCTT
1 TTTTCTT
540900 TT
1 TT
540902 CATTTTTCCA
Statistics
Matches: 129, Mismatches: 17, Indels: 31
0.73 0.10 0.18
Matches are distributed among these distances:
6 6 0.05
7 53 0.41
8 57 0.44
9 13 0.10
ACGTcount: A:0.08, C:0.17, G:0.01, T:0.75
Consensus pattern (7 bp):
TTTTCTT
Found at i:540901 original size:22 final size:22
Alignment explanation
Indices: 540771--540907 Score: 77
Period size: 21 Copynumber: 6.1 Consensus size: 22
540761 AATTTTTCTC
* *
540771 TTTCTTCTTTTTTCACTTTTGCT
1 TTTCTTCTTTTTT-TCTTTTCCT
* * *
540794 TTT-TTC-ATTTTTCATTTTTCA
1 TTTCTTCTTTTTTTC-TTTTCCT
*
540815 TTT-TTCATTTTTTTTCTTTT-CA
1 TTTCTTC--TTTTTTTCTTTTCCT
* *
540837 TTTCTTCATTTTTTCTTTTTC-
1 TTTCTTCTTTTTTTCTTTTCCT
* *
540858 TCTCTTTATTTTTTTCATTTTTCCT
1 TTTC-TTCTTTTTTTC--TTTTCCT
*
540883 TTTCTTCTTTTTTTCTTTTCAT
1 TTTCTTCTTTTTTTCTTTTCCT
540905 TTT
1 TTT
540908 TCCATCATTT
Statistics
Matches: 91, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.01
21 29 0.32
22 27 0.30
23 10 0.11
24 21 0.23
25 3 0.03
ACGTcount: A:0.07, C:0.18, G:0.01, T:0.74
Consensus pattern (22 bp):
TTTCTTCTTTTTTTCTTTTCCT
Found at i:550600 original size:41 final size:41
Alignment explanation
Indices: 550555--550737 Score: 330
Period size: 41 Copynumber: 4.5 Consensus size: 41
550545 ATTCGCGTTG
*
550555 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCTATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
550596 CATTTTGTGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
550637 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGCTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
550678 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
550719 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
550738 CTACAGTTGT
Statistics
Matches: 135, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:550646 original size:20 final size:20
Alignment explanation
Indices: 550580--550734 Score: 112
Period size: 20 Copynumber: 7.6 Consensus size: 20
550570 TAGTTGAAAA
*
550580 TCGCGTTGCTATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * * ** **
550600 TTGTGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
550621 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
550641 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
550662 TCGCGTTGCGCTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
550682 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
550703 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
550723 TCGCGTTGCGAT
1 TCGCGTTGCGAT
550735 AGTCTACAGT
Statistics
Matches: 95, Mismatches: 37, Indels: 6
0.69 0.27 0.04
Matches are distributed among these distances:
20 53 0.56
21 42 0.44
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:550774 original size:82 final size:81
Alignment explanation
Indices: 550555--550774 Score: 282
Period size: 82 Copynumber: 2.7 Consensus size: 81
550545 ATTCGCGTTG
* * ** *
550555 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCTATTTTCCATTTTGTGTTGCGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCA-ATTCCGATGCGATAGTTGAAA
550620 ATCGCGTTGCGATTTTC
65 ATCGCGTTGCGATTTTC
* * *
550637 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGCTTTTCCATTTCGCGTTGCGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAATTC-CGATGCGATAGTTGAAA
550702 ATCGCGTTGCGATTTTC
65 ATCGCGTTGCGATTTTC
* * *
550719 CATTTCGCGTTGCGATAGTCT-ACAGTTGTCGTTGCGATTTTCCAAATT-CGATGCGA
1 CATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCC-AATTCCGATGCGA
550775 AAATTCGTTG
Statistics
Matches: 124, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
81 3 0.02
82 104 0.84
83 14 0.11
84 3 0.02
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.38
Consensus pattern (81 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAATTCCGATGCGATAGTTGAAAA
TCGCGTTGCGATTTTC
Found at i:551609 original size:21 final size:21
Alignment explanation
Indices: 551544--551609 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
551534 TTGCGATTTT
551544 CAACTATCACAACGCGAAATG
1 CAACTATCACAACGCGAAATG
* * * * ** *
551565 GAA-AATCGCAACACGATTTT
1 CAACTATCACAACGCGAAATG
551585 CAACTATCACAACGCGAAATG
1 CAACTATCACAACGCGAAATG
551606 CAAC
1 CAAC
551610 GCGAATTTGC
Statistics
Matches: 30, Mismatches: 14, Indels: 2
0.65 0.30 0.04
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.42, C:0.27, G:0.14, T:0.17
Consensus pattern (21 bp):
CAACTATCACAACGCGAAATG
Found at i:552363 original size:14 final size:14
Alignment explanation
Indices: 552342--552781 Score: 263
Period size: 12 Copynumber: 33.3 Consensus size: 14
552332 ATTAGTAATA
552342 ATTATTAAATCATT
1 ATTATTAAATCATT
*
552356 AGTATTAAATCATT
1 ATTATTAAATCATT
*
552370 ATTA-TAAA--ATC
1 ATTATTAAATCATT
*
552381 ATTACTAAATC---
1 ATTATTAAATCATT
552392 ATTATTAAATCATT
1 ATTATTAAATCATT
*
552406 ACTATTAAATCATT
1 ATTATTAAATCATT
*
552420 ATTA-T-AATGATT
1 ATTATTAAATCATT
552432 ATTATTAAATC---
1 ATTATTAAATCATT
552443 ATTATT--ATCATT
1 ATTATTAAATCATT
552455 ATTATTAAATCATT
1 ATTATTAAATCATT
*
552469 ATTA-T-AATAATT
1 ATTATTAAATCATT
* *
552481 ATTATCAAGTC---
1 ATTATTAAATCATT
552492 ATTATT--ATCATT
1 ATTATTAAATCATT
*
552504 ATTATTAAACCATT
1 ATTATTAAATCATT
*
552518 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
552530 ATTACTAAATCATT
1 ATTATTAAATCATT
*
552544 ATTA-T-AATGATT
1 ATTATTAAATCATT
**
552556 ATTATCCAATCATT
1 ATTATTAAATCATT
552570 ATTAAATCATCAAATCATT
1 ATT--AT--T-AAATCATT
* *
552589 AAATATTAAA--ATC
1 -ATTATTAAATCATT
552602 ATTATTAAATCATT
1 ATTATTAAATCATT
*
552616 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
552628 ATTACTAAATCATT
1 ATTATTAAATCATT
*
552642 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
552654 ATTATCAAATCATT
1 ATTATTAAATCATT
*
552668 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
552680 ATTATCAAATCATT
1 ATTATTAAATCATT
* *
552694 ACTA-T-AATGATT
1 ATTATTAAATCATT
*
552706 ATTATCAAATCATT
1 ATTATTAAATCATT
552720 ACTAAATCATTAAATCATT
1 A-T---T-ATTAAATCATT
*
552739 AAATATTAAAT--TT
1 -ATTATTAAATCATT
*
552752 ATTATTAAAT--TC
1 ATTATTAAATCATT
552764 ATTATTAAATCATT
1 ATTATTAAATCATT
552778 ATTA
1 ATTA
552782 AATAATTTTT
Statistics
Matches: 331, Mismatches: 47, Indels: 96
0.70 0.10 0.20
Matches are distributed among these distances:
9 5 0.02
11 27 0.08
12 122 0.37
13 17 0.05
14 122 0.37
15 11 0.03
16 4 0.01
18 3 0.01
19 17 0.05
20 3 0.01
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:552439 original size:26 final size:26
Alignment explanation
Indices: 552342--552720 Score: 396
Period size: 26 Copynumber: 15.2 Consensus size: 26
552332 ATTAGTAATA
* *
552342 ATTATTA-AATCATTAGTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
* * *
552367 ATTATTATAA-AATCATTACTAAATC
1 ATTATTATAATGATTATTATTAAATC
* *
552392 ATTATTA-AATCATTACTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
552417 ATTATTATAATGATTATTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
*
552443 ATTA-T-T-ATCATTATTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
* * *
552466 ATTATTATAATAATTATTATCAAGTC
1 ATTATTATAATGATTATTATTAAATC
* *
552492 ATTA-T-T-ATCATTATTATTAAACC
1 ATTATTATAATGATTATTATTAAATC
*
552515 ATTATTATAATGATTATTACTAAATC
1 ATTATTATAATGATTATTATTAAATC
**
552541 ATTATTATAATGATTATTATCCAATC
1 ATTATTATAATGATTATTATTAAATC
* * *
552567 ATTATTA-AATCATCAAATCATT-AA--
1 ATTATTATAATGAT--TATTATTAAATC
*
552591 A-TATTA-AA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
*
552613 ATTATTATAATGATTATTACTAAATC
1 ATTATTATAATGATTATTATTAAATC
*
552639 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATTAAATC
*
552665 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATTAAATC
* *
552691 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATTAAATC
552717 ATTA
1 ATTA
552721 CTAAATCATT
Statistics
Matches: 301, Mismatches: 35, Indels: 35
0.81 0.09 0.09
Matches are distributed among these distances:
19 5 0.02
20 2 0.01
21 2 0.01
22 1 0.00
23 49 0.16
24 9 0.03
25 52 0.17
26 177 0.59
27 4 0.01
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTATTATAATGATTATTATTAAATC
Found at i:552525 original size:98 final size:99
Alignment explanation
Indices: 552350--552720 Score: 414
Period size: 98 Copynumber: 3.7 Consensus size: 99
552340 TAATTATTAA
* * *
552350 ATCATTAGTATTAAATCATTATTATAA-AATCATTA-CTAAATCATTATTAAATCATTACTATTA
1 ATCATTATTATTAAATCATTATTATAATAATTATTATC-AAATCATTATT-AATCATTATTATTA
*
552413 AATCATTATTATAATGATTATTATTAAATCATTATT
64 AATCATTATTATAATGATTATTACTAAATCATTATT
*
552449 ATCATTATTATTAAATCATTATTATAATAATTATTATCAAGTCATTATT-ATCATTATTATTAAA
1 ATCATTATTATTAAATCATTATTATAATAATTATTATCAAATCATTATTAATCATTATTATTAAA
*
552513 CCATTATTATAATGATTATTACTAAATCATTATT
66 TCATTATTATAATGATTATTACTAAATCATTATT
* * * * * * * * * *
552547 ATAATGATTATTATCCAATCATTATTA-AATCATCA-AATC-ATTAAATATTAA-AATCATTATT
1 ATCATTATTATTA---AATCATTATTATAATAATTATTATCAAATCATTATTAATCATTATTATT
552608 AAATCATTATTATAATGATTATTACTAAATCATTATTAT
63 AAATCATTATTATAATGATTATTACTAAATCATTA-T-T
* * * * *
552647 AATGATTATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATC
1 -ATCATTATTATTAAATCATTATTATAATAATTATTATCAAATCATTA-T-TAATCATTATTATT
552712 AAATCATTA
63 AAATCATTA
552721 CTAAATCATT
Statistics
Matches: 228, Mismatches: 29, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
98 117 0.51
99 37 0.16
100 27 0.12
101 27 0.12
102 1 0.00
103 3 0.01
104 16 0.07
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (99 bp):
ATCATTATTATTAAATCATTATTATAATAATTATTATCAAATCATTATTAATCATTATTATTAAA
TCATTATTATAATGATTATTACTAAATCATTATT
Found at i:552690 original size:150 final size:149
Alignment explanation
Indices: 552342--552781 Score: 531
Period size: 150 Copynumber: 3.0 Consensus size: 149
552332 ATTAGTAATA
* * * *
552342 ATTATTA-AATCATTAGTATTAAATCATTATTATAA-AATCATTACTAAATCATTATTA-AATCA
1 ATTATTATAATCATTATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATGA
* * * * * *
552404 TTACTATTAAATCATTATTATAATGAT-TATTATTAAATCATTATTATCATTATTATTAAATCAT
66 TTATTATCAAATCATTATTA-AATCATAAATCATTAAAT-ATTA--A-AATTATTATTAAATCAT
*
552468 TATTATAATAATTATTATCAAGTC
126 TATTATAATAATTATTATCAAATC
*
552492 ATTA-T-T-ATCATTATTATTAAACCATTATTATAATGATTATTACTAAATCATTATTATAATGA
1 ATTATTATAATCATTATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATGA
* *
552554 TTATTATCCAATCATTATTAAATCATCAAATCATTAAATATTAAAATCATTATTAAATCATTATT
66 TTATTATCAAATCATTATTAAATCAT-AAATCATTAAATATTAAAATTATTATTAAATCATTATT
*
552619 ATAATGATTATTA-CTAAATC
130 ATAATAATTATTATC-AAATC
* * *
552639 ATTATTATAATGATTATTATCAAATCATTATTATAATGATTATTA-TCAAATCATTACTATAATG
1 ATTATTATAATCATTATTATTAAATCATTATTATAATGATTATTACT-AAATCATTATTATAATG
* *
552703 ATTATTATCAAATCATTACTAAATCATTAAATCATTAAATATTAAATTTATTATTAAATTCATTA
65 ATTATTATCAAATCATTATTAAATCA-TAAATCATTAAATATTAAAATTATTATTAAA-TCATTA
*
552768 TTA-AATCATTATTA
128 TTATAATAATTATTA
552782 AATAATTTTT
Statistics
Matches: 254, Mismatches: 24, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
146 1 0.00
147 39 0.15
148 27 0.11
149 28 0.11
150 140 0.55
151 19 0.07
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (149 bp):
ATTATTATAATCATTATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATGA
TTATTATCAAATCATTATTAAATCATAAATCATTAAATATTAAAATTATTATTAAATCATTATTA
TAATAATTATTATCAAATC
Found at i:552788 original size:26 final size:25
Alignment explanation
Indices: 552342--552782 Score: 292
Period size: 26 Copynumber: 17.8 Consensus size: 25
552332 ATTAGTAATA
* *
552342 ATTATTAAATCATTAGTATTAAATC
1 ATTATTAAATCATTATTAATAAATC
* * *
552367 ATTATTATAA-AATCATTACTAAATC
1 ATTATTA-AATCATTATTAATAAATC
* *
552392 ATTATTAAATCATTACTATTAAATC
1 ATTATTAAATCATTATTAATAAATC
* *
552417 ATTATTATAATGATTATTATTAAATC
1 ATTATTA-AATCATTATTAATAAATC
*
552443 ATTATT--ATCATTATTATTAAATC
1 ATTATTAAATCATTATTAATAAATC
* *
552466 ATTATTATAATAATTATT-ATCAAGTC
1 ATTATTA-AATCATTATTAAT-AAATC
* *
552492 ATTATT--ATCATTATTATTAAACC
1 ATTATTAAATCATTATTAATAAATC
* *
552515 ATTATTATAATGATTATTACTAAATC
1 ATTATTA-AATCATTATTAATAAATC
* *
552541 ATTATTATAATGATTATT-ATCCAATC
1 ATTATTA-AATCATTATTAAT-AAATC
* * *
552567 ATTATTAAATCATCAAATCATTAAAT-
1 ATTATTAAATCAT--TATTAATAAATC
552593 ATTA--AAATCATTA-T--TAAATC
1 ATTATTAAATCATTATTAATAAATC
* *
552613 ATTATTATAATGATTATTACTAAATC
1 ATTATTA-AATCATTATTAATAAATC
*
552639 ATTATTATAATGATTATT-ATCAAATC
1 ATTATTA-AATCATTATTAAT-AAATC
*
552665 ATTATTATAATGATTATT-ATCAAATC
1 ATTATTA-AATCATTATTAAT-AAATC
* *
552691 ATTACTATAATGATTATT-ATCAAATC
1 ATTATTA-AATCATTATTAAT-AAATC
* * * *
552717 ATTACTAAATCATTA--AATCATTA
1 ATTATTAAATCATTATTAATAAATC
* *
552740 AATATTAAAT--TTATTATTAAATTC
1 ATTATTAAATCATTATTAATAAA-TC
552764 ATTATTAAATCATTATTAA
1 ATTATTAAATCATTATTAA
552783 ATAATTTTTA
Statistics
Matches: 342, Mismatches: 45, Indels: 57
0.77 0.10 0.13
Matches are distributed among these distances:
19 5 0.01
20 4 0.01
21 3 0.01
22 2 0.01
23 59 0.17
24 23 0.07
25 58 0.17
26 182 0.53
27 5 0.01
28 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (25 bp):
ATTATTAAATCATTATTAATAAATC
Found at i:556039 original size:25 final size:23
Alignment explanation
Indices: 556011--556057 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
556001 ATCAAATAAA
*
556011 ATTTGTTATTTAACTTGATTTAATG
1 ATTTGATATTTAA--TGATTTAATG
556036 ATTTGATATTTAATGATTTAAT
1 ATTTGATATTTAATGATTTAAT
556058 AATAATATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
25 12 0.57
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (23 bp):
ATTTGATATTTAATGATTTAATG
Found at i:556376 original size:15 final size:16
Alignment explanation
Indices: 556356--556385 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
556346 AACAACACTA
556356 AATA-TTTTTAAACAC
1 AATATTTTTTAAACAC
556371 AATATTTTTTAAACA
1 AATATTTTTTAAACA
556386 GAAATTATCT
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:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATTTTTTAAACAC
Found at i:556911 original size:28 final size:30
Alignment explanation
Indices: 556871--556933 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
556861 ATTTTTTATA
556871 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
556901 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
556929 TAATA
1 TAATA
556934 ATTTATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 26 0.79
29 1 0.03
30 6 0.18
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:556940 original size:28 final size:28
Alignment explanation
Indices: 556875--556940 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
556865 TTTATATAAT
556875 ATAATATATAACTTAAACTAACAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
556903 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
556931 ATAATTTATA
1 ATAATATATA
556941 CTAACAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:556943 original size:21 final size:21
Alignment explanation
Indices: 556910--556958 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
556900 CTAATATAAT
556910 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
556931 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
556952 ATTAACT
1 A-TAACT
556959 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:557126 original size:6 final size:6
Alignment explanation
Indices: 557115--557149 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
557105 AGTTTATATG
557115 TGCTTA TGCTTA TGCTTA TGCTTA TGCTTA TGCTT
1 TGCTTA TGCTTA TGCTTA TGCTTA TGCTTA TGCTT
557150 CTACCCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.51
Consensus pattern (6 bp):
TGCTTA
Found at i:557241 original size:21 final size:23
Alignment explanation
Indices: 557217--557265 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
557207 AATTTGACTG
557217 TTGAAGCAAATAA-TATT-AGCA
1 TTGAAGCAAATAACTATTGAGCA
* **
557238 TTGAATCGTATAACTATTGAGCA
1 TTGAAGCAAATAACTATTGAGCA
557261 TTGAA
1 TTGAA
557266 AGGTTGCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 10 0.43
22 4 0.17
23 9 0.39
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (23 bp):
TTGAAGCAAATAACTATTGAGCA
Found at i:558910 original size:26 final size:25
Alignment explanation
Indices: 558881--558970 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 25
558871 ACACCATTCG
558881 ACGTGCATGGCCCATGCACAACTCCC
1 ACGTGCAT-GCCCATGCACAACTCCC
* * * *
558907 ACGTGCAT-CCCGA-CCTACACCATTCG
1 ACGTGCATGCCC-ATGC-ACAAC-TCCC
558933 ACGTGCATGACCCATGCACAACTCCC
1 ACGTGCATG-CCCATGCACAACTCCC
*
558959 ACATGCAT-CCCA
1 ACGTGCATGCCCA
558971 CAGCTCCCAC
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
24 8 0.16
25 5 0.10
26 27 0.55
27 5 0.10
28 4 0.08
ACGTcount: A:0.26, C:0.42, G:0.16, T:0.17
Consensus pattern (25 bp):
ACGTGCATGCCCATGCACAACTCCC
Found at i:558926 original size:52 final size:52
Alignment explanation
Indices: 558865--558969 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
558855 GACTCCATGG
* *
558865 CGACCTACACCATTCGACGTGCATGGCCCATGCACAACTCCCACGTGCATCC
1 CGACCTACACCATTCGACGTGCATGACCCATGCACAACTCCCACATGCATCC
558917 CGACCTACACCATTCGACGTGCATGACCCATGCACAACTCCCACATGCATCC
1 CGACCTACACCATTCGACGTGCATGACCCATGCACAACTCCCACATGCATCC
558969 C
1 C
558970 ACAGCTCCCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.25, C:0.43, G:0.15, T:0.17
Consensus pattern (52 bp):
CGACCTACACCATTCGACGTGCATGACCCATGCACAACTCCCACATGCATCC
Found at i:558969 original size:11 final size:11
Alignment explanation
Indices: 558955--558987 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
558945 CATGCACAAC
558955 TCCCACATGCA
1 TCCCACATGCA
558966 TCCCACA-GC-
1 TCCCACATGCA
558975 TCCCACATGCA
1 TCCCACATGCA
558986 TC
1 TC
558988 ACTCCTTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.35
10 4 0.20
11 9 0.45
ACGTcount: A:0.24, C:0.48, G:0.09, T:0.18
Consensus pattern (11 bp):
TCCCACATGCA
Found at i:558977 original size:20 final size:20
Alignment explanation
Indices: 558949--558987 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
558939 ATGACCCATG
558949 CACAACTCCCACATGCATCC
1 CACAACTCCCACATGCATCC
*
558969 CACAGCTCCCACATGCATC
1 CACAACTCCCACATGCATC
558988 ACTCCTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.49, G:0.08, T:0.15
Consensus pattern (20 bp):
CACAACTCCCACATGCATCC
Found at i:559007 original size:31 final size:31
Alignment explanation
Indices: 558966--559026 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
558956 CCCACATGCA
558966 TCCCACAGCTCCCACATGCATCACTCCTTGG
1 TCCCACAGCTCCCACATGCATCACTCCTTGG
*
558997 TCCCATAGCTCCCACATGCATCACTCCTTG
1 TCCCACAGCTCCCACATGCATCACTCCTTG
559027 ATCGCCCGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.20, C:0.44, G:0.11, T:0.25
Consensus pattern (31 bp):
TCCCACAGCTCCCACATGCATCACTCCTTGG
Found at i:559053 original size:29 final size:29
Alignment explanation
Indices: 559020--559083 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
559010 ACATGCATCA
* * *
559020 CTCCTTGATCGCCCGGATTGCATGGCGAC
1 CTCCTTGATCGCCCAGAGTGCATGACGAC
* *
559049 CTCCTTGGTCGCCCAGAGTGCATGATGAC
1 CTCCTTGATCGCCCAGAGTGCATGACGAC
559078 CTCCTT
1 CTCCTT
559084 TTATCAATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.14, C:0.34, G:0.25, T:0.27
Consensus pattern (29 bp):
CTCCTTGATCGCCCAGAGTGCATGACGAC
Found at i:559422 original size:23 final size:21
Alignment explanation
Indices: 559368--559422 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
559358 TTTATTCATT
*
559368 CAATTTTTAAAAATTATAAAA
1 CAATTTTCAAAAATTATAAAA
559389 -AAGTTTATCAAAATATTATAAAA
1 CAA-TTT-TCAAAA-ATTATAAAA
559412 CAATTATTCAA
1 CAATT-TTCAA
559423 TTTTATAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
20 2 0.07
21 3 0.11
22 5 0.18
23 15 0.54
24 3 0.11
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (21 bp):
CAATTTTCAAAAATTATAAAA
Found at i:559459 original size:31 final size:31
Alignment explanation
Indices: 559421--559480 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
559411 ACAATTATTC
*
559421 AATTTTATAGAATTATTATAAATAATCATCA
1 AATTTTATAGAACTATTATAAATAATCATCA
* *
559452 AATTTTATCGAACTATTATAAATAGTCAT
1 AATTTTATAGAACTATTATAAATAATCAT
559481 TCTTTTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (31 bp):
AATTTTATAGAACTATTATAAATAATCATCA
Found at i:562490 original size:21 final size:21
Alignment explanation
Indices: 562464--562522 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
562454 GTTCACCGTG
562464 ATTGCGGCCATCGCGGGCGCT
1 ATTGCGGCCATCGCGGGCGCT
* *
562485 ATTGCGGCCGTCGCGGACGCT
1 ATTGCGGCCATCGCGGGCGCT
562506 ATTGCGGCCATCGCGGG
1 ATTGCGGCCATCGCGGG
562523 TAACTCGGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.10, C:0.32, G:0.39, T:0.19
Consensus pattern (21 bp):
ATTGCGGCCATCGCGGGCGCT
Found at i:576883 original size:37 final size:38
Alignment explanation
Indices: 576841--576936 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 38
576831 TAATAAATTG
*
576841 AATATAAATTCATAAATAATATATAT-GTATTT-AATCA
1 AATATAAATTCATAAATAATATAT-TCATATTTCAATCA
* * *
576878 AATATAGATTTATAAATAATATATTCATATTTCAATCG
1 AATATAAATTCATAAATAATATATTCATATTTCAATCA
* *
576916 AATATAAATCCTTAAATAATA
1 AATATAAATTCATAAATAATA
576937 GAACATTACC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
36 1 0.02
37 27 0.55
38 21 0.43
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (38 bp):
AATATAAATTCATAAATAATATATTCATATTTCAATCA
Found at i:585424 original size:14 final size:14
Alignment explanation
Indices: 585405--585432 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
585395 TTAGGTTTTA
585405 GAATACTAAGGAAT
1 GAATACTAAGGAAT
585419 GAATACTAAGGAAT
1 GAATACTAAGGAAT
585433 AAACATTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
GAATACTAAGGAAT
Found at i:589555 original size:65 final size:64
Alignment explanation
Indices: 589375--589584 Score: 212
Period size: 65 Copynumber: 3.2 Consensus size: 64
589365 TTTTTCAGAG
* * * * **
589375 TGATGCACCGATGCAACAATCCATGCATCGATGCACTATGAATTAAATT-AAACATCGAATGCAT
1 TGATGCATCGATGCACCAA-CCATGCATCGATGCACTCTG-ACTATTTTGAAACATCGAATGCAT
589439 T
64 T
* * **
589440 TCATGCATCGATGCA-CATACCATGCACCGATGCA--CTGAGGATTTTATGAAAACATCGAATGC
1 TGATGCATCGATGCACCA-ACCATGCATCGATGCACTCTGACTA-TTT-TG-AAACATCGAATGC
589502 ATT
62 ATT
* * *
589505 TGATGAATCGATGCACCAACCATGCATCGATGCACTCTGACTATTTTGAAACATTGAATGCACT
1 TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGACTATTTTGAAACATCGAATGCATT
*
589569 TGATGCATCAATGCAC
1 TGATGCATCGATGCAC
589585 TCTTAGTGCA
Statistics
Matches: 120, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
61 2 0.02
62 3 0.03
63 1 0.01
64 44 0.37
65 60 0.50
66 5 0.04
67 5 0.04
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (64 bp):
TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGACTATTTTGAAACATCGAATGCATT
Found at i:595441 original size:24 final size:23
Alignment explanation
Indices: 595409--595489 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 23
595399 ACACTTAACA
595409 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCAT-CCTTTGAAT
* *
595433 GTGCATCGATTCATCATGTTG-A-
1 GTGCATCGATGCATCCT-TTGAAT
*
595455 -TGCACCGATGCATACC-TTGAAT
1 GTGCATCGATGCAT-CCTTTGAAT
595477 GTGCATCGATGCA
1 GTGCATCGATGCA
595490 CATGGTCATG
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
20 3 0.07
21 12 0.26
22 1 0.02
23 14 0.30
24 16 0.35
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (23 bp):
GTGCATCGATGCATCCTTTGAAT
Found at i:595475 original size:44 final size:44
Alignment explanation
Indices: 595410--595510 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 44
595400 CACTTAACAG
* * * *
595410 TGCATCGATGCATCCCTTTGAATGTGCATCGATTCATCATGTTGA
1 TGCATCGATGCATACCTTTGAATGTGCATCGATGCA-CATGGTCA
*
595455 TGCACCGATGCATACC-TTGAATGTGCATCGATGCACATGGTCA
1 TGCATCGATGCATACCTTTGAATGTGCATCGATGCACATGGTCA
595498 TGCATCGATGCAT
1 TGCATCGATGCAT
595511 CCGTCGGGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
43 18 0.36
44 18 0.36
45 14 0.28
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (44 bp):
TGCATCGATGCATACCTTTGAATGTGCATCGATGCACATGGTCA
Found at i:598328 original size:64 final size:64
Alignment explanation
Indices: 598160--598332 Score: 172
Period size: 65 Copynumber: 2.7 Consensus size: 64
598150 TTAAACATTT
* * * *
598160 AATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATGAAAACATCA
1 AATGCACTTAATGCATCGATGCACA-AGCATGCACCGATGCACTCAGGATTTTATGAAAACATCA
* * * * *
598225 AATGCATTTAATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTT-T-AAAACATC
1 AATGCACTTAATGCATCGATGCACAAG-CATGCACCGATGCACTCAGGAT-TTTATGAAAACATC
*
598288 G
64 A
* *
598289 AATGCACTTGATGCATCGGTGCACTAAG-AGTGCACCGATGCACT
1 AATGCACTTAATGCATCGATGCAC-AAGCA-TGCACCGATGCACT
598333 AAGAGTCCAA
Statistics
Matches: 91, Mismatches: 13, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
63 1 0.01
64 43 0.47
65 44 0.48
66 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (64 bp):
AATGCACTTAATGCATCGATGCACAAGCATGCACCGATGCACTCAGGATTTTATGAAAACATCA
Found at i:604816 original size:22 final size:21
Alignment explanation
Indices: 604774--604813 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
604764 AAGACTATTT
604774 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
604795 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
604814 ATAGAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:607845 original size:23 final size:23
Alignment explanation
Indices: 607814--607867 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
607804 GACATCTTTT
607814 ATGGCACTACGGTGCAATTCTAC
1 ATGGCACTACGGTGCAATTCTAC
* *
607837 GTGGCACTACGGTGCAATTCTAT
1 ATGGCACTACGGTGCAATTCTAC
607860 ATGGCACT
1 ATGGCACT
607868 TTGATGTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (23 bp):
ATGGCACTACGGTGCAATTCTAC
Found at i:612432 original size:23 final size:23
Alignment explanation
Indices: 612393--612453 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
612383 ATATTTTATA
* *
612393 TGGCACTAT-GGTGCAATTTTACG
1 TGGCACT-TCGGTACAATTCTACG
612416 TGGCACTTCGGTACAATTCTACG
1 TGGCACTTCGGTACAATTCTACG
612439 TGGCACTTCGGTACA
1 TGGCACTTCGGTACA
612454 TATATACGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 1 0.03
23 34 0.97
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (23 bp):
TGGCACTTCGGTACAATTCTACG
Found at i:612461 original size:23 final size:23
Alignment explanation
Indices: 612393--612461 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
612383 ATATTTTATA
* *
612393 TGGCACTAT-GGTGCAATTTTACG
1 TGGCACT-TCGGTACAATTATACG
*
612416 TGGCACTTCGGTACAATTCTACG
1 TGGCACTTCGGTACAATTATACG
612439 TGGCACTTCGGTAC-ATATATACG
1 TGGCACTTCGGTACAAT-TATACG
612462 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
22 3 0.07
23 38 0.93
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (23 bp):
TGGCACTTCGGTACAATTATACG
Found at i:614282 original size:24 final size:24
Alignment explanation
Indices: 614247--614301 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
614237 TTCTAGACAT
* *
614247 TTCTACGTGGTCATTCGTGACAAA
1 TTCTACGCGGTCATTCGGGACAAA
* *
614271 TTCTACGCGGTCCTTTGGGACAAA
1 TTCTACGCGGTCATTCGGGACAAA
614295 TTCTACG
1 TTCTACG
614302 TGGCACTTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (24 bp):
TTCTACGCGGTCATTCGGGACAAA
Found at i:617108 original size:23 final size:23
Alignment explanation
Indices: 617064--617117 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
617054 AGGTCAGATG
**
617064 ATGTTGCTATTTTAATTACTTAC
1 ATGTTGCTATTCCAATTACTTAC
* *
617087 ATGTTGCTATTCCATTTGCTTAC
1 ATGTTGCTATTCCAATTACTTAC
*
617110 ACGTTGCT
1 ATGTTGCT
617118 TGCTTTTCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (23 bp):
ATGTTGCTATTCCAATTACTTAC
Found at i:619040 original size:2 final size:2
Alignment explanation
Indices: 619035--619059 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
619025 TATATATATA
619035 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
619060 TTGCTTCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:622867 original size:15 final size:15
Alignment explanation
Indices: 622849--622893 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
622839 AGTTAATATA
622849 TAGTTTTTTAATTTT
1 TAGTTTTTTAATTTT
**
622864 TAGTAATTTAATTTT
1 TAGTTTTTTAATTTT
*
622879 TAGTATTTTTTATTT
1 TAGT-TTTTTAATTT
622894 ATCTTTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (15 bp):
TAGTTTTTTAATTTT
Found at i:622886 original size:14 final size:15
Alignment explanation
Indices: 622855--622883 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
622845 TATATAGTTT
622855 TTTAATTTTTAGTAA
1 TTTAATTTTTAGTAA
622870 TTTAATTTTTAGTA
1 TTTAATTTTTAGTA
622884 TTTTTTATTT
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:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTAATTTTTAGTAA
Found at i:629436 original size:35 final size:35
Alignment explanation
Indices: 629363--629448 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 35
629353 AAAACAATCA
* * * *
629363 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCACAAATTCCAAAATAAT
* * * *
629398 TCAATTTTATTCTAAACCATAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCACAAATTCCAAAATAAT
*
629433 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
629449 ATACTTCAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCACAAATTCCAAAATAAT
Found at i:629442 original size:21 final size:21
Alignment explanation
Indices: 629417--629459 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
629407 TTCTAAACCA
629417 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
629438 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
629459 T
1 T
629460 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:629614 original size:16 final size:18
Alignment explanation
Indices: 629582--629615 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
629572 TATTAATGTA
629582 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
629600 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
629616 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:630285 original size:130 final size:130
Alignment explanation
Indices: 630082--630329 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
630072 AATTCTCTTC
* * *
630082 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
630147 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
630212 TAATTAGGTGGTAACACGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
630277 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
630330 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (130 bp):
TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:635849 original size:23 final size:22
Alignment explanation
Indices: 635823--635874 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
635813 TTTTGAATAA
*
635823 ATAAATGAAGAATTTAAAATATT
1 ATAAATGAA-AATTAAAAATATT
*
635846 ATAAAAATTAAAATTAAAAATATT
1 AT--AAATGAAAATTAAAAATATT
635870 ATAAA
1 ATAAA
635875 AATTAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 3 0.12
23 2 0.08
24 14 0.56
25 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
ATAAATGAAAATTAAAAATATT
Found at i:635882 original size:23 final size:24
Alignment explanation
Indices: 635833--635881 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
635823 ATAAATGAAG
*
635833 AATTTAAAATATTATAAAAATTAA
1 AATTAAAAATATTATAAAAATTAA
635857 AATTAAAAATATTATAAAAATTAA
1 AATTAAAAATATTATAAAAATTAA
635881 A
1 A
635882 TAAAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AATTAAAAATATTATAAAAATTAA
Found at i:635953 original size:19 final size:19
Alignment explanation
Indices: 635916--635957 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
635906 AATTATAAAA
* *
635916 ATAAAAATATCAAATATTT
1 ATAAAAACATCAAAGATTT
*
635935 ATAAAAACATTAAAGATTT
1 ATAAAAACATCAAAGATTT
635954 -TAAA
1 ATAAA
635958 CATGAACTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (19 bp):
ATAAAAACATCAAAGATTT
Found at i:643726 original size:16 final size:17
Alignment explanation
Indices: 643705--643739 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
643695 AATTTATTAA
*
643705 ATTAATTTA-AAAATAT
1 ATTAATTGATAAAATAT
643721 ATTAATTGATAAAATAT
1 ATTAATTGATAAAATAT
643738 AT
1 AT
643740 AAATATTGAA
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:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
ATTAATTGATAAAATAT
Found at i:644105 original size:20 final size:20
Alignment explanation
Indices: 644082--644139 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
644072 TTTATTAAAG
644082 TAAAATATTATATTATATTT
1 TAAAATATTATATTATATTT
* *
644102 TAAAA-AGTGATAATATATTT
1 TAAAATA-TTATATTATATTT
*
644122 TAAATGTCATTATATTAT
1 TAAA-AT-ATTATATTAT
644140 TATATTAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 1 0.03
20 20 0.69
22 7 0.24
23 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (20 bp):
TAAAATATTATATTATATTT
Found at i:644340 original size:21 final size:21
Alignment explanation
Indices: 644292--644337 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
644282 TTAAGTATTT
*
644292 TATTATTAAAAAAATAATATA
1 TATTATTAAAAAAATAATAAA
*
644313 TATTATTAAAAATATTAATAAA
1 TATTATTAAAAA-AATAATAAA
644335 TAT
1 TAT
644338 ATTTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATTATTAAAAAAATAATAAA
Found at i:644341 original size:50 final size:49
Alignment explanation
Indices: 644245--644343 Score: 112
Period size: 50 Copynumber: 2.0 Consensus size: 49
644235 TAATTTATTA
* * * *
644245 TATTAAAAATATAATATATTATATTATTATAATATAATTAAGTATTTTAT
1 TATTAAAAAAATAATATATTATATTA-TAAAATATAATAAAATATTTTAT
644295 TATTAAAAAAATAATATA-TATTATTA-AAAATATTAATAAATATATTTTA
1 TATTAAAAAAATAATATATTA-TATTATAAAATA-TAATAAA-ATATTTTA
644344 AATTTTTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 5 0.12
49 8 0.19
50 29 0.69
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (49 bp):
TATTAAAAAAATAATATATTATATTATAAAATATAATAAAATATTTTAT
Found at i:644789 original size:35 final size:34
Alignment explanation
Indices: 644727--644832 Score: 185
Period size: 34 Copynumber: 3.1 Consensus size: 34
644717 GATACTATTA
644727 AATTAACAAATATTAATGATAATTAACTTGATTG
1 AATTAACAAATATTAATGATAATTAACTTGATTG
*
644761 GATTAACAAATATTAATTGATAATTAACTTGATTG
1 AATTAACAAATATTAA-TGATAATTAACTTGATTG
*
644796 AATTAACAAATATTAATGATAATTAACTAGATTG
1 AATTAACAAATATTAATGATAATTAACTTGATTG
644830 AAT
1 AAT
644833 ACTATTAAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
34 35 0.51
35 33 0.49
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (34 bp):
AATTAACAAATATTAATGATAATTAACTTGATTG
Found at i:645498 original size:18 final size:17
Alignment explanation
Indices: 645470--645503 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
645460 GGGTGTGCAT
*
645470 TTTTTTATATTCAAATA
1 TTTTTTATATTAAAATA
645487 TTTTTTATTATTAAAAT
1 TTTTTTA-TATTAAAAT
645504 TATGATTCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTTATATTAAAATA
Found at i:647040 original size:69 final size:69
Alignment explanation
Indices: 646926--647063 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
646916 ATTATTTATA
* * *
646926 TTCATATTAAGAAACAAAAGATATGAAAACTTCATTTTACATAGTTTCTAACTTTAATCATATTA
1 TTCATATTAAGAAACAAAAGAGATGAAAACTTCATTTTACATAGTTTCTAAATTTAATCATAGTA
646991 AAAC
66 AAAC
* * *
646995 TTCATATTAAGAAACAAAAGAGATTAAAACTTCATTTTACGTAGTTTCTAAATTTAATTATAGTA
1 TTCATATTAAGAAACAAAAGAGATGAAAACTTCATTTTACATAGTTTCTAAATTTAATCATAGTA
647060 AAAC
66 AAAC
647064 CACACCATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (69 bp):
TTCATATTAAGAAACAAAAGAGATGAAAACTTCATTTTACATAGTTTCTAAATTTAATCATAGTA
AAAC
Found at i:648335 original size:38 final size:38
Alignment explanation
Indices: 648256--648426 Score: 195
Period size: 38 Copynumber: 4.6 Consensus size: 38
648246 TTATACTACC
* *
648256 ATATTTTAATCGAATATAAATTCGT-AATAATATATTT
1 ATATTTTAATTGAATATAAATTCATAAATAATATATTT
*
648293 ATATTTTAATTGAATATAAATTCATAAAAAATATATTT
1 ATATTTTAATTGAATATAAATTCATAAATAATATATTT
** *
648331 ATA-TTTAATCAAATATAAATTAATAAATAATATATTT
1 ATATTTTAATTGAATATAAATTCATAAATAATATATTT
** ** * **
648368 CCATTTTAATTGAATATAAATTTGTAAATAACATATCCG
1 ATATTTTAATTGAATATAAATTCATAAATAATATAT-TT
648407 A-ATTTTAATTGAATATAAAT
1 ATATTTTAATTGAATATAAAT
648427 ATTTAAATAG
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
37 54 0.47
38 60 0.53
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (38 bp):
ATATTTTAATTGAATATAAATTCATAAATAATATATTT
Found at i:648422 original size:19 final size:17
Alignment explanation
Indices: 648370--648432 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 17
648360 ATATATTTCC
648370 ATTTTAATTGAATATAA
1 ATTTTAATTGAATATAA
* * *
648387 ATTTGTAAATAACATATCCGA
1 ATTT-TAATTGA-ATAT--AA
648408 ATTTTAATTGAATATAA
1 ATTTTAATTGAATATAA
648425 ATATTTAA
1 AT-TTTAA
648433 ATAGTAGAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
17 7 0.20
18 10 0.29
19 8 0.23
20 5 0.14
21 5 0.14
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (17 bp):
ATTTTAATTGAATATAA
Found at i:648826 original size:13 final size:13
Alignment explanation
Indices: 648808--648832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
648798 TATAGTGTGA
648808 AAAGGAAAATACT
1 AAAGGAAAATACT
648821 AAAGGAAAATAC
1 AAAGGAAAATAC
648833 ATAGTGAAGA
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:0.64, C:0.08, G:0.16, T:0.12
Consensus pattern (13 bp):
AAAGGAAAATACT
Found at i:657534 original size:18 final size:18
Alignment explanation
Indices: 657511--657547 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
657501 ATGACACCTT
*
657511 TTGCATTTGCATTTGGCA
1 TTGCATTTACATTTGGCA
*
657529 TTGCATTTACATTTTGCA
1 TTGCATTTACATTTGGCA
657547 T
1 T
657548 AACATTCATT
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:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (18 bp):
TTGCATTTACATTTGGCA
Found at i:658793 original size:20 final size:21
Alignment explanation
Indices: 658763--658802 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
658753 CACGGATAAT
658763 AAAGAAAAAAAACAAAGAAAG
1 AAAGAAAAAAAACAAAGAAAG
*
658784 AAAG-AAAAAAATAAAGAAA
1 AAAGAAAAAAAACAAAGAAA
658803 AAGGGAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAAAACAAAGAAAG
Found at i:659934 original size:33 final size:32
Alignment explanation
Indices: 659808--659970 Score: 245
Period size: 32 Copynumber: 5.1 Consensus size: 32
659798 AATAGAGGGA
*
659808 ATCTTTGAAGATTCAACATCAAATGTTGGGGC
1 ATCTTTGGAGATTCAACATCAAATGTTGGGGC
*
659840 ATCTTTGGAGATTCAACATCAAATGTTGAGGC
1 ATCTTTGGAGATTCAACATCAAATGTTGGGGC
* *
659872 ATCTTTAGAGATTCAACATTAAATGTTGGGGC
1 ATCTTTGGAGATTCAACATCAAATGTTGGGGC
659904 ATCTTTGGAGATTCAACATCAAAATGTTGGGGC
1 ATCTTTGGAGATTCAACATC-AAATGTTGGGGC
* * * *
659937 ATCTTTGGAGATTCAATATCGAATATTGTGGC
1 ATCTTTGGAGATTCAACATCAAATGTTGGGGC
659969 AT
1 AT
659971 TCAATATCCT
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
32 88 0.74
33 31 0.26
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (32 bp):
ATCTTTGGAGATTCAACATCAAATGTTGGGGC
Found at i:660137 original size:34 final size:34
Alignment explanation
Indices: 660077--660232 Score: 224
Period size: 34 Copynumber: 4.6 Consensus size: 34
660067 AATTTTTTTT
* * * *
660077 GTCTCACTCGAGACAATTTTCTCAAAATAAATTTT
1 GTCTCGCTTGAGACAA-TTTCTCAAAACAAATTTC
* *
660112 GTCTTAG-TTGAGACAATTTCTCAAAACAAATTTG
1 GTC-TCGCTTGAGACAATTTCTCAAAACAAATTTC
*
660146 GTCTCGCTTGAGACCATTTCTCAAAACAAATTTC
1 GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
660180 GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
1 GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
660214 GTCTCGCTTGAGACAATTT
1 GTCTCGCTTGAGACAATTT
660233 TTCTCTGAGA
Statistics
Matches: 110, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
33 2 0.02
34 96 0.87
35 11 0.10
36 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (34 bp):
GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
Found at i:660528 original size:36 final size:36
Alignment explanation
Indices: 660475--660620 Score: 220
Period size: 36 Copynumber: 4.1 Consensus size: 36
660465 TTTTTAAAGA
* * *
660475 AAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAT
1 AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
* **
660511 AAATTTTATCTCCCTTGAGATGGTTTCCCTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
660547 AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
* *
660583 AAATTTTGTCTCCCTTGAGACAGTCTCCCTTGAGAC
1 AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
660619 AA
1 AA
660621 TTTCACTTGA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 101 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (36 bp):
AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
Found at i:660562 original size:21 final size:21
Alignment explanation
Indices: 660536--660600 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
660526 TGAGATGGTT
660536 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* *
660557 TCCCTTGAGAC--A----GTT
1 TCCCTTGAAACAAATTTTGTC
660572 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
660593 TCCCTTGA
1 TCCCTTGA
660601 GACAGTCTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 12 0.35
17 1 0.03
19 1 0.03
21 20 0.59
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (21 bp):
TCCCTTGAAACAAATTTTGTC
Found at i:660672 original size:39 final size:39
Alignment explanation
Indices: 660606--660682 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 39
660596 CTTGAGACAG
*
660606 TCTCCCTTGAGACAATTTCACTTGAAACAAAAGATTTTA
1 TCTCCCTTGAGACAATTTCACTCGAAACAAAAGATTTTA
* * * * * *
660645 TCTCGCTTGAGATAGTTTCGCTCGAAACACAATATTTT
1 TCTCCCTTGAGACAATTTCACTCGAAACAAAAGATTTT
660683 TAGAAACTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (39 bp):
TCTCCCTTGAGACAATTTCACTCGAAACAAAAGATTTTA
Found at i:660751 original size:43 final size:43
Alignment explanation
Indices: 660703--660888 Score: 291
Period size: 43 Copynumber: 4.3 Consensus size: 43
660693 GCCTGATTTT
*
660703 TAGGGGTTTCTTGAAGAAAAGCTTGAGAAACCATCGTGATATG
1 TAGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATG
* **
660746 TAGGGGTTTCTTGATGAAAAACTTGAGGGACCATCGTGATATG
1 TAGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATG
* *
660789 TAGGGGTTCCTTGATGACAAGCTTGAGAAACCATCGTGATATG
1 TAGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATG
**
660832 TAGGGGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATG
1 TAGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATG
*
660875 TAGGGGTTCCTTGA
1 TAGGGGTTTCTTGA
660889 AGACAAATTT
Statistics
Matches: 129, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 129 1.00
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (43 bp):
TAGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATG
Found at i:660848 original size:86 final size:86
Alignment explanation
Indices: 660703--660894 Score: 348
Period size: 86 Copynumber: 2.2 Consensus size: 86
660693 GCCTGATTTT
* *
660703 TAGGGGTTTCTTGAAGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAAC
1 TAGGGGTTCCTTGAAGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAAC
660768 TTGAGGGACCATCGTGATATG
66 TTGAGGGACCATCGTGATATG
* *
660789 TAGGGGTTCCTTGATGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGC
1 TAGGGGTTCCTTGAAGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAAC
660854 TTGAGGGACCATCGTGATATG
66 TTGAGGGACCATCGTGATATG
660875 TAGGGGTTCCTTGAAGACAA
1 TAGGGGTTCCTTGAAGACAA
660895 ATTTGATGAA
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 101 1.00
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.29
Consensus pattern (86 bp):
TAGGGGTTCCTTGAAGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAAC
TTGAGGGACCATCGTGATATG
Found at i:661110 original size:90 final size:89
Alignment explanation
Indices: 660976--661559 Score: 909
Period size: 90 Copynumber: 6.5 Consensus size: 89
660966 ATTTTCAAGA
* *
660976 GTTTCTTGATTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAGTGAAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
661041 GATCTAAGAAACTGAGCCTTCGAGG
66 GATCTAAGAAACTGAGCCTTCG-GG
*
661066 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
*
661131 GATTTAAGAAACTGAGCCTTCGGTG
66 GATCTAAGAAACTGAGCCTTCGG-G
* * *
661156 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAATGCATGATGTTTTCAAATG
1 GTTTCTTGA-TTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
661221 AGATCTAAGAAACTGAGCCTTCGGGG
65 AGATCTAAGAAACTGAGCCTTC-GGG
*
661247 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
*
661312 GATTTAAGAAACTGAGCCTTCGGTG
66 GATCTAAGAAACTGAGCCTTCGG-G
* * * *
661337 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAATGCATGATGTTTTCATATG
1 GTTTCTTGA-TTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
661402 AGATCTAAGAAACTGAGCCTTCGGGG
65 AGATCTAAGAAACTGAGCCTTC-GGG
*
661428 GTTTCTTGATTTTTAAGTCCTTCGGACCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
* * * *
661493 GATTTAAGAAATTAAGCCTTCAGG
66 GATCTAAGAAACTGAGCCTTCGGG
* *
661517 GTTTCTTGATTTTTTAAGTCCTTCAGG-CAACCATAAGACCTTC
1 GTTTCTTGA-TTTTTAAGTCCTTCGGGCCATCCATAAGACCTTC
661560 GGGCAAAATG
Statistics
Matches: 455, Mismatches: 32, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
89 29 0.06
90 259 0.57
91 163 0.36
92 4 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (89 bp):
GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
GATCTAAGAAACTGAGCCTTCGGG
Found at i:661289 original size:181 final size:181
Alignment explanation
Indices: 660976--661559 Score: 1039
Period size: 181 Copynumber: 3.2 Consensus size: 181
660966 ATTTTCAAGA
* * *
660976 GTTTCTTGA-TTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAGTGAAGGATGTTTTCAAATG
1 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAATGCATGATGTTTTCAAATG
*
661040 AGATCTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGAC
66 AGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGAC
661105 CTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACTGAGCCTTCGGTG
131 CTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACTGAGCCTTCGGTG
661156 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAATGCATGATGTTTTCAAATG
1 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAATGCATGATGTTTTCAAATG
661221 AGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGAC
66 AGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGAC
661286 CTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACTGAGCCTTCGGTG
131 CTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACTGAGCCTTCGGTG
*
661337 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAATGCATGATGTTTTCATATG
1 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAATGCATGATGTTTTCAAATG
* *
661402 AGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGACCATCCATAAGAC
66 AGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGAC
* * *
661467 CTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAATTAAGCCTTCAG-G
131 CTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACTGAGCCTTCGGTG
* *
661517 GTTTCTTGATTTTTTAAGTCCTTCAGG-CAACCATAAGACCTTC
1 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTC
661560 GGGCAAAATG
Statistics
Matches: 391, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
179 15 0.04
180 36 0.09
181 340 0.87
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (181 bp):
GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAATGCATGATGTTTTCAAATG
AGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGAC
CTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACTGAGCCTTCGGTG
Found at i:661461 original size:271 final size:269
Alignment explanation
Indices: 660976--661559 Score: 920
Period size: 271 Copynumber: 2.2 Consensus size: 269
660966 ATTTTCAAGA
660976 GTTTCTTGATTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAGTGAAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGG-CATCCATAAGACCTTCAGTGAAGGATGTTTTCAAATGA
*
661041 GATCTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACC
65 GATCTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACC
* * *
661106 TTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACTGAGCCTTCGGTGGTTTCTTGATTTTTT
130 TTCAATGCAGGATGTTTTCAAATGAGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTT
** * *
661171 AAGTCCTTCGGGTCATCCATAAGACCTTCAATGCATGATGTTTTCAAATGAGATCTAAGAAACTG
195 AAGTCCTTCGGACCATCCATAAGACCTTCAATGCAGGATGTTTTCAAATGAGATCTAAGAAACTA
*
661236 AGCCTTCGGGG
260 AGCCTTC-AGG
* *
661247 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGG-CATCCATAAGACCTTCAGTGAAGGATGTTTTCAAATGA
* *
661312 GATTTAAGAAACTGAGCCTTCG-GTGGTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGA
65 GATCTAAGAAACTGAGCCTTCGAG-GGTTTCTTGA-TTTTTAAGTCCTTCGGGCCATCCATAAGA
* *
661376 CCTTCAATGCATGATGTTTTCATATGAGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGA-TTT
128 CCTTCAATGCAGGATGTTTTCAAATGAGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTT
* * *
661440 TTAAGTCCTTCGGACCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAAT
193 TTAAGTCCTTCGGACCATCCATAAGACCTTCAATGCAGGATGTTTTCAAATGAGATCTAAGAAAC
661505 TAAGCCTTCAGG
258 TAAGCCTTCAGG
* *
661517 GTTTCTTGATTTTTTAAGTCCTTCAGGCAACCATAAGACCTTC
1 GTTTCTTGA-TTTTTAAGTCCTTCGGGCATCCATAAGACCTTC
661560 GGGCAAAATG
Statistics
Matches: 288, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
270 26 0.09
271 179 0.62
272 83 0.29
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (269 bp):
GTTTCTTGATTTTTAAGTCCTTCGGGCATCCATAAGACCTTCAGTGAAGGATGTTTTCAAATGAG
ATCTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCT
TCAATGCAGGATGTTTTCAAATGAGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTTA
AGTCCTTCGGACCATCCATAAGACCTTCAATGCAGGATGTTTTCAAATGAGATCTAAGAAACTAA
GCCTTCAGG
Found at i:661763 original size:3 final size:3
Alignment explanation
Indices: 661748--661781 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
661738 GGTTAAAAAA
*
661748 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
661782 AGTGTGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 27 0.96
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:664054 original size:2 final size:2
Alignment explanation
Indices: 664047--664073 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
664037 TCATTAATAA
664047 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 A
664074 AATTATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:674223 original size:18 final size:18
Alignment explanation
Indices: 674200--674235 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
674190 TAAGTTTAGC
674200 CGAACAAAC-AAACAAACA
1 CGAAC-AACTAAACAAACA
674218 CGAACAACTAAACAAACA
1 CGAACAACTAAACAAACA
674236 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.64, C:0.28, G:0.06, T:0.03
Consensus pattern (18 bp):
CGAACAACTAAACAAACA
Found at i:674493 original size:51 final size:51
Alignment explanation
Indices: 674432--674529 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
674422 AAATGAGCAT
* *
674432 AAACAAATATATTATCAAATATTCACGAACATAAATGAACGAATGAGATCA
1 AAACAAATATATTATCAAATATTCACAAACATAAATAAACGAATGAGATCA
*
674483 AAACAAATATATTATCAAATATTTACAAACATAAATAAACGAATGAG
1 AAACAAATATATTATCAAATATTCACAAACATAAATAAACGAATGAG
674530 CCATTTGATC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.24
Consensus pattern (51 bp):
AAACAAATATATTATCAAATATTCACAAACATAAATAAACGAATGAGATCA
Found at i:676678 original size:44 final size:44
Alignment explanation
Indices: 676615--676703 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
676605 ATGTCCATAA
*
676615 TTCAGTTCATACTTTTTCTCTGTTAGTTTATTCTGTGGAAAAGG
1 TTCAGTTCATACTTTTTCTCTGTTAGTTTATTCAGTGGAAAAGG
676659 TTCAGTTCATACTTTTTCTCTGTTAGTTTATTCAGTGGAAAAGG
1 TTCAGTTCATACTTTTTCTCTGTTAGTTTATTCAGTGGAAAAGG
676703 T
1 T
676704 AACTAGCCAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.47
Consensus pattern (44 bp):
TTCAGTTCATACTTTTTCTCTGTTAGTTTATTCAGTGGAAAAGG
Found at i:678845 original size:16 final size:16
Alignment explanation
Indices: 678816--678879 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
678806 AAATAAATTG
*
678816 TTAAAATTTTAAAAATA
1 TTAAAA-TTAAAAAATA
*
678833 TTAAAATTAAAAACTA
1 TTAAAATTAAAAAATA
* * *
678849 GTAAAACTAAAATACTA
1 TTAAAATTAAAA-AATA
*
678866 TTGAAATTAAAAAA
1 TTAAAATTAAAAAA
678880 CCATAATCTA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
16 19 0.50
17 19 0.50
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (16 bp):
TTAAAATTAAAAAATA
Found at i:678876 original size:17 final size:16
Alignment explanation
Indices: 678824--678878 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
678814 TGTTAAAATT
678824 TTAAAAA-TATTAAAA
1 TTAAAAACTATTAAAA
*
678839 TTAAAAACTAGTAAAA
1 TTAAAAACTATTAAAA
* *
678855 CTAAAATACTATTGAAA
1 TTAAAA-ACTATTAAAA
678872 TTAAAAA
1 TTAAAAA
678879 ACCATAATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
15 7 0.21
16 13 0.39
17 13 0.39
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (16 bp):
TTAAAAACTATTAAAA
Done.