Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009645.1 Hibiscus syriacus cultivar Beakdansim tig00117063_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: 1081801
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:646285 original size:16 final size:17
Alignment explanation
Indices: 646266--646298 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
646256 CAATATTCAC
646266 AGTAATC-ATATTCCCT
1 AGTAATCTATATTCCCT
646282 AGTAATCTTATATTCCC
1 AGTAATC-TATATTCCC
646299 ACTGGAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (17 bp):
AGTAATCTATATTCCCT
Found at i:646718 original size:20 final size:20
Alignment explanation
Indices: 646693--646759 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
646683 TTTTCCCAAT
646693 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
646713 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
646734 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
646754 TCGCAA
1 TCGCAA
646760 CGCAAATTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:646736 original size:21 final size:21
Alignment explanation
Indices: 646710--646785 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
646700 GCGAATAAGT
646710 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
646731 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
*
646751 AAATCGCAACGCAAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
646772 AAATCGCAATGCGA
1 AAATCGCAACGCGA
646786 TACTGACTAT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 15 0.35
21 28 0.65
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:646799 original size:20 final size:20
Alignment explanation
Indices: 646774--646888 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
646764 AATTGGGAAA
*
646774 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
646794 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
646815 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
646835 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
646855 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
646875 TTCGCAACGCGATA
1 ATCGCAACGCGATA
646889 ATACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:646800 original size:41 final size:41
Alignment explanation
Indices: 646693--646785 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
646683 TTTTCCCAAT
*
646693 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCAAATTGGGAAAA
646734 TCGCAATGCGAATAAGTAAATCGCAACGCAAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCAAATTGGGAAAA
646775 TCGCAATGCGA
1 TCGCAATGCGA
646786 TACTGACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCAAATTGGGAAAA
Found at i:646816 original size:41 final size:41
Alignment explanation
Indices: 646771--646908 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 41
646761 GCAAATTGGG
* * *
646771 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
646812 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** *
646854 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
646893 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
646909 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.03
40 31 0.39
41 44 0.56
42 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:647105 original size:22 final size:22
Alignment explanation
Indices: 647077--647120 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
647067 CACTCTCTCA
647077 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
647099 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
647121 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:647374 original size:20 final size:20
Alignment explanation
Indices: 647345--647388 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
647335 GCGATTTTAG
647345 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
647365 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
647385 TTTC
1 TTTC
647389 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:648663 original size:18 final size:18
Alignment explanation
Indices: 648642--648686 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
648632 TCCACTTCGG
*
648642 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
648660 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
648678 GAGCCATCA
1 GAGCCATCA
648687 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:649228 original size:20 final size:19
Alignment explanation
Indices: 649194--649249 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
649184 TTGCGATTTT
*
649194 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
649213 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
649233 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
649250 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:651285 original size:19 final size:19
Alignment explanation
Indices: 651270--651318 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
651260 ATCGCAACGA
651270 GAAAATCGCAATGCAAAAT
1 GAAAATCGCAATGCAAAAT
*
651289 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCAAAAT
651308 GAAAATCGCAA
1 GAAAATCGCAA
651319 CGAGAAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCAAAAT
Found at i:651325 original size:19 final size:19
Alignment explanation
Indices: 651270--651325 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
651260 ATCGCAACGA
651270 GAAAATCGCAATGCA-AAAT
1 GAAAATCGCAATG-AGAAAT
*
651289 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGAGAAAT
*
651308 GAAAATCGCAACGAGAAA
1 GAAAATCGCAATGAGAAA
651326 ATCGCAATGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.52, C:0.16, G:0.20, T:0.12
Consensus pattern (19 bp):
GAAAATCGCAATGAGAAAT
Found at i:651381 original size:20 final size:20
Alignment explanation
Indices: 651356--651428 Score: 112
Period size: 20 Copynumber: 3.6 Consensus size: 20
651346 TCGCATTGCG
651356 ATTTTCGCGTTGAGATAGCC
1 ATTTTCGCGTTGAGATAGCC
*
651376 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGAGATAGCC
651396 ATTTTCGCGTT-ACGATAGCC
1 ATTTTCGCGTTGA-GATAGCC
651416 ATTTTTCGCGTTG
1 A-TTTTCGCGTTG
651429 CAATAGTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 38 0.79
21 10 0.21
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGAGATAGCC
Found at i:651401 original size:40 final size:41
Alignment explanation
Indices: 651356--651434 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 41
651346 TCGCATTGCG
*
651356 ATTTTCGCGTTGA-GATAGCCA-TTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTT-ACGATAGCCATTTTTCGCGTTGCAATAGCC
651396 ATTTTCGCGTTACGATAGCCATTTTTCGCGTTGCAATAG
1 ATTTTCGCGTTACGATAGCCATTTTTCGCGTTGCAATAG
651435 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
39 1 0.03
40 19 0.53
41 16 0.44
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.37
Consensus pattern (41 bp):
ATTTTCGCGTTACGATAGCCATTTTTCGCGTTGCAATAGCC
Found at i:652510 original size:24 final size:24
Alignment explanation
Indices: 652483--652536 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
652473 GTATTCAAAA
* *
652483 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
652507 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
652531 TTTGAT
1 TTTGAT
652537 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:652727 original size:12 final size:12
Alignment explanation
Indices: 652710--652734 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
652700 ATATAATCCT
652710 GAAGAAGAAAAA
1 GAAGAAGAAAAA
652722 GAAGAAGAAAAA
1 GAAGAAGAAAAA
652734 G
1 G
652735 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:655032 original size:19 final size:19
Alignment explanation
Indices: 655010--655107 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
655000 GGAAATTACT
655010 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
655029 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
655043 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
655062 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
655076 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
655095 ATCGCAACGCGAA
1 ATCGCAATGCGAA
655108 TTTAATTTCG
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 18 0.30
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 30 0.50
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:655110 original size:33 final size:33
Alignment explanation
Indices: 655011--655110 Score: 157
Period size: 33 Copynumber: 3.0 Consensus size: 33
655001 GAAATTACTA
* *
655011 TCGCAATGCGAAATGAAAATCGCAACGAGAGA-A
1 TCGCAATGCGAAATGAAAATCGCAACGCGA-ATT
*
655044 TCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
655077 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
655110 T
1 T
655111 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 1 0.02
33 61 0.98
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:655125 original size:19 final size:20
Alignment explanation
Indices: 655103--655145 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
655093 AAATCGCAAC
655103 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
655122 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
655142 GCGA
1 GCGA
655146 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:655130 original size:14 final size:14
Alignment explanation
Indices: 655131--655164 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
655121 TGCGATTTTC
655131 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
655145 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
655159 ATTTTC
1 ATTTTC
655165 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:655305 original size:14 final size:14
Alignment explanation
Indices: 655286--655322 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
655276 CATCAATTAA
655286 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
655300 ACAAATCACCTTTT
1 ACAAATCAACTTTT
655314 ACAAATCAA
1 ACAAATCAA
655323 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:658494 original size:24 final size:24
Alignment explanation
Indices: 658460--658516 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
658450 AATTTCTACA
658460 AAAAACAACACAAGT-AGATATACC
1 AAAAACAACAC-AGTAAGATATACC
* *
658484 AAAAACTACACTGTCAAGATATACC
1 AAAAACAACACAGT-AAGATATACC
658509 AAAAACAA
1 AAAAACAA
658517 AACAATAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 10 0.36
25 16 0.57
ACGTcount: A:0.58, C:0.21, G:0.07, T:0.14
Consensus pattern (24 bp):
AAAAACAACACAGTAAGATATACC
Found at i:658664 original size:33 final size:33
Alignment explanation
Indices: 658607--658705 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
658597 AAGAGATAAT
*
658607 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
658641 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* * **
658674 AACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
658706 GCGAAATAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
33 44 0.76
34 14 0.24
ACGTcount: A:0.40, C:0.26, G:0.22, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:658699 original size:19 final size:19
Alignment explanation
Indices: 658582--658727 Score: 89
Period size: 20 Copynumber: 8.1 Consensus size: 19
658572 TCTTTTGGTT
* *
658582 GAAATGAAAATCGCAAAGA
1 GAAATGAAAATCGCAACGC
*
658601 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
658621 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
658639 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
658655 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
658673 --AA--ACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
658688 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
658708 GAAAT-AAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
658726 GA
1 GA
658728 TTTTGTTTCG
Statistics
Matches: 100, Mismatches: 14, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
14 18 0.18
15 2 0.02
16 4 0.04
17 3 0.03
18 7 0.07
19 30 0.30
20 34 0.34
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:659316 original size:20 final size:20
Alignment explanation
Indices: 659291--659343 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
659281 GCGCTATGTA
659291 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
659311 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
659331 TATCTCGTTGCGA
1 AATCGCGTTGCGA
659344 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:659377 original size:20 final size:20
Alignment explanation
Indices: 659352--659405 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
659342 GATTTTGTAT
659352 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
659372 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
659392 TATCGCATTGCGAT
1 TATCGCATTGCGAT
659406 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:659390 original size:61 final size:61
Alignment explanation
Indices: 659292--659408 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
659282 CGCTATGTAA
* * * * *
659292 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
659353 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
659409 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:659424 original size:61 final size:61
Alignment explanation
Indices: 659292--659426 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
659282 CGCTATGTAA
* * * * * ** *
659292 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
659353 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
659415 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
659427 TTACTTATTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 59 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:659516 original size:21 final size:21
Alignment explanation
Indices: 659476--659516 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
659466 ATTGTATACC
**
659476 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
659497 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
659517 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:664254 original size:29 final size:29
Alignment explanation
Indices: 664221--664310 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 29
664211 CAAAACGAAC
*
664221 TAAAAATTTAATGATTATATTATAAATTT
1 TAAAAATTCAATGATTATATTATAAATTT
* * * * *
664250 TAAAAATTGAATGATCAAAATACAAATATCT
1 TAAAAATTCAATGATTATATTATAAAT-T-T
* *
664281 TAAAAATTCAAAGATTAT-TTATATATTT
1 TAAAAATTCAATGATTATATTATAAATTT
664309 TA
1 TA
664311 TCCTAAATTT
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
28 3 0.06
29 23 0.49
30 6 0.13
31 15 0.32
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (29 bp):
TAAAAATTCAATGATTATATTATAAATTT
Found at i:665428 original size:5 final size:5
Alignment explanation
Indices: 665420--665445 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
665410 TATTATTATT
665420 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
665446 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:665549 original size:39 final size:35
Alignment explanation
Indices: 665461--665551 Score: 103
Period size: 39 Copynumber: 2.5 Consensus size: 35
665451 AGTCATATAT
* *
665461 TCGGGTCGGGTCGGGTCGGGTGAAACCTTAATTTTG
1 TCGGGTCGGGTCGGGTCGGGTGAAACCTT-ATCTTC
665497 TCGGGTCGGGTCGGGTCACGGGTGAAAAATCCTT-TCTTC
1 TCGGGTCGGGTCGGGT--CGGGTG--AAA-CCTTATCTTC
665536 TCGGGTCGGGTCGGGT
1 TCGGGTCGGGTCGGGT
665552 GGCCCAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
36 16 0.33
38 6 0.12
39 19 0.40
40 3 0.06
41 4 0.08
ACGTcount: A:0.12, C:0.20, G:0.40, T:0.29
Consensus pattern (35 bp):
TCGGGTCGGGTCGGGTCGGGTGAAACCTTATCTTC
Found at i:666541 original size:12 final size:12
Alignment explanation
Indices: 666526--666550 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
666516 TTAAGTCTTA
666526 TGTTAAAAGAAT
1 TGTTAAAAGAAT
666538 TGTTAAAAGAAT
1 TGTTAAAAGAAT
666550 T
1 T
666551 ATAAATTACC
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:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (12 bp):
TGTTAAAAGAAT
Found at i:670914 original size:16 final size:16
Alignment explanation
Indices: 670893--670925 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
670883 TAATAAATAA
670893 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
670909 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
670925 A
1 A
670926 AAATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:671006 original size:10 final size:10
Alignment explanation
Indices: 670991--671064 Score: 59
Period size: 10 Copynumber: 7.6 Consensus size: 10
670981 CATTTAATAA
670991 ATAAACGAAC
1 ATAAACGAAC
671001 ATAAACGAAC
1 ATAAACGAAC
** *
671011 ACGAAC-ATAA
1 ATAAACGA-AC
671021 ATGAACACGAAC
1 AT-AA-ACGAAC
671033 ATAAACGAAC
1 ATAAACGAAC
671043 ----ACGAAC
1 ATAAACGAAC
671049 ATAAACGAAC
1 ATAAACGAAC
671059 ATAAAC
1 ATAAAC
671065 ATTGGAGACC
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 34 0.68
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.58, C:0.22, G:0.11, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:671032 original size:32 final size:32
Alignment explanation
Indices: 670987--671059 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
670977 CGTTCATTTA
670987 ATAAAT-AA-ACGAACATAAACGAACACGAAC
1 ATAAATGAACACGAACATAAACGAACACGAAC
671017 ATAAATGAACACGAACATAAACGAACACGAAC
1 ATAAATGAACACGAACATAAACGAACACGAAC
*
671049 ATAAACGAACA
1 ATAAATGAACA
671060 TAAACATTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 6 0.15
31 2 0.05
32 32 0.80
ACGTcount: A:0.59, C:0.21, G:0.11, T:0.10
Consensus pattern (32 bp):
ATAAATGAACACGAACATAAACGAACACGAAC
Found at i:671066 original size:16 final size:16
Alignment explanation
Indices: 670995--671059 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
670985 TAATAAATAA
670995 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
671011 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
671027 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
671043 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
671059 A
1 A
671060 TAAACATTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:671066 original size:32 final size:32
Alignment explanation
Indices: 670998--671066 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
670988 TAAATAAACG
* *
670998 AACATAAACGAACACGAACATAAATGAACACG
1 AACATAAACGAACACGAACATAAACGAACACA
*
671030 AACATAAACGAACACGAACATAAACGAACATA
1 AACATAAACGAACACGAACATAAACGAACACA
671062 AACAT
1 AACAT
671067 TGGAGACCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.58, C:0.22, G:0.10, T:0.10
Consensus pattern (32 bp):
AACATAAACGAACACGAACATAAACGAACACA
Found at i:671759 original size:24 final size:24
Alignment explanation
Indices: 671727--671792 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
671717 TGGCTTAAAT
* *
671727 ATAAATGAATGAACATAAACGAAC
1 ATAACTGAACGAACATAAACGAAC
* *
671751 ATAACTGAACAAACATAAATGAAC
1 ATAACTGAACGAACATAAACGAAC
671775 ATAACTGAACGAACATAA
1 ATAACTGAACGAACATAA
671793 CTGAACGTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.58, C:0.15, G:0.11, T:0.17
Consensus pattern (24 bp):
ATAACTGAACGAACATAAACGAAC
Found at i:671799 original size:14 final size:14
Alignment explanation
Indices: 671744--671799 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
671734 AATGAACATA
671744 AACGAACATAACTG
1 AACGAACATAACTG
*
671758 AACAAACAT-A---
1 AACGAACATAACTG
*
671768 AATGAACATAACTG
1 AACGAACATAACTG
671782 AACGAACATAACTG
1 AACGAACATAACTG
671796 AACG
1 AACG
671800 TTCACGAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 7 0.21
11 1 0.03
13 1 0.03
14 25 0.74
ACGTcount: A:0.54, C:0.20, G:0.12, T:0.14
Consensus pattern (14 bp):
AACGAACATAACTG
Found at i:673461 original size:27 final size:27
Alignment explanation
Indices: 673431--673483 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
673421 AATGGTCAAC
673431 GGTCAACGGTCGGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCGGGTCG
673458 GGTCAACGGTCGGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTCGGGTC
673484 AACGATCAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (27 bp):
GGTCAACGGTCGGGTCGGGTCGGGTCG
Found at i:673468 original size:22 final size:22
Alignment explanation
Indices: 673443--673500 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
673433 TCAACGGTCG
673443 GGTCGGGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCGGGTCAAC
673465 GGTCGGGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCGGGTCAAC
* *
673487 GATCAGGTCGGGTC
1 GGTCGGGTCGGGTC
673501 AGACCGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.10, C:0.22, G:0.48, T:0.19
Consensus pattern (22 bp):
GGTCGGGTCGGGTCGGGTCAAC
Found at i:673495 original size:27 final size:26
Alignment explanation
Indices: 673431--673500 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 26
673421 AATGGTCAAC
*
673431 GGTCAACGGTCGGGTCGGGTCGGGTCG
1 GGTCAACGATC-GGTCGGGTCGGGTCG
673458 GGTC-A--A-CGGTCGGGTCGGGTCG
1 GGTCAACGATCGGTCGGGTCGGGTCG
673480 GGTCAACGATCAGGTCGGGTC
1 GGTCAACGATC-GGTCGGGTC
673501 AGACCGGTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
22 19 0.51
23 2 0.05
25 1 0.03
26 2 0.05
27 13 0.35
ACGTcount: A:0.11, C:0.23, G:0.47, T:0.19
Consensus pattern (26 bp):
GGTCAACGATCGGTCGGGTCGGGTCG
Found at i:673500 original size:5 final size:5
Alignment explanation
Indices: 673438--673483 Score: 65
Period size: 5 Copynumber: 8.8 Consensus size: 5
673428 AACGGTCAAC
*
673438 GGTCG GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC
673484 AACGATCAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 33 0.89
7 4 0.11
ACGTcount: A:0.04, C:0.22, G:0.54, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:673515 original size:9 final size:9
Alignment explanation
Indices: 673497--673581 Score: 89
Period size: 9 Copynumber: 9.1 Consensus size: 9
673487 GATCAGGTCG
*
673497 GGTCAGACC
1 GGTCAAACC
673506 GGTCAAACC
1 GGTCAAACC
*
673515 GGTTCAGACC
1 GG-TCAAACC
*
673525 GGTCAAATC
1 GGTCAAACC
*
673534 GGTTCGAACC
1 GG-TCAAACC
673544 GGTCAAACC
1 GGTCAAACC
*
673553 GGTTCGAACC
1 GG-TCAAACC
673563 GGTCAAACC
1 GGTCAAACC
*
673572 GGTTAAACC
1 GGTCAAACC
673581 G
1 G
673582 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
9 40 0.63
10 23 0.37
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:673523 original size:19 final size:19
Alignment explanation
Indices: 673503--673575 Score: 121
Period size: 19 Copynumber: 3.8 Consensus size: 19
673493 GTCGGGTCAG
673503 ACCGGTCAAACCGGTTC-A
1 ACCGGTCAAACCGGTTCGA
*
673521 GACCGGTCAAATCGGTTCGA
1 -ACCGGTCAAACCGGTTCGA
673541 ACCGGTCAAACCGGTTCGA
1 ACCGGTCAAACCGGTTCGA
673560 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
673576 AAACCGATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 50 0.98
20 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.18
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCGA
Found at i:680778 original size:5 final size:5
Alignment explanation
Indices: 680768--680808 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
680758 AACGGTCAAC
*
680768 GGTCG GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTC
680809 AGATCGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.05, C:0.22, G:0.54, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:680815 original size:27 final size:26
Alignment explanation
Indices: 680760--680819 Score: 93
Period size: 27 Copynumber: 2.3 Consensus size: 26
680750 CAACGGTCAA
* *
680760 CGGTCAACGGTCGGGTCGGGTCGGGT
1 CGGTCAACGGTCGGGTCGGGTCAGAT
680786 CGGGTCAACGGTCGGGTCGGGTCAGAT
1 C-GGTCAACGGTCGGGTCGGGTCAGAT
680813 CGGTCAA
1 CGGTCAA
680820 ACCGGTTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.18
Consensus pattern (26 bp):
CGGTCAACGGTCGGGTCGGGTCAGAT
Found at i:680829 original size:19 final size:19
Alignment explanation
Indices: 680807--680923 Score: 130
Period size: 19 Copynumber: 6.1 Consensus size: 19
680797 TCGGGTCGGG
*
680807 TCAGATCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
680826 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
680845 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
680864 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
*
680883 TCAAACCGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
* * *
680903 TGAAAACCGGTTAAACCGGT
1 T-CAGACCGGTCAAACCGGT
680923 T
1 T
680924 TCCAGCAGCC
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
18 3 0.03
19 57 0.66
20 17 0.20
21 9 0.10
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:680870 original size:29 final size:29
Alignment explanation
Indices: 680813--680923 Score: 63
Period size: 29 Copynumber: 3.8 Consensus size: 29
680803 CGGGTCAGAT
* *
680813 CGGTCAAACCGGTTCAGACCGGTCAA-AC
1 CGGTCAAACCGGTTCAAACCGGTTAAGAC
* *
680841 CGGTTCAGACCGG-TCAAACCGGTT-CGAAC
1 CGG-TCAAACCGGTTCAAACCGGTTAAG-AC
* *
680870 CGGTTGAAACCGG-TCAAACCGG-TCAGAAC
1 CGG-TCAAACCGGTTCAAACCGGTTAAG-AC
*
680899 CGGTTGAAAACCGGTT-AAACCGGTT
1 CGG-T-CAAACCGGTTCAAACCGGTT
680924 TCCAGCAGCC
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
28 13 0.19
29 39 0.57
30 14 0.21
31 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (29 bp):
CGGTCAAACCGGTTCAAACCGGTTAAGAC
Found at i:686300 original size:3 final size:3
Alignment explanation
Indices: 686280--686379 Score: 139
Period size: 3 Copynumber: 33.7 Consensus size: 3
686270 TTTTTATCCA
* * * *
686280 TAT TGT TAT TAA TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
686328 TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
686375 TAT TA
1 TAT TA
686380 AATATATTAA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
2 2 0.02
3 82 0.98
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:699135 original size:7 final size:7
Alignment explanation
Indices: 699125--699183 Score: 50
Period size: 7 Copynumber: 8.1 Consensus size: 7
699115 TGAAAAGAAA
699125 AAAAAAG
1 AAAAAAG
699132 AAAAAAG
1 AAAAAAG
*
699139 AAGAAAAT
1 AA-AAAAG
*
699147 AGAAAATG
1 A-AAAAAG
699155 -AAAAAG
1 AAAAAAG
699161 AAAAGAA-
1 AAAA-AAG
699168 AAAAGAAG
1 AAAA-AAG
699176 AAAAAAG
1 AAAAAAG
699183 A
1 A
699184 GGGTCAAGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 5 0.12
7 23 0.53
8 14 0.33
9 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:699170 original size:34 final size:32
Alignment explanation
Indices: 699116--699179 Score: 110
Period size: 34 Copynumber: 1.9 Consensus size: 32
699106 TATTATGCTT
699116 GAAAAGAAAAAAAAAGAAAAAAGAAGAAAATA
1 GAAAAGAAAAAAAAAGAAAAAAGAAGAAAATA
699148 GAAAATGAAAAAGAAAAGAAAAAAGAAGAAAA
1 GAAAA-GAAAAA-AAAAGAAAAAAGAAGAAAA
699180 AAGAGGGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 5 0.17
33 6 0.20
34 19 0.63
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (32 bp):
GAAAAGAAAAAAAAAGAAAAAAGAAGAAAATA
Found at i:699183 original size:10 final size:10
Alignment explanation
Indices: 699117--699181 Score: 76
Period size: 10 Copynumber: 6.1 Consensus size: 10
699107 ATTATGCTTG
699117 AAAAGAAAAA
1 AAAAGAAAAA
699127 AAAAGAAAAA
1 AAAAGAAAAA
*
699137 AGAAGAAAATA
1 AAAAGAAAA-A
699148 GAAAATGAAAAA
1 -AAAA-GAAAAA
699160 GAAAAGAAAAA
1 -AAAAGAAAAA
*
699171 AGAAGAAAAA
1 AAAAGAAAAA
699181 A
1 A
699182 GAGGGTCAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
10 28 0.57
11 7 0.14
12 9 0.18
13 5 0.10
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:700399 original size:52 final size:52
Alignment explanation
Indices: 700321--700631 Score: 545
Period size: 52 Copynumber: 6.0 Consensus size: 52
700311 GAATATGCTC
700321 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
1 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
* *
700373 TAGCATCTTCTGGAAGTGTTCTTTGAGATATCTGATCTGGTTGGATAGAACA
1 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
*
700425 TAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
1 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
*
700477 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TAGATCAGAACA
1 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAACA
*
700529 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAACA
1 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
700581 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAAC
1 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAAC
700632 CAATCATTGA
Statistics
Matches: 246, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
51 3 0.01
52 236 0.96
53 7 0.03
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.37
Consensus pattern (52 bp):
TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
Found at i:700797 original size:83 final size:83
Alignment explanation
Indices: 700580--700788 Score: 400
Period size: 83 Copynumber: 2.5 Consensus size: 83
700570 TGGATAGAAC
700580 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
*
700645 TAGAAGATGAATTTGTTA
66 TAGAAGATGAATTTGCTA
700663 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
700728 TAGAAGATGAATTTGCTA
66 TAGAAGATGAATTTGCTA
*
700746 ATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
700789 GGATAGAACA
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 124 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (83 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
TAGAAGATGAATTTGCTA
Found at i:700848 original size:51 final size:51
Alignment explanation
Indices: 700748--700850 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 51
700738 ATTTGCTAAT
* * *
700748 AGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTGGATAGAACA
1 AGCATCTTCTGGAAATGTTCTTTGAGTTATCTGACCTGGTTAGACAGAACA
*
700799 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAG-CAGAACA
1 AGCATCTTCTGGAAATGTTCTTTGAGTTATCTGACCTGG-TTAGACAGAACA
700850 A
1 A
700851 TCATTGAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
51 44 0.94
52 3 0.06
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (51 bp):
AGCATCTTCTGGAAATGTTCTTTGAGTTATCTGACCTGGTTAGACAGAACA
Found at i:700904 original size:133 final size:134
Alignment explanation
Indices: 700665--700918 Score: 438
Period size: 133 Copynumber: 1.9 Consensus size: 134
700655 ATTTGTTAAT
* *
700665 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGAACCAATCATTGAATTTA
* *
700730 GAAGATGAATTTGCTAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTGGATAG
66 GAAGATGAATTTACCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTGGATAG
700795 AACA
131 AACA
*
700799 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGAA-CAATCATTGAATTTG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGAACCAATCATTGAATTTA
* *
700863 GAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTG
66 GAAGATGAATTTACCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTG
700919 ATTATATAGA
Statistics
Matches: 113, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
133 66 0.58
134 47 0.42
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (134 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGAACCAATCATTGAATTTA
GAAGATGAATTTACCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTGGATAG
AACA
Found at i:700904 original size:216 final size:217
Alignment explanation
Indices: 700528--701020 Score: 774
Period size: 216 Copynumber: 2.3 Consensus size: 217
700518 AGATCAGAAC
700528 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAACA-AGCATCTTCTG
* *
700593 GAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATT
65 GAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGAACCAATCATTGAATTTAGAAGATGAATT
*** * *
700658 TGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-TGGCAGAACCAATCAT
130 TACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAT-ACAGAACCAATCAT
* * *
700722 TGAATTTAGAAGATGAATTTGCTA
194 TGAACTTAGAAGATGAATTTACCA
*
700746 ATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTGGATAGAACAAGCATCTTCTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAACAAGCATCTTCTGG
*
700811 AAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGAA-CAATCATTGAATTTGGAAGATGAATTT
66 AAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGAACCAATCATTGAATTTAGAAGATGAATTT
* *
700875 ACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTATATAGAACCAATCATTG
131 ACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTATACAGAACCAATCATTG
*
700940 AACTTGGAAGATGAATTTACCA
196 AACTTAGAAGATGAATTTACCA
* * **
700962 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTATATAGAATCAAGCAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAA-CAAGCAT
701021 TGAATTTGGA
Statistics
Matches: 253, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
216 146 0.58
217 55 0.22
218 52 0.21
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (217 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAACAAGCATCTTCTGG
AAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGAACCAATCATTGAATTTAGAAGATGAATTT
ACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTATACAGAACCAATCATTG
AACTTAGAAGATGAATTTACCA
Found at i:700966 original size:83 final size:82
Alignment explanation
Indices: 700799--701122 Score: 488
Period size: 83 Copynumber: 3.9 Consensus size: 82
700789 GGATAGAACA
* *
700799 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTT-TAGCAGAACAATCATTGAATTTG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTATA-CAGAACAATCATTGAATTTG
700863 GAAGATGAATTTACCAAT
65 GAAGATGAATTTACCAAT
* * *
700881 AGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTATATAGAACCAATCATTGAACTTG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTATACAGAA-CAATCATTGAATTTG
700946 GAAGATGAATTTACCAAT
65 GAAGATGAATTTACCAAT
* * *
700964 AGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTATATAGAATCAAGCATTGAATTTG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTATACAGAA-CAATCATTGAATTTG
*
701029 GAAGATGAATTTGCCAAT
65 GAAGATGAATTTACCAAT
* * ** *
701047 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTGGACAGAACAACCATTGAATTTGG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTATACAGAACAATCATTGAATTTGG
701112 AAGATGAATTT
66 AAGATGAATTT
701123 GCTCATAGTA
Statistics
Matches: 224, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
82 68 0.30
83 156 0.70
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (82 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTATACAGAACAATCATTGAATTTGG
AAGATGAATTTACCAAT
Found at i:701954 original size:116 final size:112
Alignment explanation
Indices: 701778--702306 Score: 796
Period size: 116 Copynumber: 4.6 Consensus size: 112
701768 TTACCAGATA
701778 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
701843 AATCTTTTACTTGAATTCATCATTTGATGGATCAACTTTGCCATGTAG
66 AATCTTTTGCTTGAATTCATCATTTGATGGATCAACTTTGCCATG-AG
701891 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
701956 TTCAATCTTTTGCTTGAATTCATCATTTGATGGATCAACTTTGCCATGCAG
63 TTCAATCTTTTGCTTGAATTCATCATTTGATGGATCAACTTTGCCATG-AG
*
702007 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * * **
702072 TTCAATCTTTTTC-TGAATTCATCACTTGATGGATTATTTTTGCCA-GAG
63 TTCAATCTTTTGCTTGAATTCATCATTTGATGGATCAACTTTGCCATGAG
*
702120 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
1 --AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * *
702185 TCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACCTTT--CAAGAAAA
64 TCAATCTTTTGCTTGAATTCATCATTTGATGGATCAA-CTTTGCCATG--AG
*
702235 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
702300 AACCTTT
66 AATCTTT
702307 GTTTGATGCT
Statistics
Matches: 387, Mismatches: 19, Indels: 20
0.91 0.04 0.05
Matches are distributed among these distances:
112 54 0.14
113 113 0.29
114 4 0.01
115 48 0.12
116 168 0.43
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AATCTTTTGCTTGAATTCATCATTTGATGGATCAACTTTGCCATGAG
Found at i:702642 original size:3 final size:3
Alignment explanation
Indices: 702622--702708 Score: 124
Period size: 3 Copynumber: 29.7 Consensus size: 3
702612 TTTTTATCCA
* * * *
702622 TAT TGT TAT TAA TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
702670 TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
702709 AATATATTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
2 4 0.05
3 70 0.95
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:709516 original size:2 final size:2
Alignment explanation
Indices: 709509--709557 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
709499 GTTAGCTATC
* * *
709509 CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT CC CT CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
709551 CC CT CT C
1 CT CT CT C
709558 CCTTGATGAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (2 bp):
CT
Found at i:709520 original size:6 final size:6
Alignment explanation
Indices: 709511--709560 Score: 73
Period size: 6 Copynumber: 8.3 Consensus size: 6
709501 TAGCTATCCT
* * *
709511 CTCTCT CTCTCT CTCTCT CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC
709559 CT
1 CT
709561 TGATGACCCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (6 bp):
CTCTCC
Found at i:712302 original size:15 final size:15
Alignment explanation
Indices: 712282--712311 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
712272 TCGACTTATG
*
712282 AATGGAAAGGTATCT
1 AATGGAAAGATATCT
712297 AATGGAAAGATATCT
1 AATGGAAAGATATCT
712312 GAGTATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (15 bp):
AATGGAAAGATATCT
Found at i:712454 original size:32 final size:31
Alignment explanation
Indices: 712409--712470 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
712399 TAAAATAGTG
* *
712409 ATAAATTTTGATAACTTTAA-GGATTATTTTT
1 ATAAATTTAGATAAATTTAATGG-TTATTTTT
712440 ATAACATTTAGATAAATTTAATGGTTATTTT
1 ATAA-ATTTAGATAAATTTAATGGTTATTTT
712471 GTAATAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 4 0.15
32 21 0.78
33 2 0.07
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (31 bp):
ATAAATTTAGATAAATTTAATGGTTATTTTT
Found at i:712458 original size:21 final size:22
Alignment explanation
Indices: 712408--712458 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
712398 ATAAAATAGT
712408 GATAAATTTTGATAACTTTAAG
1 GATAAATTTTGATAACTTTAAG
* *
712430 GAT-TATTTTTATAACATTT-A-
1 GATAAATTTTGATAAC-TTTAAG
712450 GATAAATTT
1 GATAAATTT
712459 AATGGTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 3 0.12
21 15 0.62
22 6 0.25
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (22 bp):
GATAAATTTTGATAACTTTAAG
Found at i:712622 original size:2 final size:2
Alignment explanation
Indices: 712615--712646 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
712605 CTCTTAATTA
712615 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
712647 GGCAACATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:720208 original size:22 final size:22
Alignment explanation
Indices: 720182--720240 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
720172 CGGTATTATT
*
720182 AATGATTTAATTTTACTTTTAA
1 AATGATTTAATTTTAATTTTAA
720204 AATGATTTAATTTTAATTTTAA
1 AATGATTTAATTTTAATTTTAA
720226 AATGATTTAATTTTA
1 AATGATTTAATTTTA
720241 TAACAGTGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (22 bp):
AATGATTTAATTTTAATTTTAA
Found at i:726997 original size:6 final size:6
Alignment explanation
Indices: 726988--727013 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
726978 GAGAGACAGT
726988 AAAACA AAAACA AAAACA AAAACA AA
1 AAAACA AAAACA AAAACA AAAACA AA
727014 GAGATAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:728722 original size:30 final size:30
Alignment explanation
Indices: 728688--728746 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
728678 GTTGACACGG
728688 TAATCAAGAGTTATATACTCATTTTAACTC
1 TAATCAAGAGTTATATACTCATTTTAACTC
728718 TAATCAAGAGTTATATACTCATTTTAACT
1 TAATCAAGAGTTATATACTCATTTTAACT
728747 ATTAGAGGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (30 bp):
TAATCAAGAGTTATATACTCATTTTAACTC
Found at i:729085 original size:17 final size:17
Alignment explanation
Indices: 729048--729089 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
729038 AATACTTATT
*
729048 ATAAAATAAAATGATAC
1 ATAAAATAAAATGATAA
729065 ATAAAATAAAATG-TAAA
1 ATAAAATAAAATGAT-AA
729082 ATAAAATA
1 ATAAAATA
729090 TATCAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (17 bp):
ATAAAATAAAATGATAA
Found at i:730500 original size:12 final size:12
Alignment explanation
Indices: 730455--730500 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
730445 TTAGTGTATT
*
730455 TTTTAAAGTTCC
1 TTTTAAAGTCCC
*
730467 TTTTAAAGTACC
1 TTTTAAAGTCCC
730479 TTTTAAAGTCCC
1 TTTTAAAGTCCC
*
730491 TTCTAAAGTC
1 TTTTAAAGTC
730501 TCTATGATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (12 bp):
TTTTAAAGTCCC
Found at i:731965 original size:170 final size:178
Alignment explanation
Indices: 731752--732113 Score: 492
Period size: 186 Copynumber: 2.0 Consensus size: 178
731742 ATAAAAATTA
* *
731752 AATATTTTATAATTCAAAAAATAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAA
1 AATATTTTATAATTCAAAAAATAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAAA
731817 -TT-T-T-A-T-A-T-A-AATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTA
66 TTTATATAATTAATTAATAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATT-
* *
731873 GG-TTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATACTT
130 GGATTTTAAATGGTTTAGGCTGAGCCCATATATTATATATAATATACTT
*
731921 AATATTTTTTAATTCAGAAAAATAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
1 AATATTTTATAATTCA-AAAAATAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
*
731986 ATTTTATATAACTTTTTTAATTAATTAATATTGCTTTAGGTTTAAAAGTTATTGGATCTTAAATT
65 A-TTTATATAA-----TTAATTAA-TAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATT
* *
732051 ATTAATTGGATTTTAAATGGTTTAGGCTGAGCTCATATATTATATATAATATATTT
123 ATTAATTGGATTTTAAATGGTTTAGGCTGAGCCCATATATTATATATAATATACTT
*
732107 AGTATTT
1 AATATTT
732114 AAAATTTTAT
Statistics
Matches: 166, Mismatches: 9, Indels: 19
0.86 0.05 0.10
Matches are distributed among these distances:
169 15 0.09
170 47 0.28
172 2 0.01
173 1 0.01
174 1 0.01
175 1 0.01
181 1 0.01
182 1 0.01
183 1 0.01
184 1 0.01
185 2 0.01
186 93 0.56
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (178 bp):
AATATTTTATAATTCAAAAAATAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAAA
TTTATATAATTAATTAATAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTG
GATTTTAAATGGTTTAGGCTGAGCCCATATATTATATATAATATACTT
Found at i:733380 original size:31 final size:31
Alignment explanation
Indices: 733342--733435 Score: 136
Period size: 31 Copynumber: 3.0 Consensus size: 31
733332 CCCGAAGGAC
* * *
733342 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
733373 CAGTCCATATGTCCCGAAGAACATAAGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
733404 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
733435 C
1 C
733436 CCTCGACCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 56 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:742173 original size:30 final size:30
Alignment explanation
Indices: 742139--742201 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
742129 GTTATATGAG
* * *
742139 CTATGTGATAAATGTATGGAAATGATATGT
1 CTATGTGATAAAGGTATGAAAATAATATGT
742169 CTATGTGATAAAGGTATGAAAATAATATGT
1 CTATGTGATAAAGGTATGAAAATAATATGT
742199 CTA
1 CTA
742202 CGCGATATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGAAAATAATATGT
Found at i:742625 original size:9 final size:9
Alignment explanation
Indices: 742611--742635 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
742601 TATCATGGGA
742611 TATTGAATC
1 TATTGAATC
742620 TATTGAATC
1 TATTGAATC
742629 TATTGAA
1 TATTGAA
742636 CTTGTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTGAATC
Found at i:743142 original size:20 final size:20
Alignment explanation
Indices: 743117--743172 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
743107 GTATCGATGC
743117 ACTGTAGCACTATTCACAGT
1 ACTGTAGCACTATTCACAGT
**
743137 ACTGTAGCACTATTCATGGT
1 ACTGTAGCACTATTCACAGT
*
743157 ACTGTAGCACTGTTCA
1 ACTGTAGCACTATTCA
743173 AGGCACTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (20 bp):
ACTGTAGCACTATTCACAGT
Found at i:743180 original size:20 final size:20
Alignment explanation
Indices: 743115--743181 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
743105 ATGTATCGAT
743115 GCACTGTAGCACTATTCACA-
1 GCACTGTAGCACTATTCA-AG
* *
743135 GTACTGTAGCACTATTCATG
1 GCACTGTAGCACTATTCAAG
* *
743155 GTACTGTAGCACTGTTCAAG
1 GCACTGTAGCACTATTCAAG
743175 GCACTGT
1 GCACTGT
743182 TCATACCGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (20 bp):
GCACTGTAGCACTATTCAAG
Found at i:744709 original size:20 final size:20
Alignment explanation
Indices: 744686--744724 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
744676 AAATTCGCTC
*
744686 CACTGTATCACTATTCACGA
1 CACTGTAACACTATTCACGA
*
744706 CACTGTAACACTGTTCACG
1 CACTGTAACACTATTCACG
744725 GTATTGTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (20 bp):
CACTGTAACACTATTCACGA
Found at i:745703 original size:33 final size:30
Alignment explanation
Indices: 745657--745723 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 30
745647 AAAAAATAAA
*
745657 TAAATTTAATAAAAAAATTATATAGAAATAT
1 TAAATTTAATAAAAAAATCATATAG-AATAT
* *
745688 TAAATTTGAAATAAAACAATCATATAGACTAT
1 TAAATTT--AATAAAAAAATCATATAGAATAT
745720 TAAA
1 TAAA
745724 ACACATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 7 0.23
32 8 0.26
33 16 0.52
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (30 bp):
TAAATTTAATAAAAAAATCATATAGAATAT
Found at i:757343 original size:94 final size:94
Alignment explanation
Indices: 757182--757390 Score: 292
Period size: 94 Copynumber: 2.2 Consensus size: 94
757172 GCCTTAGGAC
* * * *
757182 AGCCCCTGATACATTAAATCCCATATGATTAACCAAGTAAACAGCAGAAACGCAAAACAAAATAG
1 AGCCCCTGATACATAAAATCCCATATGATTAACCAAGTAAACAGAAGAAACACAAAACAAAACAG
*
757247 GAACAGAAAGCAAAAAGGCATTCACGGAG
66 GAACAGAAAGCAAAAAAGCATTCACGGAG
* * * *
757276 AGCCCCTGATACATAAAATCCCATATGATTAACCGAGTAAACAGAAGAATCACAAAACTATACAG
1 AGCCCCTGATACATAAAATCCCATATGATTAACCAAGTAAACAGAAGAAACACAAAACAAAACAG
* *
757341 GAACAGAAAGTAAAAAAGCATTCATGGAG
66 GAACAGAAAGCAAAAAAGCATTCACGGAG
* * *
757370 ATCCCCCGATTCATAAAATCC
1 AGCCCCTGATACATAAAATCC
757391 TATTATATTC
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 101 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.16
Consensus pattern (94 bp):
AGCCCCTGATACATAAAATCCCATATGATTAACCAAGTAAACAGAAGAAACACAAAACAAAACAG
GAACAGAAAGCAAAAAAGCATTCACGGAG
Found at i:760760 original size:17 final size:16
Alignment explanation
Indices: 760738--760776 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
760728 TAAAAGAATA
760738 AAAAATATTAGTATAT
1 AAAAATATTAGTATAT
**
760754 CAAAAATATTTTTATAT
1 -AAAAATATTAGTATAT
760771 AAAAAT
1 AAAAAT
760777 GATTCCGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (16 bp):
AAAAATATTAGTATAT
Found at i:770628 original size:16 final size:15
Alignment explanation
Indices: 770601--770630 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
770591 ACATTCACTT
770601 TTTACTTTTATTTTA
1 TTTACTTTTATTTTA
770616 TTTACTATTTATTTT
1 TTTACT-TTTATTTT
770631 GGATTTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTACTTTTATTTTA
Found at i:772561 original size:10 final size:10
Alignment explanation
Indices: 772546--772571 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
772536 TCTTTTATAT
772546 TAAATTAAAA
1 TAAATTAAAA
772556 TAAATTAAAA
1 TAAATTAAAA
772566 TAAATT
1 TAAATT
772572 TATTCCTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TAAATTAAAA
Found at i:773337 original size:11 final size:11
Alignment explanation
Indices: 773306--773341 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
773296 GATCACCTTC
*
773306 TATTTTTATTT
1 TATTTTTATAT
773317 TATATTTTATAT
1 TAT-TTTTATAT
773329 TATTTTTATAT
1 TATTTTTATAT
773340 TA
1 TA
773342 GATAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTTATAT
Found at i:773349 original size:3 final size:3
Alignment explanation
Indices: 773343--773374 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
773333 TTTATATTAG
773343 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
773375 CCATGTCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:774324 original size:21 final size:22
Alignment explanation
Indices: 774300--774351 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
774290 TCCTAAATCC
774300 TAAACTCTAAAAC-TTATATTA-
1 TAAACTCTAAAACTTTA-ATTAT
*
774321 TAAACCCT-AAACTTTAATTAT
1 TAAACTCTAAAACTTTAATTAT
774342 TAAACTCTAA
1 TAAACTCTAA
774352 CCCTAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.31
21 17 0.65
22 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAACTCTAAAACTTTAATTAT
Found at i:775184 original size:31 final size:31
Alignment explanation
Indices: 775123--775215 Score: 123
Period size: 32 Copynumber: 2.9 Consensus size: 31
775113 TTTAACATTC
775123 ATTTTTTTAATTTTATCTTAACTTTAAAAAAT
1 ATTTTTTT-ATTTTATCTTAACTTTAAAAAAT
*
775155 ATTTTTTTGACTTTATCTTAACTTTAAAAAAT
1 ATTTTTTT-ATTTTATCTTAACTTTAAAAAAT
* * * *
775187 ATTATTTTATTTTATTTTTATTTTAAAAA
1 ATTTTTTTATTTTATCTTAACTTTAAAAA
775216 TTATATACCA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 17 0.31
32 37 0.69
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.58
Consensus pattern (31 bp):
ATTTTTTTATTTTATCTTAACTTTAAAAAAT
Found at i:775264 original size:31 final size:31
Alignment explanation
Indices: 775229--775356 Score: 94
Period size: 31 Copynumber: 3.7 Consensus size: 31
775219 TATACCACTC
775229 TTAAGATAAAATTAAAAAATATATTTTAAAT
1 TTAAGATAAAATTAAAAAATATATTTTAAAT
** *
775260 TTAAGATAAAATATATACGACACTTAGTCCCTTTTAAATCACT
1 TTAAGATAAAAT-TA-A--A-AAATA-T--ATTTT-AA--A-T
* *
775303 CTTAAGATAAAATTAAAAAATATTTTTTAAAG
1 -TTAAGATAAAATTAAAAAATATATTTTAAAT
775335 TTAAGATAAAATTAAAAAATAT
1 TTAAGATAAAATTAAAAAATAT
775357 TTATCTAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 26
0.70 0.06 0.24
Matches are distributed among these distances:
31 34 0.44
32 2 0.03
33 2 0.03
35 3 0.04
36 7 0.09
37 1 0.01
38 1 0.01
39 7 0.09
40 3 0.04
42 2 0.03
43 3 0.04
44 12 0.16
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (31 bp):
TTAAGATAAAATTAAAAAATATATTTTAAAT
Found at i:783632 original size:34 final size:34
Alignment explanation
Indices: 783584--783653 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
783574 ACTGATAAAG
*
783584 TTATTATTATGCTACATACCTATTTGATCTTCAT
1 TTATTATTAGGCTACATACCTATTTGATCTTCAT
*
783618 TTATTATTAGGCTACATACCTGTTTGATCTTCAT
1 TTATTATTAGGCTACATACCTATTTGATCTTCAT
783652 TT
1 TT
783654 CAGAATCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.17, G:0.09, T:0.50
Consensus pattern (34 bp):
TTATTATTAGGCTACATACCTATTTGATCTTCAT
Found at i:788535 original size:60 final size:60
Alignment explanation
Indices: 788382--788535 Score: 168
Period size: 60 Copynumber: 2.6 Consensus size: 60
788372 TGGAAGGTTT
* * * * *
788382 AAAAGTTTAGGGACCAATTTAGAAT-AATGTCATAGTTTGAAGATGAAATTGGAATGTTC
1 AAAAGTTTAAGGACAAATTTAGAATGAATGTCATAGCTTGAAGATGAAATTAGAATATTC
** * *
788441 AGGAGTTTAATGGA-AAATTTAGAATGAATATCATAGCTTGAGGATGAAATTAGAATATTC
1 AAAAGTTTAA-GGACAAATTTAGAATGAATGTCATAGCTTGAAGATGAAATTAGAATATTC
* * * *
788501 AAAAGTTTAAGGACTAATCTAAAATGAAGGTCATA
1 AAAAGTTTAAGGACAAATTTAGAATGAATGTCATA
788536 ATTTAAGGAC
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
59 20 0.26
60 56 0.74
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (60 bp):
AAAAGTTTAAGGACAAATTTAGAATGAATGTCATAGCTTGAAGATGAAATTAGAATATTC
Found at i:789868 original size:2 final size:2
Alignment explanation
Indices: 789861--789913 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
789851 TATTTAAAAT
789861 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
789903 TA TA TA TA TA T
1 TA TA TA TA TA T
789914 TTAAAAAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:797068 original size:17 final size:17
Alignment explanation
Indices: 797046--797088 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
797036 AAATTTAACT
797046 AAATTTATAATGATTCA
1 AAATTTATAATGATTCA
797063 AAATTTATAATGATTCA
1 AAATTTATAATGATTCA
797080 AAATTTATA
1 AAATTTATA
797089 TGGTCAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (17 bp):
AAATTTATAATGATTCA
Found at i:797651 original size:11 final size:11
Alignment explanation
Indices: 797635--797659 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
797625 ATTAATTTTT
797635 TATATTTTTAA
1 TATATTTTTAA
797646 TATATTTTTAA
1 TATATTTTTAA
797657 TAT
1 TAT
797660 TTATAAGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTTTAA
Found at i:798745 original size:176 final size:176
Alignment explanation
Indices: 798451--798803 Score: 688
Period size: 176 Copynumber: 2.0 Consensus size: 176
798441 AGCACCGGGA
*
798451 TTAACCCAAAGGCCTAATCTTACTACCTTTTCGATGGATATGCTCATCTTTCCTCTGGTCTCGCT
1 TTAACCCAAAGGCCTAATCTTACTACCTATTCGATGGATATGCTCATCTTTCCTCTGGTCTCGCT
*
798516 TGTGGCCTCGCTGGTCTCTCTGCCGGCATGGCTATTGGAATCGTCGGCGATGCTGGCGTTAGGTA
66 TGTGGCCTCGCTGGTCTCTCCGCCGGCATGGCTATTGGAATCGTCGGCGATGCTGGCGTTAGGTA
798581 TTGTTATCTAATTTGATTTTAACTACTCGTTTTTGGAATTTTCCAT
131 TTGTTATCTAATTTGATTTTAACTACTCGTTTTTGGAATTTTCCAT
798627 TTAACCCAAAGGCCTAATCTTACTACCTATTCGATGGATATGCTCATCTTTCCTCTGGTCTCGCT
1 TTAACCCAAAGGCCTAATCTTACTACCTATTCGATGGATATGCTCATCTTTCCTCTGGTCTCGCT
798692 TGTGGCCTCGCTGGTCTCTCCGCCGGCATGGCTATTGGAATCGTCGGCGATGCTGGCGTTAGGTA
66 TGTGGCCTCGCTGGTCTCTCCGCCGGCATGGCTATTGGAATCGTCGGCGATGCTGGCGTTAGGTA
798757 TTGTTATCTAATTTGATTTTAACTACTCGTTTTTGGAATTTTCCAT
131 TTGTTATCTAATTTGATTTTAACTACTCGTTTTTGGAATTTTCCAT
798803 T
1 T
798804 CCAACTCTTT
Statistics
Matches: 175, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
176 175 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (176 bp):
TTAACCCAAAGGCCTAATCTTACTACCTATTCGATGGATATGCTCATCTTTCCTCTGGTCTCGCT
TGTGGCCTCGCTGGTCTCTCCGCCGGCATGGCTATTGGAATCGTCGGCGATGCTGGCGTTAGGTA
TTGTTATCTAATTTGATTTTAACTACTCGTTTTTGGAATTTTCCAT
Found at i:800478 original size:21 final size:21
Alignment explanation
Indices: 800441--800480 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
800431 TACAAATACA
800441 ATTATGTTCAATTTTTAAATT
1 ATTATGTTCAATTTTTAAATT
*
800462 ATTAT-TTCATTTATTTAAA
1 ATTATGTTCAATT-TTTAAA
800481 CTTCCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTATGTTCAATTTTTAAATT
Found at i:812765 original size:174 final size:172
Alignment explanation
Indices: 812468--812815 Score: 662
Period size: 174 Copynumber: 2.0 Consensus size: 172
812458 TTTATTATAA
812468 TTTCAAAGGTGATCATTAAATTTATTGAGTTATATAAAATGATAATAAATTTTGATAAATTTAAA
1 TTTCAAAGGTGATCATTAAATTTATTGAGTTATATAAAATGATAATAAATTTTGATAAATTTAAA
812533 ATAATTTTATAAAAGTAGTGATTTTCATTTTTGTAATTTTTCTATAACTTTGTAACCAAAATCCT
66 ATAATTTTATAAAAGTAGTGATTTTCATTTTTGTAATTTTTCTATAACTTTGTAACCAAAATCCT
812598 TTA-TATATTTTGCTGTTTTCCTATTAGTTTACTTTTTGTTT
131 TTATTATATTTTGCTGTTTTCCTATTAGTTTACTTTTTGTTT
812639 TTTCAAAGGCTGATCATTAAATTTATTGAGTTATTATAAAATGATAATAAATTTTGATAAATTTA
1 TTTCAAAGG-TGATCATTAAATTTATTGAGTTA-TATAAAATGATAATAAATTTTGATAAATTT-
812704 AAAATAATTTTATAAAAGTAGTGATTTTCATTTTTGTAATTTTTCTATAACTTTGTAACCAAAAT
63 AAAATAATTTTATAAAAGTAGTGATTTTCATTTTTGTAATTTTTCTATAACTTTGTAACCAAAAT
812769 CCTTTATTATATTTTGCTGTTTTCCTATTAGTTTACTTTTTGTTT
128 CCTTTATTATATTTTGCTGTTTTCCTATTAGTTTACTTTTTGTTT
812814 TT
1 TT
812816 GGCGTCTTTG
Statistics
Matches: 173, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
171 9 0.05
172 23 0.13
173 30 0.17
174 71 0.41
175 40 0.23
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.50
Consensus pattern (172 bp):
TTTCAAAGGTGATCATTAAATTTATTGAGTTATATAAAATGATAATAAATTTTGATAAATTTAAA
ATAATTTTATAAAAGTAGTGATTTTCATTTTTGTAATTTTTCTATAACTTTGTAACCAAAATCCT
TTATTATATTTTGCTGTTTTCCTATTAGTTTACTTTTTGTTT
Found at i:823794 original size:31 final size:31
Alignment explanation
Indices: 823741--823801 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
823731 TGATACAATA
**
823741 CTAATACTTGAAAGGTTTATTTAGAATATTTTT
1 CTAATACTTGAAAGGTCAATTTA-AA-ATTTTT
823774 CTAA-ACTT-AAAGGTCAATTTAAAATTTT
1 CTAATACTTGAAAGGTCAATTTAAAATTTT
823802 GAACTATAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 5 0.19
30 2 0.08
31 11 0.42
32 4 0.15
33 4 0.15
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (31 bp):
CTAATACTTGAAAGGTCAATTTAAAATTTTT
Found at i:824510 original size:20 final size:21
Alignment explanation
Indices: 824474--824517 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
824464 TGCGATACAA
824474 TATATGAATTTATTTTGATTT
1 TATATGAATTTATTTTGATTT
824495 TATAT-AA-TTATATTTGATTT
1 TATATGAATTTAT-TTTGATTT
824515 TAT
1 TAT
824518 TATATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 13 0.59
21 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (21 bp):
TATATGAATTTATTTTGATTT
Found at i:839928 original size:15 final size:15
Alignment explanation
Indices: 839908--840151 Score: 346
Period size: 15 Copynumber: 15.9 Consensus size: 15
839898 AAATAATTTT
*
839908 AAATAATTTATTTTA
1 AAATAATTTATTATA
839923 AAATAATTTATTATA
1 AAATAATTTATTATA
*
839938 AAATAATTTATTTTA
1 AAATAATTTATTATA
839953 AAATAATTTATTATA
1 AAATAATTTATTATA
839968 AAATAATTTATTATA
1 AAATAATTTATTATA
*
839983 AAATAATTTATTTTA
1 AAATAATTTATTATA
839998 AAATAATTTATTATA
1 AAATAATTTATTATA
840013 AAATAATTTATTATA
1 AAATAATTTATTATA
840028 AAATAATTTATTATA
1 AAATAATTTATTATA
840043 AAATAATTTATTATA
1 AAATAATTTATTATA
840058 AAATAATTTATTATA
1 AAATAATTTATTATA
* *
840073 AAATAAATTATTTTA
1 AAATAATTTATTATA
*
840088 AAATAAATTATTATAA
1 AAATAATTTATTAT-A
*
840104 AACATGGATTGATTTATTTTA
1 AA-AT--A---ATTTATTATA
*
840125 AAATAATTTATT-TT
1 AAATAATTTATTATA
840139 AAATAATTTATTA
1 AAATAATTTATTA
840152 GTATGGATTG
Statistics
Matches: 210, Mismatches: 11, Indels: 16
0.89 0.05 0.07
Matches are distributed among these distances:
14 13 0.06
15 178 0.85
16 3 0.01
17 2 0.01
18 1 0.00
19 1 0.00
20 2 0.01
21 3 0.01
22 7 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
AAATAATTTATTATA
Found at i:840127 original size:52 final size:47
Alignment explanation
Indices: 839928--840230 Score: 185
Period size: 45 Copynumber: 6.3 Consensus size: 47
839918 TTTTAAAATA
* * * * * *
839928 ATTTATTATAAAATAATTTATTTTAAAATAATTTATTA-TA--AAATA
1 ATTTATTTTAAAATAAATTATTTT-AAATAAATTATTAGTATGGATTG
* * * * * *
839973 ATTTATTATAAAATAATTTATTTTAAAATAATTTATTA-TA--AAATA
1 ATTTATTTTAAAATAAATTATTTT-AAATAAATTATTAGTATGGATTG
* * * * * * *
840018 ATTTATTATAAAATAATTTATTATAAAATAATTTATTA-TA--AAATA
1 ATTTATTTTAAAATAAATTATT-TTAAATAAATTATTAGTATGGATTG
*
840063 ATTTATTATAAAATAAATTATTTTAAAATAAATTATTA-TAAAACATGGATTG
1 ATTTATTTTAAAATAAATTATTTT-AAATAAATTATTAGT-----ATGGATTG
* *
840115 ATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATAAATTATTTTAAATAAATTATTAGTATGGATTG
*
840162 ATTTATTTTAAAATATGGATTGAATTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTT-AAA-AT--A---AATTATTTTAAATAAATTATTAGTATGGATTG
840216 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
840231 TGGATTGATT
Statistics
Matches: 230, Mismatches: 11, Indels: 29
0.85 0.04 0.11
Matches are distributed among these distances:
44 1 0.00
45 121 0.53
46 1 0.00
47 17 0.07
48 3 0.01
49 2 0.01
50 2 0.01
51 13 0.06
52 27 0.12
53 3 0.01
54 40 0.17
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (47 bp):
ATTTATTTTAAAATAAATTATTTTAAATAAATTATTAGTATGGATTG
Found at i:840168 original size:32 final size:32
Alignment explanation
Indices: 840130--840227 Score: 117
Period size: 32 Copynumber: 3.4 Consensus size: 32
840120 TTTTAAAATA
840130 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
840162 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
840184 AATTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
840216 ATTTATTTTAAA
1 ATTTATTTTAAA
840228 ATATGGATTG
Statistics
Matches: 54, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
22 13 0.24
23 4 0.07
25 1 0.02
26 3 0.06
28 3 0.06
29 1 0.02
31 4 0.07
32 25 0.46
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:840169 original size:22 final size:22
Alignment explanation
Indices: 840153--840195 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
840143 AATTTATTAG
*
840153 TATGGATTGATTTATTTTAAAA
1 TATGGATTGAATTATTTTAAAA
840175 TATGGATTGAATTATTTTAAA
1 TATGGATTGAATTATTTTAAA
840196 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (22 bp):
TATGGATTGAATTATTTTAAAA
Found at i:840195 original size:54 final size:54
Alignment explanation
Indices: 840132--840244 Score: 217
Period size: 54 Copynumber: 2.1 Consensus size: 54
840122 TTAAAATAAT
840132 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAA
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAA
*
840186 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAA
840240 TTATT
1 TTATT
840245 ATTGTAGTTG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (54 bp):
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAA
Found at i:840221 original size:18 final size:18
Alignment explanation
Indices: 840198--840245 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
840188 ATTTTAAATA
*
840198 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
840216 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
840238 ATTTATTA
1 ATTTATTA
840246 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:840295 original size:54 final size:54
Alignment explanation
Indices: 840237--840944 Score: 578
Period size: 54 Copynumber: 12.9 Consensus size: 54
840227 AATATGGATT
* *
840237 GATTTA-TTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTTATTTATTTTA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
* *** *
840291 GATTTATTTACTTTAAAATATGGATTGATTTATTTTAAATAATTTGTTAGTATG
1 GATTTATTTATTTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
* ***
840345 GATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTTATTTATTTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
* *
840399 AATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATT
1 ----GATTTA-TTT--AT--TTTA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
* *
840457 GATTTA-TTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTTATTTATTTTA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
* *** *
840511 GATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATA
1 GATTTATTTATTTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
* * * ***
840565 AATTGATTTGTTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGG
1 GATTTATTTATTTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT-G
* *
840620 ATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATT
1 ---GATTTA-TTT--AT--TTTA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
* *
840677 GATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATCTATTAGTATG
1 GATTTATTTATTTTA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
* *** *
840731 GATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATA
1 GATTTATTTATTTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
* *** *
840785 GATTGATTTATTTTAAAATATGTATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTTATTTATTTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
*
840839 TATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATT
1 ----GATTTA-TTT--AT--TTTATT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATG
*
840897 GATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATT
1 GATTTATTTATTTTA-TTGTATGGATTGATTTATTTTAAATAATTTATT
840945 TTAAATTTCA
Statistics
Matches: 544, Mismatches: 59, Indels: 103
0.77 0.08 0.15
Matches are distributed among these distances:
48 69 0.13
49 8 0.01
50 12 0.02
52 12 0.02
53 3 0.01
54 296 0.54
55 20 0.04
58 22 0.04
59 14 0.03
60 6 0.01
61 5 0.01
62 6 0.01
63 18 0.03
64 53 0.10
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
GATTTATTTATTTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
Found at i:840306 original size:32 final size:32
Alignment explanation
Indices: 840254--840887 Score: 304
Period size: 32 Copynumber: 20.7 Consensus size: 32
840244 TATTGTAGTT
*
840254 GTATAGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
840286 GTATGGATTTATTTA-CTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
840309 -TATGGATTGATTTATTTTAAATAATTTGTTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
840340 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
840363 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
840394 GTATGAATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
**
840426 GTATGGATTGATTTATTTTAAA-ATATGGATT-
1 GTATGGATTGATTTATTTTAAATA-ATTTATTA
** * *
840457 G-ATTTATT-ATTGTAGTTGTATGAATTGATTTATT-
1 GTATGGATTGATT-TA-TT-T-T-AAATAATTTATTA
* * * * * *
840491 -T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATT--T-T-AAATAATTTA--TT--A
*
840528 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
** *
840560 GTATAAATTGATTT-GTTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
840583 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
840614 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
840646 GTATGGATTGATTTATTTTAAAATATGGATTGATTTA
1 GTATGGATTGATTTATTTT-AAATA---ATTTA-TTA
* * ** * *
840683 TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATCTATTA
1 GTA-TGGA-TTG-ATTTATT--TTAA------ATAATTTATTA
840726 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
840749 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
840780 GTATAGATTGATTTATTTT-AA-AA--TA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
840806 G--T--ATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
840834 GTATGTATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
840866 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
840888 ATATAGATTG
Statistics
Matches: 468, Mismatches: 50, Indels: 168
0.68 0.07 0.24
Matches are distributed among these distances:
22 65 0.14
23 17 0.04
24 3 0.01
25 3 0.01
26 15 0.03
27 2 0.00
28 15 0.03
29 6 0.01
30 10 0.02
31 20 0.04
32 226 0.48
33 10 0.02
34 11 0.02
36 11 0.02
37 7 0.01
38 5 0.01
39 5 0.01
40 17 0.04
41 4 0.01
42 5 0.01
43 5 0.01
44 3 0.01
47 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:840315 original size:22 final size:22
Alignment explanation
Indices: 840287--840329 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
840277 AATTTATTAG
*
840287 TATGGATTTATTTACTTTAAAA
1 TATGGATTGATTTACTTTAAAA
*
840309 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTACTTTAAA
840330 TAATTTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTACTTTAAAA
Found at i:840360 original size:220 final size:220
Alignment explanation
Indices: 840175--840944 Score: 1396
Period size: 220 Copynumber: 3.5 Consensus size: 220
840165 TATTTTAAAA
*
840175 TATGGATTGAATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* * *
840240 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTTATTTACTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
* *
840305 AAAATATGGATTGATTTATTTTAAATAATTTGTTAGTATGGATTGATTTATTTTAAAATATGGAT
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGAT
840370 TGATTTATTTTAAATAATTTATTAG
196 TGATTTATTTTAAATAATTTATTAG
* *
840395 TATGAATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
840460 TTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
* *
840525 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTGTTTTAAAATATGGAT
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGAT
840590 TGATTTATTTTAAATAATTTATTAG
196 TGATTTATTTTAAATAATTTATTAG
*
840615 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
840680 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATCTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
*
840745 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGTAT
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGAT
840810 TGATTTATTTTAAATAATTTATTAG
196 TGATTTATTTTAAATAATTTATTAG
* *
840835 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
840900 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATT
840945 TTAAATTTCA
Statistics
Matches: 529, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
220 529 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (220 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGAT
TGATTTATTTTAAATAATTTATTAG
Found at i:840366 original size:22 final size:22
Alignment explanation
Indices: 840341--840383 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
840331 AATTTGTTAG
840341 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
840363 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
840384 TAATTTATTA
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:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:840391 original size:14 final size:14
Alignment explanation
Indices: 840372--840425 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
840362 ATATGGATTG
840372 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
840386 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
840404 ATTTATTTTAAATA
1 ATTTATTTTAAATA
840418 ATTTATTT
1 ATTTATTT
840426 GTATGGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.56
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:840532 original size:22 final size:22
Alignment explanation
Indices: 840507--840549 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
840497 AATTTATTAG
840507 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
840529 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
840550 TAATTTATTA
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:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:840755 original size:22 final size:22
Alignment explanation
Indices: 840727--840769 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
840717 AATCTATTAG
840727 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
840749 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
840770 TAATTTATTA
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:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:840844 original size:86 final size:80
Alignment explanation
Indices: 840749--840944 Score: 279
Period size: 86 Copynumber: 2.4 Consensus size: 80
840739 TATTTTAAAA
840749 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATAT-GTATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAG-ATTGA
*
840813 TTTATTTTAAATAATTTA-TTAG
65 TTTA--TT--AT--TGTAGTT-G
* *
840835 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTGAT
840900 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
840915 TATGGATTGATTTATTTTAAATAATTTATT
1 TATGGATTGATTTATTTTAAATAATTTATT
840945 TTAAATTTCA
Statistics
Matches: 104, Mismatches: 4, Indels: 10
0.88 0.03 0.08
Matches are distributed among these distances:
80 33 0.32
81 2 0.02
82 2 0.02
84 2 0.02
86 64 0.62
87 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTGAT
TTATTATTGTAGTTG
Found at i:840883 original size:22 final size:23
Alignment explanation
Indices: 840858--840931 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 23
840848 ATTTTAAATA
840858 ATTTAT-TAGTATGGATTGATTT
1 ATTTATATAGTATGGATTGATTT
* * *
840880 ATTT-TAAAATATAGATTGATTT
1 ATTTATATAGTATGGATTGATTT
* *
840902 ATTATTGTAGTTGTATGGATTGATTT
1 A-T-TTATA-TAGTATGGATTGATTT
840928 ATTT
1 ATTT
840932 TAAATAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
21 1 0.03
22 18 0.45
23 1 0.03
24 4 0.10
25 3 0.08
26 13 0.32
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (23 bp):
ATTTATATAGTATGGATTGATTT
Found at i:840943 original size:14 final size:14
Alignment explanation
Indices: 840924--840950 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
840914 GTATGGATTG
840924 ATTTATTTTAAATA
1 ATTTATTTTAAATA
840938 ATTTATTTTAAAT
1 ATTTATTTTAAAT
840951 TTCAGTATTG
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:844217 original size:27 final size:26
Alignment explanation
Indices: 844157--844229 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
844147 TTTATATATA
844157 TTAACTTAAAAATATATTTA-TATTAAC
1 TTAA-TTAAAAATAT-TTTATTATTAAC
* *
844184 TT-ATTAAACATATTTTATTATTAAG
1 TTAATTAAAAATATTTTATTATTAAC
844209 TTAATTTAAAAATATTTTATT
1 TTAA-TTAAAAATATTTTATT
844230 TTATTTTCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 4 0.10
25 17 0.43
26 2 0.05
27 17 0.43
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (26 bp):
TTAATTAAAAATATTTTATTATTAAC
Found at i:844246 original size:27 final size:27
Alignment explanation
Indices: 844157--844248 Score: 93
Period size: 26 Copynumber: 3.5 Consensus size: 27
844147 TTTATATATA
* *
844157 TTAACTTAAAAATATATTTA-TATTAAC
1 TTAATTTAAAAATAT-TTTATTATTAAG
*
844184 TT-A-TTAAACATATTTTATTATTAAG
1 TTAATTTAAAAATATTTTATTATTAAG
**
844209 TTAATTTAAAAATATTTTATT-TTATT
1 TTAATTTAAAAATATTTTATTATTAAG
*
844235 TTCATTTAAAAATA
1 TTAATTTAAAAATA
844249 CATAATTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
24 4 0.07
25 17 0.30
26 18 0.32
27 17 0.30
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (27 bp):
TTAATTTAAAAATATTTTATTATTAAG
Found at i:844410 original size:31 final size:31
Alignment explanation
Indices: 844372--844432 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
844362 CAAATTTTAC
844372 TTAAATAAAAACGAAAGTGATCATATCTTAA
1 TTAAATAAAAACGAAAGTGATCATATCTTAA
* **
844403 TTAAATAAAAATGAAAGTGATTGTATCTTA
1 TTAAATAAAAACGAAAGTGATCATATCTTA
844433 TGTTTTTTGA
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:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (31 bp):
TTAAATAAAAACGAAAGTGATCATATCTTAA
Done.