Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001701.1 Hibiscus syriacus cultivar Beakdansim tig00003403_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: 790467
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:165668 original size:12 final size:12
Alignment explanation
Indices: 165646--165687 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
165636 ACTTTGAATA
*
165646 ATATATATATAT
1 ATATAAATATAT
*
165658 ATATAAGTATAT
1 ATATAAATATAT
*
165670 ACATAAATATAT
1 ATATAAATATAT
165682 ATATAA
1 ATATAA
165688 TTAAACATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:166135 original size:2 final size:2
Alignment explanation
Indices: 166128--166203 Score: 127
Period size: 2 Copynumber: 37.5 Consensus size: 2
166118 TATGTTTAAT
166128 TA TA TA TA TA TA TA -A GTA 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
166170 TA TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA T
166204 TATTCAAAGT
Statistics
Matches: 71, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.01
2 67 0.94
3 3 0.04
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:166591 original size:14 final size:14
Alignment explanation
Indices: 166567--166606 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
166557 ATAGTTTATA
*
166567 TAAACCTTAAATCC
1 TAAACCATAAATCC
* *
166581 TAAATCATAAACCC
1 TAAACCATAAATCC
166595 TAAACCATAAAT
1 TAAACCATAAAT
166607 ATTAAACCCT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCATAAATCC
Found at i:166647 original size:14 final size:14
Alignment explanation
Indices: 166615--166653 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
166605 ATATTAAACC
*
166615 CTAAACCATAAATA
1 CTAAACCCTAAATA
*
166629 CTAAACCCTAAATT
1 CTAAACCCTAAATA
*
166643 TTAAACCCTAA
1 CTAAACCCTAA
166654 TGTATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (14 bp):
CTAAACCCTAAATA
Found at i:166647 original size:21 final size:21
Alignment explanation
Indices: 166567--166640 Score: 98
Period size: 21 Copynumber: 3.5 Consensus size: 21
166557 ATAGTTTATA
*
166567 TAAACCTTAAATCC-TAAAT-C
1 TAAACCCTAAA-CCATAAATAC
*
166587 ATAAACCCTAAACCATAAATAT
1 -TAAACCCTAAACCATAAATAC
166609 TAAACCCTAAACCATAAATAC
1 TAAACCCTAAACCATAAATAC
166630 TAAACCCTAAA
1 TAAACCCTAAA
166641 TTTTAAACCC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
20 2 0.04
21 46 0.96
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACCATAAATAC
Found at i:166680 original size:20 final size:20
Alignment explanation
Indices: 166655--166702 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
166645 AAACCCTAAT
*
166655 GTATATATAAACCATGTATA
1 GTATATATAAACCATATATA
*
166675 GTATATATAAACTATATATA
1 GTATATATAAACCATATATA
166695 -TATATATA
1 GTATATATA
166703 TATATACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (20 bp):
GTATATATAAACCATATATA
Found at i:166731 original size:2 final size:2
Alignment explanation
Indices: 166671--166722 Score: 59
Period size: 2 Copynumber: 25.0 Consensus size: 2
166661 ATAAACCATG
* **
166671 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA TA TA TA TA CC TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
166715 TA TA TA TA
1 TA TA TA TA
166723 AACTATATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 39 0.93
3 3 0.07
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:166867 original size:17 final size:15
Alignment explanation
Indices: 166838--166884 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
166828 CTATATATTT
166838 TATATAGTTTATACA
1 TATATAGTTTATACA
166853 TATATAGTTTAT--A
1 TATATAGTTTATACA
* *
166866 TACATAGTTTATATA
1 TATATAGTTTATACA
166881 TATA
1 TATA
166885 ATTCACATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 12 0.43
15 16 0.57
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:166940 original size:15 final size:14
Alignment explanation
Indices: 166838--166939 Score: 68
Period size: 13 Copynumber: 7.1 Consensus size: 14
166828 CTATATATTT
166838 TATATAGTTTATACA
1 TATATAGTTTATA-A
166853 TATATAGTTTAT-A
1 TATATAGTTTATAA
*
166866 TACATAGTTTAT-A
1 TATATAGTTTATAA
* *
166879 TATATAATTCACATAA
1 TATATAGTT--TATAA
* *
166895 -ACATAATTTAT-A
1 TATATAGTTTATAA
166907 TATATAGCTTATAATAA
1 TATATAG-TT-T-ATAA
166924 TTATATAGTTTATAA
1 -TATATAGTTTATAA
166939 T
1 T
166940 TTTATATACA
Statistics
Matches: 70, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
12 1 0.01
13 26 0.37
14 3 0.04
15 26 0.37
16 4 0.06
17 3 0.04
18 7 0.10
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (14 bp):
TATATAGTTTATAA
Found at i:167004 original size:41 final size:42
Alignment explanation
Indices: 166955--167063 Score: 120
Period size: 41 Copynumber: 2.6 Consensus size: 42
166945 ATACATTGTT
*
166955 TATATATATAGT-TCACATA-AATATAATTTATATAGTTTATA-A
1 TATATATATAGTAT-A-ATATAATATAATTTATATA-TATATATA
*
166997 TAT-TATATAGTATAATATAATATAGTTTATATATATATATA
1 TATATATATAGTATAATATAATATAATTTATATATATATATA
167038 TATATATATA-TATATATATATATATA
1 TATATATATAGTATA-ATATA-ATATA
167064 TTTTTTAAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
40 8 0.14
41 31 0.53
42 15 0.25
43 5 0.08
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.48
Consensus pattern (42 bp):
TATATATATAGTATAATATAATATAATTTATATATATATATA
Found at i:167005 original size:2 final size:2
Alignment explanation
Indices: 166992--167064 Score: 91
Period size: 2 Copynumber: 37.5 Consensus size: 2
166982 TTATATAGTT
*
166992 TA TA -A TA T- TA TA TA GTA TA -A TA TA -A TA TA GTT 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
167032 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
167065 TTTTTAAATG
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
1 4 0.06
2 56 0.89
3 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:168850 original size:20 final size:21
Alignment explanation
Indices: 168825--168876 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
168815 TTTTCCCAAT
*
168825 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
168845 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
168866 TCGCAATGCGA
1 TCGCAATGCGA
168877 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:168890 original size:20 final size:20
Alignment explanation
Indices: 168865--168918 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
168855 AATTGGGAAA
168865 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
168885 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
168905 ATCGCAATGCGATA
1 ATCGCAATGCGATA
168919 ATACAACGCG
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:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:169553 original size:19 final size:19
Alignment explanation
Indices: 169531--169671 Score: 86
Period size: 19 Copynumber: 7.8 Consensus size: 19
169521 CAAAATTGCA
*
169531 TTGCGATTTTTATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
169550 TTGCGATTTTCATTTTGCG
1 TTGCGATTTTCATTTCGCG
*
169569 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
* **
169583 TCGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
169602 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
** *
169616 TTGCGATAGTCATTTCCCCG
1 TTGCGATTTTCATTT-CGCG
* *
169636 TTGCGATTCTCATTATCTCG
1 TTGCGATTTTCATT-TCGCG
169656 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
169672 AACCAAAAGA
Statistics
Matches: 94, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
14 18 0.19
16 4 0.04
17 5 0.05
19 35 0.37
20 31 0.33
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:169589 original size:33 final size:33
Alignment explanation
Indices: 169559--169646 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
169549 GTTGCGATTT
*
169559 TCATTTTGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
169592 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
169625 TCATTTCCCCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
169647 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 37 0.73
34 14 0.27
ACGTcount: A:0.11, C:0.27, G:0.22, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:169648 original size:20 final size:20
Alignment explanation
Indices: 169614--169671 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
169604 GCGATTCTCT
**
169614 CGTTGCGATAGTCATTTCCC
1 CGTTGCGATTCTCATTTCCC
*
169634 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCC
*
169654 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
169672 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.26, G:0.17, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCC
Found at i:173249 original size:14 final size:14
Alignment explanation
Indices: 173230--173265 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
173220 ATTGTTTAAT
173230 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
173244 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
173258 TGATTTGT
1 TGATTTGT
173266 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:173432 original size:19 final size:19
Alignment explanation
Indices: 173410--173499 Score: 65
Period size: 19 Copynumber: 5.3 Consensus size: 19
173400 CGAAATTAAA
173410 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
173429 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
173444 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
173462 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
173476 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
173495 TTCGC
1 TTCGC
173500 ATTGTGATAG
Statistics
Matches: 51, Mismatches: 10, Indels: 20
0.63 0.12 0.25
Matches are distributed among these distances:
14 20 0.39
16 3 0.06
17 3 0.06
19 25 0.49
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:173456 original size:33 final size:32
Alignment explanation
Indices: 173408--173503 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 32
173398 CGCGAAATTA
173408 AATTCGCGTTGCGATTTTCATTTCGCATTGCG
1 AATTCGCGTTGCGATTTTCATTTCGCATTGCG
*
173440 -ATTCCCTCGTTGCGATTTTCATTTCGCATTGCG
1 AATT--CGCGTTGCGATTTTCATTTCGCATTGCG
173473 AAATTCGCGTTGCGATTTTCATTTCGCATTG
1 -AATTCGCGTTGCGATTTTCATTTCGCATTG
173504 TGATAGTAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
31 3 0.05
33 52 0.90
35 3 0.05
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (32 bp):
AATTCGCGTTGCGATTTTCATTTCGCATTGCG
Found at i:175816 original size:12 final size:12
Alignment explanation
Indices: 175799--175823 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
175789 TCTTCGGGGA
175799 CTTTTTCTTCTT
1 CTTTTTCTTCTT
175811 CTTTTTCTTCTT
1 CTTTTTCTTCTT
175823 C
1 C
175824 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:176032 original size:24 final size:24
Alignment explanation
Indices: 175998--176051 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
175988 CTGAAACATC
*
175998 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
176022 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
176046 ATCAAA
1 ATCAAA
176052 TTTTAAATAC
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:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:176811 original size:20 final size:20
Alignment explanation
Indices: 176781--176853 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
176771 GATTCTGTAT
*
176781 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
176801 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
176821 TATCGCGTTGCAAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
176841 TATCGTGTTGCGA
1 TATCGCGTTGCGA
176854 TTTTGTATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:178032 original size:15 final size:15
Alignment explanation
Indices: 178014--178084 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
178004 AAACATAAGG
178014 AAGAAGAAGAAAGAA
1 AAGAAGAAGAAAGAA
* *
178029 AAGAAGAATAAAGCA
1 AAGAAGAAGAAAGAA
*
178044 AGGAAGAAG--AGAA
1 AAGAAGAAGAAAGAA
178057 AAGATA-AAGAAAGAA
1 AAGA-AGAAGAAAGAA
178072 GAAGAA-AAGAAAG
1 -AAGAAGAAGAAAG
178085 TTAAAGTCGG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
13 9 0.20
14 1 0.02
15 32 0.70
16 4 0.09
ACGTcount: A:0.69, C:0.01, G:0.27, T:0.03
Consensus pattern (15 bp):
AAGAAGAAGAAAGAA
Found at i:178056 original size:23 final size:22
Alignment explanation
Indices: 178024--178082 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
178014 AAGAAGAAGA
* *
178024 AAGAAAAGAAGAATAAAGCAAGG
1 AAGAAGAGAAGAATAAAG-AAAG
*
178047 AAGAAGAGAAAAGATAAAGAAAG
1 AAGAAGAGAAGA-ATAAAGAAAG
*
178070 AAGAAGAAAAGAA
1 AAGAAGAGAAGAA
178083 AGTTAAAGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 1 0.03
23 23 0.77
24 6 0.20
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.03
Consensus pattern (22 bp):
AAGAAGAGAAGAATAAAGAAAG
Found at i:184930 original size:20 final size:20
Alignment explanation
Indices: 184905--184955 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
184895 TACTGTTATG
*
184905 GGTATCGATAGTAAGAGAAA
1 GGTATCGATACTAAGAGAAA
184925 GGTATCGATACTAAGAGAAA
1 GGTATCGATACTAAGAGAAA
*
184945 GGTCTCGATAC
1 GGTATCGATAC
184956 CATGGATTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (20 bp):
GGTATCGATACTAAGAGAAA
Found at i:185028 original size:22 final size:20
Alignment explanation
Indices: 185000--185050 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
184990 TGCAAGGGAA
185000 TATCGATACCATAGTATAGAAG
1 TATCGATACCAT-GT-TAGAAG
*
185022 TATCGATACCATGTTAGAGG
1 TATCGATACCATGTTAGAAG
*
185042 TACCGATAC
1 TATCGATAC
185051 TATTAAGCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 13 0.48
21 2 0.07
22 12 0.44
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (20 bp):
TATCGATACCATGTTAGAAG
Found at i:185798 original size:45 final size:45
Alignment explanation
Indices: 185522--185808 Score: 369
Period size: 45 Copynumber: 6.4 Consensus size: 45
185512 ATATGAATCA
* * ** *
185522 ACATAAAATGTGTCACTAATGAAAATGCATAACGATTTATAATCG
1 ACATAAAATGTGCCACTAATGAAAATGCATAACGGTGCATTATCG
* *
185567 ACATAAAATGTGCTACTAATGAAAATGCATAACGTTGCATTATCAG
1 ACATAAAATGTGCCACTAATGAAAATGCATAACGGTGCATTATC-G
*
185613 A-ATAAAATGTGCCACTAATGAAAATGCATAACGGTGCATTATAG
1 ACATAAAATGTGCCACTAATGAAAATGCATAACGGTGCATTATCG
* * * * *
185657 GCATAAAAGGTGCCACTAATGAAATTGCATAACGGTGCATGATAG
1 ACATAAAATGTGCCACTAATGAAAATGCATAACGGTGCATTATCG
* * *
185702 ACATAAAAGGTGCCACTAATGAAAATGCGTAACGGTGCATTAACG
1 ACATAAAATGTGCCACTAATGAAAATGCATAACGGTGCATTATCG
* * *
185747 ACATAAAAGGTGCCACTAATGACAATGCATAACGGTGCATTATTG
1 ACATAAAATGTGCCACTAATGAAAATGCATAACGGTGCATTATCG
**
185792 GGATAAAATGTGCCACT
1 ACATAAAATGTGCCACT
185809 CATGGTATTC
Statistics
Matches: 214, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
44 1 0.00
45 211 0.99
46 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
ACATAAAATGTGCCACTAATGAAAATGCATAACGGTGCATTATCG
Found at i:187196 original size:21 final size:21
Alignment explanation
Indices: 187170--187210 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
187160 AAATATATGC
187170 CCACCACTATGCTCTCCCATT
1 CCACCACTATGCTCTCCCATT
* *
187191 CCACCACTTTGCTCTTCCAT
1 CCACCACTATGCTCTCCCAT
187211 CCCTCCTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.46, G:0.05, T:0.32
Consensus pattern (21 bp):
CCACCACTATGCTCTCCCATT
Found at i:189269 original size:3 final size:3
Alignment explanation
Indices: 189263--189446 Score: 284
Period size: 3 Copynumber: 61.0 Consensus size: 3
189253 TGATTATTAT
*
189263 TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
189311 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
189359 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC ATTC TTC TT- TTC TTTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC -TTC
* *
189405 TTC TTC TTC AT- TTC TTC ATTC TTC TT- TTC TTTC TTA TTC TTC
1 TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC -TTC TTC TTC TTC
189447 ATTTCTTTCT
Statistics
Matches: 168, Mismatches: 6, Indels: 14
0.89 0.03 0.07
Matches are distributed among these distances:
2 5 0.03
3 151 0.90
4 12 0.07
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:189451 original size:18 final size:17
Alignment explanation
Indices: 189263--189481 Score: 237
Period size: 18 Copynumber: 12.2 Consensus size: 17
189253 TGATTATTAT
189263 TTCTTCTTCTTCTTCTTC
1 TTCTTCTT-TTCTTCTTC
*
189281 TTCTTTTTCTTCTTCTTC
1 TTCTTCTT-TTCTTCTTC
189299 TTCTTCTTCTTCTTCTTC
1 TTCTTCTT-TTCTTCTTC
189317 TTCTTCTTCTTCTTCTTC
1 TTCTTCTT-TTCTTCTTC
189335 TTCTTCTTCTTCTTCTTC
1 TTCTTCTT-TTCTTCTTC
189353 TTCTTCTTCTTCTTCTTC
1 TTCTTCTT-TTCTTCTTC
189371 TTCTTCTTCTTCTTCTTC
1 TTCTTCTT-TTCTTCTTC
189389 ATTCTTCTTTTCTTTCTTC
1 -TTCTTCTTTTC-TTCTTC
* *
189408 TTCTTCATTTCTTC--A
1 TTCTTCTTTTCTTCTTC
*
189423 TTCTTCTTTTCTTTCTTA
1 TTCTTCTTTTC-TTCTTC
*
189441 TTCTTCATTTCTTTCTTCC
1 TTCTTCTTTTC-TTCTT-C
*
189460 TTCTCCTATTT-TTCTTTC
1 TTCTTCT-TTTCTTC-TTC
189478 TTCT
1 TTCT
189482 CCCGGTGCCT
Statistics
Matches: 184, Mismatches: 9, Indels: 16
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.05
16 3 0.02
17 3 0.02
18 144 0.78
19 21 0.11
20 3 0.02
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (17 bp):
TTCTTCTTTTCTTCTTC
Found at i:189813 original size:40 final size:40
Alignment explanation
Indices: 189769--189954 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
189759 CGGCAATGGA
189769 GAGACGCATGAAGTGCAATGTGTCTTCGGGGGGAAAGGAG
1 GAGACGCATGAAGTGCAATGTGTCTTCGGGGGGAAAGGAG
* * *
189809 GAGACACAT-AGAGTGCAATGTGTC-TCTGAGGGAAAGGAG
1 GAGACGCATGA-AGTGCAATGTGTCTTCGGGGGGAAAGGAG
* * * ** * *
189848 GAGACGAATGGAGTACAATACGTCTCCGGGGGGAAAGGGG
1 GAGACGCATGAAGTGCAATGTGTCTTCGGGGGGAAAGGAG
*
189888 GAGACGCATGGAA-TGCAATGTGTCTTCGGGGGGAAAGGGG
1 GAGACGCAT-GAAGTGCAATGTGTCTTCGGGGGGAAAGGAG
*
189928 AGAGACGCATGGAA-TGCACTGTGTCTT
1 -GAGACGCAT-GAAGTGCAATGTGTCTT
189955 TCATGTGTAT
Statistics
Matches: 121, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 31 0.26
40 63 0.52
41 27 0.22
ACGTcount: A:0.28, C:0.14, G:0.40, T:0.18
Consensus pattern (40 bp):
GAGACGCATGAAGTGCAATGTGTCTTCGGGGGGAAAGGAG
Found at i:189878 original size:79 final size:81
Alignment explanation
Indices: 189767--189940 Score: 208
Period size: 79 Copynumber: 2.2 Consensus size: 81
189757 GGCGGCAATG
* * * ** * *
189767 GAGAGACGCATGAAGTGCAATGTGTCTTCGGGGGGAAAGGAGGAGACACATAGAGTGCAATGTGT
1 GAGAGACGAATGGAGTACAATACGTCTCCGGGGGGAAAGGAGGAGACACATAGAATGCAATGTGT
*
189832 C-TCTGAGGGAAAGGA
66 CTTCGGAGGGAAAGGA
* * *
189847 G-GAGACGAATGGAGTACAATACGTCTCCGGGGGGAAAGGGGGAGACGCATGGAATGCAATGTGT
1 GAGAGACGAATGGAGTACAATACGTCTCCGGGGGGAAAGGAGGAGACACATAGAATGCAATGTGT
* *
189911 CTTCGGGGGGAAAGGG
66 CTTCGGAGGGAAAGGA
*
189927 GAGAGACGCATGGA
1 GAGAGACGAATGGA
189941 ATGCACTGTG
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 54 0.69
80 13 0.17
81 11 0.14
ACGTcount: A:0.30, C:0.13, G:0.41, T:0.16
Consensus pattern (81 bp):
GAGAGACGAATGGAGTACAATACGTCTCCGGGGGGAAAGGAGGAGACACATAGAATGCAATGTGT
CTTCGGAGGGAAAGGA
Found at i:192824 original size:60 final size:60
Alignment explanation
Indices: 192744--192888 Score: 195
Period size: 60 Copynumber: 2.4 Consensus size: 60
192734 GTTTGGGGAT
** *
192744 CAATTTAAAATGAG-GATCATAGTTTAGGGATGGAATCAAAATA-TCTAAAAGTTTAAAGAC
1 CAATTTAAAATGAGAG-TCATAGTTTAGCAATGAAATCAAAATATTC-AAAAGTTTAAAGAC
* * * *
192804 TAATTTAGAATGAGAGTCATAGTTTAGCAATGAAATTAGAATATTCAAAAGTTTAAAGAC
1 CAATTTAAAATGAGAGTCATAGTTTAGCAATGAAATCAAAATATTCAAAAGTTTAAAGAC
192864 CAATTTAAAATGAGAGTCATAGTTT
1 CAATTTAAAATGAGAGTCATAGTTT
192889 GAGAAAATAT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
60 71 0.96
61 3 0.04
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (60 bp):
CAATTTAAAATGAGAGTCATAGTTTAGCAATGAAATCAAAATATTCAAAAGTTTAAAGAC
Found at i:194050 original size:16 final size:15
Alignment explanation
Indices: 194029--194067 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
194019 CATTTGCTTA
194029 TATTATTTATTATTAT
1 TATTATTTA-TATTAT
194045 TATTATGTTATATTAT
1 TATTAT-TTATATTAT
194061 TATTATT
1 TATTATT
194068 AAATAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.82
17 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TATTATTTATATTAT
Found at i:194546 original size:22 final size:22
Alignment explanation
Indices: 194513--194559 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
194503 CCTGCAAACA
*
194513 AAAACAACAGAGAAGGGAGACAG
1 AAAACAACAGAGAAGAGAGA-AG
194536 AAAA-AACAGAGAAGAGAGAAG
1 AAAACAACAGAGAAGAGAGAAG
194557 AAA
1 AAA
194560 GGAAGACAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.22
22 14 0.61
23 4 0.17
ACGTcount: A:0.64, C:0.09, G:0.28, T:0.00
Consensus pattern (22 bp):
AAAACAACAGAGAAGAGAGAAG
Found at i:200809 original size:17 final size:15
Alignment explanation
Indices: 200781--200844 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 15
200771 AAGAAGAAGA
200781 AGAATAAAGAAAAAAG
1 AGAA-AAAGAAAAAAG
*
200797 ATGAAAAATGAAAAATG
1 A-GAAAAA-GAAAAAAG
200814 AGAAAAAAGGAAAAAGAG
1 AG-AAAAA-GAAAAA-AG
*
200832 GGAAAAAGAAAAA
1 AGAAAAAGAAAAA
200845 TGGGAGAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 11 0.28
17 27 0.68
18 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (15 bp):
AGAAAAAGAAAAAAG
Found at i:200810 original size:16 final size:14
Alignment explanation
Indices: 200770--200844 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 14
200760 TCCAACAAAG
*
200770 AAAGAAGAAGAAGAA
1 AAAGAAAAAG-AGAA
200785 TAAAGAAAAAAGATGAA
1 -AAAG-AAAAAGA-GAA
200802 AAATGAAAAATGAGAAA
1 AAA-GAAAAA-GAG-AA
200819 AAAGGAAAAAGAGGGAA
1 AAA-GAAAAAGA--GAA
200836 AAAGAAAAA
1 AAAGAAAAA
200845 TGGGAGAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
16 22 0.44
17 27 0.54
18 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (14 bp):
AAAGAAAAAGAGAA
Found at i:200843 original size:33 final size:33
Alignment explanation
Indices: 200781--200846 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
200771 AAGAAGAAGA
* *
200781 AGAATAAAGAAAAAAGATGAAAAATGAAAAATG
1 AGAAAAAAGAAAAAAGAGGAAAAATGAAAAATG
*
200814 AGAAAAAAGGAAAAAGAGGGAAAAA-GAAAAATG
1 AGAAAAAAGAAAAAAGA-GGAAAAATGAAAAATG
200847 GGAGAAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 23 0.79
34 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.08
Consensus pattern (33 bp):
AGAAAAAAGAAAAAAGAGGAAAAATGAAAAATG
Found at i:200853 original size:17 final size:18
Alignment explanation
Indices: 200799--200853 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 18
200789 GAAAAAAGAT
* *
200799 GAAAAATGAAAAATGAGA
1 GAAAAAGGAAAAATGGGA
200817 -AAAAAGGAAAAA-GAGG-
1 GAAAAAGGAAAAATG-GGA
200833 GAAAAA-GAAAAATGGGA
1 GAAAAAGGAAAAATGGGA
200850 GAAA
1 GAAA
200854 TTGAATCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 9 0.29
17 22 0.71
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.05
Consensus pattern (18 bp):
GAAAAAGGAAAAATGGGA
Found at i:201302 original size:17 final size:16
Alignment explanation
Indices: 201275--201325 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
201265 CAACAAAGAT
201275 GAAAAAAGAAAAATGA
1 GAAAAAAGAAAAATGA
201291 GAAAAAAGGAAAAA-GA
1 GAAAAAA-GAAAAATGA
*
201307 GGGAAAAAGAAAAATGA
1 -GAAAAAAGAAAAATGA
201324 GA
1 GA
201326 GAAATTGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (16 bp):
GAAAAAAGAAAAATGA
Found at i:201329 original size:17 final size:17
Alignment explanation
Indices: 201277--201329 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
201267 ACAAAGATGA
201277 AAAAAGAAAAATGAGA-
1 AAAAAGAAAAATGAGAG
*
201293 AAAAAGGAAAAA-GAGGG
1 AAAAA-GAAAAATGAGAG
201310 AAAAAGAAAAATGAGAG
1 AAAAAGAAAAATGAGAG
201327 AAA
1 AAA
201330 TTGAATCAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 14 0.44
17 18 0.56
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.04
Consensus pattern (17 bp):
AAAAAGAAAAATGAGAG
Found at i:201685 original size:476 final size:476
Alignment explanation
Indices: 200793--201747 Score: 1829
Period size: 476 Copynumber: 2.0 Consensus size: 476
200783 AATAAAGAAA
* *
200793 AAAGATGAAAAATGAAAAATGAGAAAAAAGGAAAAAGAGGGAAAAAGAAAAATGGGAGAAATTGA
1 AAAGATGAAAAAAGAAAAATGAGAAAAAAGGAAAAAGAGGGAAAAAGAAAAATGAGAGAAATTGA
*
200858 ATCAAGATGGGTGACTCCAGGGAGCCTCAAGTTACAAGATGGATCAAGTACAATTAATTCAGATA
66 ATCAAGATGGGTGACTCCAGGGAGCCTCAAGTTACAAGATAGATCAAGTACAATTAATTCAGATA
* *
200923 TTCATATTCAACAAGAAGAGCAAGAAATGATGATGATATGAAAAAATGGAAATGAATCCAAAATT
131 TTCATATTCAACAAGAAGAGCAAGAAATGATGAAGATATGAAAAAATAGAAATGAATCCAAAATT
*
200988 TGGCAGTCTAGAGGGATCCAGATGATGGAAAAATCCCCAGCAAGGCAGATCCAAGTCAAGCAAAG
196 TGACAGTCTAGAGGGATCCAGATGATGGAAAAATCCCCAGCAAGGCAGATCCAAGTCAAGCAAAG
201053 TAAGATTGAAGGCATCTAAAGAGAATATCTTCAGATTTCATTCCGCCTCTCAAGATTGATTCTTA
261 TAAGATTGAAGGCATCTAAAGAGAATATCTTCAGATTTCATTCCGCCTCTCAAGATTGATTCTTA
201118 TTTGCAAAAATTGGTTTTTAAAATCTTTAATGCATGATATGAAAAATGATAAAGGGGGTTCAAGA
326 TTTGCAAAAATTGGTTTTTAAAATCTTTAATGCATGATATGAAAAATGATAAAGGGGGTTCAAGA
201183 TGTAAATTTTTAAATAACATCTTGAAACCAAAGGAGGATTCGAGTTGAAAACCTAAAAAGATGGT
391 TGTAAATTTTTAAATAACATCTTGAAACCAAAGGAGGATTCGAGTTGAAAACCTAAAAAGATGGT
201248 TCGAATATTGAATGGTCCAAC
456 TCGAATATTGAATGGTCCAAC
201269 AAAGATGAAAAAAGAAAAATGAGAAAAAAGGAAAAAGAGGGAAAAAGAAAAATGAGAGAAATTGA
1 AAAGATGAAAAAAGAAAAATGAGAAAAAAGGAAAAAGAGGGAAAAAGAAAAATGAGAGAAATTGA
201334 ATCAAGATGGGTGACTCCAGGGAGCCTCAAGTTACAAGATAGATCAAGTACAATTAATTCAGATA
66 ATCAAGATGGGTGACTCCAGGGAGCCTCAAGTTACAAGATAGATCAAGTACAATTAATTCAGATA
201399 TTCATATTCAACAAGAAGAGCAAGAAATGATGAAGATATGAAAAAATAGAAATGAATCCAAAATT
131 TTCATATTCAACAAGAAGAGCAAGAAATGATGAAGATATGAAAAAATAGAAATGAATCCAAAATT
*
201464 TTACAGTCTAGAGGGATCCAGATGATGGAAAAATCCCCAGCAAGGCAGATCCAAGTCAAGCAAAG
196 TGACAGTCTAGAGGGATCCAGATGATGGAAAAATCCCCAGCAAGGCAGATCCAAGTCAAGCAAAG
*
201529 TAAGATTGAAGGCATCTAAAGAGAATATCTTCAGATTTCATTCTGCCTCTCAAGATTGATTCTTA
261 TAAGATTGAAGGCATCTAAAGAGAATATCTTCAGATTTCATTCCGCCTCTCAAGATTGATTCTTA
201594 TTTGCAAAAATTGGTTTTTAAAATCTTTAATGCATGATATGAAAAATGATAAAGGGGGTTCAAGA
326 TTTGCAAAAATTGGTTTTTAAAATCTTTAATGCATGATATGAAAAATGATAAAGGGGGTTCAAGA
201659 TGTAAATTTTTAAATAACATCTTGAAACCAAAGGAGGATTCGAGTTGAAAACCTAAAAAGATGGT
391 TGTAAATTTTTAAATAACATCTTGAAACCAAAGGAGGATTCGAGTTGAAAACCTAAAAAGATGGT
*
201724 TCGAATATTGAATGGTGCAAC
456 TCGAATATTGAATGGTCCAAC
201745 AAA
1 AAA
201748 CGACATAAGA
Statistics
Matches: 470, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
476 470 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (476 bp):
AAAGATGAAAAAAGAAAAATGAGAAAAAAGGAAAAAGAGGGAAAAAGAAAAATGAGAGAAATTGA
ATCAAGATGGGTGACTCCAGGGAGCCTCAAGTTACAAGATAGATCAAGTACAATTAATTCAGATA
TTCATATTCAACAAGAAGAGCAAGAAATGATGAAGATATGAAAAAATAGAAATGAATCCAAAATT
TGACAGTCTAGAGGGATCCAGATGATGGAAAAATCCCCAGCAAGGCAGATCCAAGTCAAGCAAAG
TAAGATTGAAGGCATCTAAAGAGAATATCTTCAGATTTCATTCCGCCTCTCAAGATTGATTCTTA
TTTGCAAAAATTGGTTTTTAAAATCTTTAATGCATGATATGAAAAATGATAAAGGGGGTTCAAGA
TGTAAATTTTTAAATAACATCTTGAAACCAAAGGAGGATTCGAGTTGAAAACCTAAAAAGATGGT
TCGAATATTGAATGGTCCAAC
Found at i:205994 original size:22 final size:22
Alignment explanation
Indices: 205966--206020 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
205956 ATCTACATTC
205966 TTCAAAGATAATAAATTCTCTT
1 TTCAAAGATAATAAATTCTCTT
* * *
205988 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATAATAAATTCTCTT
*
206010 TTCGAAGATAA
1 TTCAAAGATAA
206021 AAGCTTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (22 bp):
TTCAAAGATAATAAATTCTCTT
Found at i:206955 original size:76 final size:76
Alignment explanation
Indices: 206698--206946 Score: 408
Period size: 76 Copynumber: 3.3 Consensus size: 76
206688 ATATTTCCCA
* *
206698 CATCTGTAAGTCCTACAGTGCATGATGATTCCAGAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
206763 AGCCTTAGGGT
66 AGCCTTAGGGT
*
206774 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
206839 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
206850 CATCTATAAGTTCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
206915 AACCTTCGAGT
66 AGCCTTAGGGT
* *
206926 CAGCTGTAAGCCCTACAGTGC
1 CATCTGTAAGTCCTACAGTGC
206947 GGAATGTTTT
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 160 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:207039 original size:20 final size:20
Alignment explanation
Indices: 206977--207040 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
206967 TTCCAGAAGA
206977 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
206997 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
207016 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
207036 GTTCA
1 GTTCA
207041 ACTTGCTGCT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:207331 original size:112 final size:113
Alignment explanation
Indices: 206964--207381 Score: 503
Period size: 112 Copynumber: 3.8 Consensus size: 113
206954 TTTTTTAAAA
206964 CATTTCCAGA-AGAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGA
1 CATTTCCAGAGAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* *
207027 GAAGAACTTGTTCAA-CTTGCTGCTTGAATTCATCATTCGATGGAACAT
66 GAAGAACTTGTTCAACCTTTC-GCTTGAATTCATCATTCGATGGATCAT
* * * * *
207075 CATTACCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGAGTTTATAAT-
1 CATTTCCAGAG-AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * * *
207138 -G-AGAACTTGTTCAACTTTTTGCTCGAATAACA-AATTCGGTGGATCAT
65 AGAAGAACTTGTTCAACCTTTCGCTTGAAT-TCATCATTCGATGGATCAT
* ** * *
207185 CATTGCCAGTTAGAGTTCATAATGAGAAGAACTTATCTGAGGAAGGAAGAAGAAGTTCATAATAA
1 CATTTCCAGAGAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * * *
207250 GAAGAATTTGTTCAACCTTTCGCTTTAATTCATCACT-GATGGATTAG
66 GAAGAACTTGTTCAACCTTTCGCTTGAATTCATCATTCGATGGATCAT
* * *
207297 CTTTTCCAGAGAAAGTTTATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CATTTCCAGAGAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGA
*
207362 GAAGAGCTTGTTCAACCTTT
66 GAAGAACTTGTTCAACCTTT
207382 GTTTGATGCT
Statistics
Matches: 256, Mismatches: 41, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
110 87 0.34
111 13 0.05
112 114 0.45
113 42 0.16
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (113 bp):
CATTTCCAGAGAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAACCTTTCGCTTGAATTCATCATTCGATGGATCAT
Found at i:207714 original size:3 final size:3
Alignment explanation
Indices: 207702--207756 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
207692 CATTTGCTTA
*
207702 TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TGT TA- TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
207746 TAT TAT TAT TA
1 TAT TAT TAT TA
207757 AATAATAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 3 0.06
3 41 0.87
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:209489 original size:24 final size:25
Alignment explanation
Indices: 209445--209506 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
209435 ATATATATAA
**
209445 ATTAATAAATTT-TCTTAAAATTAT-
1 ATTAATAAATTTAAATTAAAA-TATG
209469 ATTAATAAATTTAAATT-AAATATG
1 ATTAATAAATTTAAATTAAAATATG
209493 ATT-ATAAA-TTAAAT
1 ATTAATAAATTTAAAT
209507 ATATCTTCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 6 0.18
23 8 0.24
24 18 0.53
25 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
ATTAATAAATTTAAATTAAAATATG
Found at i:211178 original size:20 final size:22
Alignment explanation
Indices: 211138--211178 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
211128 TCTCGAACTA
211138 TATTTTAAACATTAGTCAATTG
1 TATTTTAAACATTAGTCAATTG
*
211160 TATTTTATA-ATTA-TCAATT
1 TATTTTAAACATTAGTCAATT
211179 TAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (22 bp):
TATTTTAAACATTAGTCAATTG
Found at i:211746 original size:18 final size:18
Alignment explanation
Indices: 211701--211746 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 18
211691 AATTTTTAAG
211701 ACATTGGATAATGGAAAT
1 ACATTGGATAATGGAAAT
*
211719 A-AAT---TAATGGAAAT
1 ACATTGGATAATGGAAAT
211733 ACATTGGATAATGG
1 ACATTGGATAATGG
211747 TTCTTTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 8
0.69 0.06 0.25
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
17 2 0.09
18 7 0.32
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (18 bp):
ACATTGGATAATGGAAAT
Found at i:214579 original size:17 final size:18
Alignment explanation
Indices: 214559--214593 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
214549 ATATGAAACT
*
214559 TTTCTAAATT-TCCTTAG
1 TTTCAAAATTATCCTTAG
214576 TTTCAAAATTATCCTTAG
1 TTTCAAAATTATCCTTAG
214594 CGCACTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.49
Consensus pattern (18 bp):
TTTCAAAATTATCCTTAG
Found at i:218035 original size:22 final size:24
Alignment explanation
Indices: 217998--218047 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
217988 TAAACCTAAT
*
217998 TAAAATAATAATATAAAACA-ACA
1 TAAAATAATAAAATAAAACACACA
*
218021 TAAAA-AATAAAATAAAATACACA
1 TAAAATAATAAAATAAAACACACA
218044 TAAA
1 TAAA
218048 TACAAGGACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (24 bp):
TAAAATAATAAAATAAAACACACA
Found at i:220218 original size:136 final size:136
Alignment explanation
Indices: 219712--220509 Score: 982
Period size: 135 Copynumber: 5.9 Consensus size: 136
219702 CCCCTGGAGT
* * * *
219712 GAGGCGTTGCTGATTCAAAATATCGTGAATCGAGCAA-AGGTTGAACAAGTTCTT-TCTTTACGA
1 GAGGCGTTGCTGATTCAAAATGTCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGA
* *
219775 ACTTCTTCTCCCTCTATAGGATGAATTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCTC
66 ACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATC-C
*
219840 -TCAAGA
130 ATCAAGC
* * * * * *
219846 GAGGTGTTGGTGATTCGAAATGTC-AGAATCGAGCAATAGGTCGAACAAGTTCTTTTCATTAGGA
1 GAGGCGTTGCTGATTCAAAATGTCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGA
* * * ** *
219910 ACTTCTTCTCCCTCTATCGGATGAGTTTTTCTCGTCATGAACTCTATATTGGAAATGTTAATCCC
66 ACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCA
*
219975 TCAAGT
131 TCAAGC
* ** * ** ** ** * * * *
219981 AAATCATTATTGATTTGAAATACCGTGAATTGAGTAATA-GTTGAATAAGTTCTTCTCATTATGA
1 GAGGCGTTGCTGATTCAAAATGTCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGA
* * *
220045 ACTTTTTCACCCTCTATCGGATGAGTTCTTCTCATTATGAACTCCCCATTGGAAATGTTAATCCA
66 ACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCA
220110 TCAAGC
131 TCAAGC
* * *
220116 GAGGCATTGCTGATTCAAAATGCCGTGAATCGAGCAATAGGTCGAACAAGTTATTCTCATTATGA
1 GAGGCGTTGCTGATTCAAAATGTCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGA
* * * *
220181 ACTTCTTATTCCTCTATCGGATGAGTTATTCTCATTATGAACTC-CCATTGGAAATGTTAATCCC
66 ACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCA
*
220245 TCAATC
131 TCAAGC
* * *
220251 GAGGCGTTGTTGATTCAAAATGTCGTGAATCGAGTAACAGGTCGAACAAGTTCTTCTCATTATGA
1 GAGGCGTTGCTGATTCAAAATGTCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGA
* * * * * *
220316 AATTTTTCTCCCTTTATCGGATGATTTCTTCTCATTATGAACTCTCCATTAGAAATGTTAACCCA
66 ACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCA
220381 TCAAGC
131 TCAAGC
* * * * *
220387 GAGGTGTTGCTGATTCGAAATGTCGTGAATCGAGCAATAGATTGAACAAGTTATTCTCATTA-GA
1 GAGGCGTTGCTGATTCAAAATGTCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATG-
*
220451 AACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATAAACTCTCC-TTGGAAATGTT
65 AACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTT
220510 GATTGGTTTA
Statistics
Matches: 563, Mismatches: 94, Indels: 13
0.84 0.14 0.02
Matches are distributed among these distances:
133 11 0.02
134 37 0.07
135 324 0.58
136 191 0.34
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (136 bp):
GAGGCGTTGCTGATTCAAAATGTCGTGAATCGAGCAATAGGTCGAACAAGTTCTTCTCATTATGA
ACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCA
TCAAGC
Found at i:220311 original size:271 final size:270
Alignment explanation
Indices: 219709--220509 Score: 1076
Period size: 271 Copynumber: 3.0 Consensus size: 270
219699 CGACCCCTGG
* * * *
219709 AGTGAGGCGTTGCTGATTCAAAATATCGTGAATCGAGCAAAGGTTGAACAAGTTCTT-TCTTTAC
1 AGTGAGGCGTTGTTGATTCAAAATATCGTGAATCGAGTAAAGGTTGAACAAGTTCTTCTCATTAT
* *
219773 GAACTTCTTCTCCCTCTATAGGATGAATTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATC
66 GAACTTTTTCTCCCTCTATCGGATGAATTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATC
* * * * *
219838 TC-TCAAGAGAGGTGTTGGTGATTCGAAATGTC-AGAATCGAGCAATAGGTCGAACAAGTTCTTT
131 -CATCAAGCGAGGTGTTGCTGATTCGAAATGTCGTGAATCGAGCAATAGGTCGAACAAGTTATTC
* * * **
219901 TCATTAGGAACTTCTTCTCCCTCTATCGGATGAGTTTTTCTCGTCATGAACTCTATATTGGAAAT
195 TCATTA-GAACTTCTTCTCCCTCTATCGGATGAGTTATTCTCATTATGAACTCTCCATTGGAAAT
219966 GTTAATCCCTCA
259 GTTAATCCCTCA
* ** * * ** * * *
219978 AGTAAATCATTATTGATTTGAAATACCGTGAATTGAGTAATA-GTTGAATAAGTTCTTCTCATTA
1 AGTGAGGCGTTGTTGATTCAAAATATCGTGAATCGAGTAA-AGGTTGAACAAGTTCTTCTCATTA
* * *
220042 TGAACTTTTTCACCCTCTATCGGATGAGTTCTTCTCATTATGAACTCCCCATTGGAAATGTTAAT
65 TGAACTTTTTCTCCCTCTATCGGATGAATTCTTCTCATTATGAACTCTCCATTGGAAATGTTAAT
** * *
220107 CCATCAAGCGAGGCATTGCTGATTCAAAATGCCGTGAATCGAGCAATAGGTCGAACAAGTTATTC
130 CCATCAAGCGAGGTGTTGCTGATTCGAAATGTCGTGAATCGAGCAATAGGTCGAACAAGTTATTC
* *
220172 TCATTATGAACTTCTTATTCCTCTATCGGATGAGTTATTCTCATTATGAACTC-CCATTGGAAAT
195 TCATTA-GAACTTCTTCTCCCTCTATCGGATGAGTTATTCTCATTATGAACTCTCCATTGGAAAT
220236 GTTAATCCCTCA
259 GTTAATCCCTCA
* *
220248 A-TCGAGGCGTTGTTGATTCAAAATGTCGTGAATCGAGTAACAGGTCGAACAAGTTCTTCTCATT
1 AGT-GAGGCGTTGTTGATTCAAAATATCGTGAATCGAGTAA-AGGTTGAACAAGTTCTTCTCATT
* * * *
220312 ATGAAATTTTTCTCCCTTTATCGGATGATTTCTTCTCATTATGAACTCTCCATTAGAAATGTTAA
64 ATGAACTTTTTCTCCCTCTATCGGATGAATTCTTCTCATTATGAACTCTCCATTGGAAATGTTAA
* * *
220377 CCCATCAAGCGAGGTGTTGCTGATTCGAAATGTCGTGAATCGAGCAATAGATTGAACAAGTTATT
129 TCCATCAAGCGAGGTGTTGCTGATTCGAAATGTCGTGAATCGAGCAATAGGTCGAACAAGTTATT
* *
220442 CTCATTAGAAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATAAACTCTCC-TTGGAAA
194 CTCATTAG-AACTTCTTCTCCCTCTATCGGATGAGTTATTCTCATTATGAACTCTCCATTGGAAA
220506 TGTT
258 TGTT
220510 GATTGGTTTA
Statistics
Matches: 458, Mismatches: 66, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
269 45 0.10
270 141 0.31
271 270 0.59
272 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (270 bp):
AGTGAGGCGTTGTTGATTCAAAATATCGTGAATCGAGTAAAGGTTGAACAAGTTCTTCTCATTAT
GAACTTTTTCTCCCTCTATCGGATGAATTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATC
CATCAAGCGAGGTGTTGCTGATTCGAAATGTCGTGAATCGAGCAATAGGTCGAACAAGTTATTCT
CATTAGAACTTCTTCTCCCTCTATCGGATGAGTTATTCTCATTATGAACTCTCCATTGGAAATGT
TAATCCCTCA
Found at i:236514 original size:41 final size:41
Alignment explanation
Indices: 236468--236823 Score: 232
Period size: 41 Copynumber: 8.7 Consensus size: 41
236458 TTTTTTGAAT
* *
236468 AAACGCCGCAAAAGACTCTTACTTTAGTGGTATTTGTATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGTATTTGTATAC
* ** * **
236509 AAACGCCGCTAAAGATTATTACTTTAGAGGCGTTTGTATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGTATTTGTATAC
* * * * ** *
236550 AAATGCCACTAAAGACTCGTACTATAGCGGCGTTTTTATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGTATTTGTATAC
* * * *
236591 AAACGCCGATATAA-ACTCGTACTTTAGTGGCATTTTTTTATAT
1 AAACGCCGCTA-AAGACTCGTACTTTAGTGG--TATTTGTATAC
* * * **
236634 AAACGCCGCTAAAGACTCATATTTTCGTGGTATTT-TACGC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGTATTTGTATAC
* * * * * * *
236674 AAACGACGTTATATACTCGAACTTTAGTGGCATTTTTATA-
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGTATTTGTATAC
* * * * * *
236714 AAAAGACCGTTATAGACTCGTATTTTAGTGGCATTTTTATAC
1 AAACG-CCGCTAAAGACTCGTACTTTAGTGGTATTTGTATAC
* * * * * ** *
236756 AAACGTCACTATAGATTGGTACTTTAGTGACATTTTTATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGTATTTGTATAC
* *
236797 AAACACCGCTAAAGACTCGAACTTTAG
1 AAACGCCGCTAAAGACTCGTACTTTAG
236824 GAAATGCATG
Statistics
Matches: 247, Mismatches: 61, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
40 32 0.13
41 176 0.71
42 8 0.03
43 31 0.13
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (41 bp):
AAACGCCGCTAAAGACTCGTACTTTAGTGGTATTTGTATAC
Found at i:236784 original size:82 final size:82
Alignment explanation
Indices: 236472--236823 Score: 280
Period size: 82 Copynumber: 4.3 Consensus size: 82
236462 TTGAATAAAC
* * * * * * * ** *
236472 GCCGCAAAAGACTCTTACTTTAGTGGTATTTGTATACAAACGCCGCTAAAGATTATTACTTTAGA
1 GCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCACTATAGACTCGTACTTTAGT
* * *
236537 GGCGTTTGTATACAAAT
66 GGCATTTTTATACAAAA
* * * * *
236554 GCCACTAAAGACTCGTACTATAGCGGCGTTTTTATACAAACGCCGA-TATAAACTCGTACTTTAG
1 GCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCC-ACTATAGACTCGTACTTTAG
* *
236618 TGGCATTTTTTTATATAAAC
65 TGGCA--TTTTTATACAAAA
* * * * ** * ** * *
236638 GCCGCTAAAGACTCATATTTTCGTGGTA-TTTTACGCAAACGACGTTATATACTCGAACTTTAGT
1 GCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCACTATAGACTCGTACTTTAGT
236702 GGCATTTTTATA-AAAA
66 GGCATTTTTATACAAAA
* * * * * *
236718 GACCGTTATAGACTCGTATTTTAGTGGCATTTTTATACAAACGTCACTATAGATTGGTACTTTAG
1 G-CCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCACTATAGACTCGTACTTTAG
*
236783 TGACATTTTTATACAAACA
65 TGGCATTTTTATACAAA-A
*
236802 -CCGCTAAAGACTCGAACTTTAG
1 GCCGCTAAAGACTCGTACTTTAG
236824 GAAATGCATG
Statistics
Matches: 209, Mismatches: 53, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
80 4 0.02
81 30 0.14
82 108 0.52
83 36 0.17
84 31 0.15
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (82 bp):
GCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCACTATAGACTCGTACTTTAGT
GGCATTTTTATACAAAA
Found at i:243323 original size:14 final size:14
Alignment explanation
Indices: 243300--243337 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
243290 TCTGTCTATA
243300 TGCAGAGATTT-TT
1 TGCAGAGATTTATT
*
243313 TCGCAGGGATTTATT
1 T-GCAGAGATTTATT
243328 TGCAGAGATT
1 TGCAGAGATT
243338 ACTTCCCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 1 0.05
14 17 0.81
15 3 0.14
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (14 bp):
TGCAGAGATTTATT
Found at i:244367 original size:3 final size:3
Alignment explanation
Indices: 244359--244397 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
244349 TGGGATAAAA
244359 TAT TAT TAT TATT TAT TAT TAT TAT TA- TAT TAT T-T TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
244398 TACATTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 26 0.79
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:244377 original size:13 final size:13
Alignment explanation
Indices: 244359--244399 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
244349 TGGGATAAAA
244359 TATTATTATTATT
1 TATTATTATTATT
244372 TATTATTATTATT
1 TATTATTATTATT
244385 ATATTATT-TTATT
1 -TATTATTATTATT
244398 TA
1 TA
244400 CATTTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 2 0.07
13 18 0.67
14 7 0.26
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:244380 original size:16 final size:17
Alignment explanation
Indices: 244359--244397 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
244349 TGGGATAAAA
244359 TATTATTATTAT-TTAT
1 TATTATTATTATATTAT
244375 TATTATTATTATATTAT
1 TATTATTATTATATTAT
244392 T-TTATT
1 TATTATT
244398 TACATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTATTATATTAT
Found at i:245681 original size:29 final size:30
Alignment explanation
Indices: 245639--245696 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
245629 TTGAGTTTAT
245639 GTTTTGCTATTTAGGTCCTCTAAGTTTCTA
1 GTTTTGCTATTTAGGTCCTCTAAGTTTCTA
* * *
245669 GTTTTTCTA-TTAGGTCTTTTAAGTTTCT
1 GTTTTGCTATTTAGGTCCTCTAAGTTTCT
245697 GTAATTACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.55
Consensus pattern (30 bp):
GTTTTGCTATTTAGGTCCTCTAAGTTTCTA
Found at i:245707 original size:29 final size:29
Alignment explanation
Indices: 245649--245708 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
245639 GTTTTGCTAT
* *
245649 TTAGGTCCTCTAAGTTTCTAGTTTTTCTA
1 TTAGGTCCTCTAAGTTTCTAGTATTACTA
* *
245678 TTAGGTCTTTTAAGTTTCT-GTAATTACTA
1 TTAGGTCCTCTAAGTTTCTAGT-ATTACTA
245707 TT
1 TT
245709 GGGACTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (29 bp):
TTAGGTCCTCTAAGTTTCTAGTATTACTA
Found at i:249810 original size:165 final size:166
Alignment explanation
Indices: 249538--249868 Score: 637
Period size: 165 Copynumber: 2.0 Consensus size: 166
249528 TGTTAGTACT
*
249538 CTTTCACCTTGCACGGCACTGGGAAATTTGGAACTTGGCATGGATATTGCCGTGACGGAGGAACT
1 CTTTCACCTTGCACGGCACTGAGAAATTTGGAACTTGGCATGGATATTGCCGTGACGGAGGAACT
*
249603 TGAACTGACTACTACAGTGAGCTATCTTTGTTAGACCTGTATTGTAAGTGTGGTTGTCTAGATAT
66 TGAACTGACTACTACAGTGAGCAATCTTTGTTAGACCTGTATTGTAAGTGTGGTTGTCTAGATAT
249668 GGTCAGGAAACTTA-TGACTAGATGCCGAGTAAAAA
131 GGTCAGGAAACTTATTGACTAGATGCCGAGTAAAAA
249703 CTTTCACCTTGCACGGCACTGAGAAATTTGGAACTTGGCATGGATATTGCCGTGACGGAGGAACT
1 CTTTCACCTTGCACGGCACTGAGAAATTTGGAACTTGGCATGGATATTGCCGTGACGGAGGAACT
249768 TGAACTGACTACTACAGTGAGCAATCTTTGTTAGACCTGTATTGTAAGTGTGGTTGTCTAGATAT
66 TGAACTGACTACTACAGTGAGCAATCTTTGTTAGACCTGTATTGTAAGTGTGGTTGTCTAGATAT
249833 GGTCAGGAAACTTATTGACTAGATGCCGAGTAAAAA
131 GGTCAGGAAACTTATTGACTAGATGCCGAGTAAAAA
249869 TGTTAATTGT
Statistics
Matches: 163, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
165 142 0.87
166 21 0.13
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (166 bp):
CTTTCACCTTGCACGGCACTGAGAAATTTGGAACTTGGCATGGATATTGCCGTGACGGAGGAACT
TGAACTGACTACTACAGTGAGCAATCTTTGTTAGACCTGTATTGTAAGTGTGGTTGTCTAGATAT
GGTCAGGAAACTTATTGACTAGATGCCGAGTAAAAA
Found at i:261996 original size:16 final size:16
Alignment explanation
Indices: 261975--262005 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
261965 AGAAAAAAAA
261975 ATACATATACATATAC
1 ATACATATACATATAC
*
261991 ATACATATATATATA
1 ATACATATACATATA
262006 TATATACTAG
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:0.13, G:0.00, T:0.35
Consensus pattern (16 bp):
ATACATATACATATAC
Found at i:264102 original size:27 final size:27
Alignment explanation
Indices: 264064--264127 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
264054 TAACAAAATA
*
264064 TTAATAACCCCAAAATAAATGTTCAGG
1 TTAATAAACCCAAAATAAATGTTCAGG
264091 TTAATAAACCCAAAATAAATGTTCAGG
1 TTAATAAACCCAAAATAAATGTTCAGG
264118 TTAATAAACC
1 TTAATAAACC
264128 ATATAAAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.27
Consensus pattern (27 bp):
TTAATAAACCCAAAATAAATGTTCAGG
Found at i:265750 original size:118 final size:118
Alignment explanation
Indices: 265542--265778 Score: 465
Period size: 118 Copynumber: 2.0 Consensus size: 118
265532 CAGAAGACAT
265542 ATACTCAAGATGCAGTAGAAGAGAGTTGAGAATTGTACATTATGAAACTAATAGGATTAATTAAA
1 ATACTCAAGATGCAGTAGAAGAGAGTTGAGAATTGTACATTATGAAACTAATAGGATTAATTAAA
265607 AATCTAAACATTTTCCATGGAGAATCTATATGAGTACAAATAAGATGGCAGAG
66 AATCTAAACATTTTCCATGGAGAATCTATATGAGTACAAATAAGATGGCAGAG
*
265660 ATACTCAAGATGCAGTAGAAGAGAGTTGAGAATTGTACATTCTGAAACTAATAGGATTAATTAAA
1 ATACTCAAGATGCAGTAGAAGAGAGTTGAGAATTGTACATTATGAAACTAATAGGATTAATTAAA
265725 AATCTAAACATTTTCCATGGAGAATCTATATGAGTACAAATAAGATGGCAGAG
66 AATCTAAACATTTTCCATGGAGAATCTATATGAGTACAAATAAGATGGCAGAG
265778 A
1 A
265779 GTCTAAAGGT
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (118 bp):
ATACTCAAGATGCAGTAGAAGAGAGTTGAGAATTGTACATTATGAAACTAATAGGATTAATTAAA
AATCTAAACATTTTCCATGGAGAATCTATATGAGTACAAATAAGATGGCAGAG
Found at i:266485 original size:15 final size:15
Alignment explanation
Indices: 266465--266493 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
266455 GTCTGACTTG
266465 TTGTTGTTATATCAC
1 TTGTTGTTATATCAC
266480 TTGTTGTTATATCA
1 TTGTTGTTATATCA
266494 ATTAAAAAAA
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:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (15 bp):
TTGTTGTTATATCAC
Found at i:269436 original size:24 final size:20
Alignment explanation
Indices: 269390--269465 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
269380 ATGCAATTAG
* *
269390 TGCATCGATGCATAGT-GAG
1 TGCATCGATGCACAGTAGAA
*
269409 TGCATCGATGCACATGTTAAGGGA
1 TGCATCGATGCACA-G-T-A-GAA
*
269433 TGCATCGATACACAGTAGAA
1 TGCATCGATGCACAGTAGAA
269453 TGCATCGATGCAC
1 TGCATCGATGCAC
269466 TTCAAGGGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 13 0.28
20 15 0.33
21 2 0.04
22 1 0.02
23 1 0.02
24 14 0.30
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (20 bp):
TGCATCGATGCACAGTAGAA
Found at i:271042 original size:18 final size:18
Alignment explanation
Indices: 270971--271043 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
270961 AGGGATTAAC
* *
270971 AGTGGTCCTTCGGGATAT
1 AGTGGTCCTTCAGGACAT
* *
270989 AGTGGTTCTTCAGAACAAT
1 AGTGGTCCTTCAGGAC-AT
271008 CAGTGGTCCTTCAGGACAT
1 -AGTGGTCCTTCAGGACAT
*
271027 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCAGGACA
271044 AATATTCAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
18 28 0.61
19 4 0.09
20 14 0.30
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCAGGACAT
Found at i:274089 original size:13 final size:13
Alignment explanation
Indices: 274071--274095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
274061 TTCTCTAGAA
274071 CTTCTTCTTCCTT
1 CTTCTTCTTCCTT
274084 CTTCTTCTTCCT
1 CTTCTTCTTCCT
274096 CTCCTCCCGT
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:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (13 bp):
CTTCTTCTTCCTT
Found at i:278021 original size:84 final size:84
Alignment explanation
Indices: 277895--278218 Score: 334
Period size: 84 Copynumber: 3.9 Consensus size: 84
277885 GAAGTTAACA
* * * * *
277895 ACTACACTCAGCTTTGAGGGCACACCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTA
1 ACTACACTCAGCTCT-AAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCTGCTA
* *
277960 ACCAAAGGCCTTTGAGTTCG
65 ACCAAAGACCTTCGAGTTCG
* * ** *
277980 ACTACGCTCAGCTCTAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGCTATCTG----
1 ACTACACTCAGCTCTAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCTGCTAA
*
278041 CCAAAGACCCTCGAGTTCG
66 CCAAAGACCTTCGAGTTCG
* * * * * * * *
278060 ATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCT-TTT
1 ACTACACTCAGC-TCTAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCTGCTA
*
278124 ACCAAATACCTTCGAGTTCG
65 ACCAAAGACCTTCGAGTTCG
* * * * * *
278144 ACTACGCTCAGCTCCAAGGCACATAATTTACAATACAACTTAAGTCGAGAAGGGTTATCTGCCAA
1 ACTACACTCAGCTCTAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCTGCTAA
*
278209 CCGAAGACCT
66 CCAAAGACCT
278219 CCAAGTTTGA
Statistics
Matches: 196, Mismatches: 37, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
80 26 0.13
81 39 0.20
83 40 0.20
84 78 0.40
85 13 0.07
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (84 bp):
ACTACACTCAGCTCTAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCTGCTAA
CCAAAGACCTTCGAGTTCG
Found at i:278190 original size:164 final size:165
Alignment explanation
Indices: 277897--278208 Score: 455
Period size: 164 Copynumber: 1.9 Consensus size: 165
277887 AGTTAACAAC
* * * * *
277897 TACACTCAGCTTTGAGGGCACACCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAAC
1 TACACTCAGCTTCGAGGGCACACCATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGCTAAC
* * * * * * *
277962 CAAAGGCCTTTGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGTATAACTTAAGTCG
66 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATAATTTACAATACAACTTAAGTCG
278027 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGAT
131 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGAT
* * * *
278062 TACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCT-TTTAC
1 TACACTCAGCTTCGAGGGCACACCATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGCTAAC
*
278126 CAAATACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATAATTTACAATACAACTTAAGTCG
66 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATAATTTACAATACAACTTAAGTCG
*
278191 AGAAGGGTTATCTGCCAA
131 AGAAGGGCTATCTGCCAA
278209 CCGAAGACCT
Statistics
Matches: 129, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
164 77 0.60
165 52 0.40
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (165 bp):
TACACTCAGCTTCGAGGGCACACCATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGCTAAC
CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATAATTTACAATACAACTTAAGTCG
AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGAT
Found at i:280722 original size:31 final size:31
Alignment explanation
Indices: 280635--280728 Score: 134
Period size: 31 Copynumber: 3.0 Consensus size: 31
280625 AATACAGTCT
** *
280635 CCCAACATTTAGTCTGTTTGCAATATGATAC
1 CCCAACATTTAGTCCATTTGCAATATGATCC
*
280666 CCCAACATTTAGTCCATTTACAATATGATCC
1 CCCAACATTTAGTCCATTTGCAATATGATCC
* *
280697 CCCAACATTTAGTCCATTTGTAATATGGTCC
1 CCCAACATTTAGTCCATTTGCAATATGATCC
280728 C
1 C
280729 TAATGTAACT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.34
Consensus pattern (31 bp):
CCCAACATTTAGTCCATTTGCAATATGATCC
Found at i:282962 original size:38 final size:38
Alignment explanation
Indices: 282911--282986 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
282901 TCGACGCTTC
282911 ACTTCTCTTCTAAATTCCGTAAATGCTTCACCAATGGT
1 ACTTCTCTTCTAAATTCCGTAAATGCTTCACCAATGGT
*
282949 ACTTCTCTTCTAAATTTCGTAAATGCTTCACCAATGGT
1 ACTTCTCTTCTAAATTCCGTAAATGCTTCACCAATGGT
282987 TGGCAGGGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (38 bp):
ACTTCTCTTCTAAATTCCGTAAATGCTTCACCAATGGT
Found at i:283099 original size:16 final size:16
Alignment explanation
Indices: 283078--283113 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
283068 TCATTATTGA
283078 GGTGAGTTATAAACTT
1 GGTGAGTTATAAACTT
283094 GGTGAGTTATAAACTT
1 GGTGAGTTATAAACTT
283110 GGTG
1 GGTG
283114 TGTTCCATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.36
Consensus pattern (16 bp):
GGTGAGTTATAAACTT
Found at i:287236 original size:45 final size:45
Alignment explanation
Indices: 287126--287247 Score: 142
Period size: 45 Copynumber: 2.6 Consensus size: 45
287116 CATTGTATGT
*
287126 ATCGATGCACATATCATGCATCGATGCACTTAGGTTTCTATGAAAAC
1 ATCGATGCAC-T-TCATGCATCGATGCACTCAGGTTTCTATGAAAAC
* *
287173 ATCGAATGCATTTGATGCATCGATGCACTCAGGCTATT-T-TG-AAAC
1 ATCG-ATGCACTTCATGCATCGATGCACTCAGG-T-TTCTATGAAAAC
287218 ATCAGATGCACTTCATGCATCGATGCACTC
1 ATC-GATGCACTTCATGCATCGATGCACTC
287248 TTAGTGCACG
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
45 30 0.45
46 22 0.33
47 7 0.11
48 7 0.11
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (45 bp):
ATCGATGCACTTCATGCATCGATGCACTCAGGTTTCTATGAAAAC
Found at i:287244 original size:17 final size:19
Alignment explanation
Indices: 287217--287264 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
287207 TATTTTGAAA
287217 CATCAGATGCACT-TCA-TG
1 CATC-GATGCACTCTCAGTG
*
287235 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
287254 CA-CGATGCACT
1 CATCGATGCACT
287265 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 8 0.30
18 15 0.56
19 4 0.15
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:288491 original size:31 final size:29
Alignment explanation
Indices: 288443--288501 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
288433 ATTTCAAAAT
288443 TATAATTATGAAAAAAATATATTAATTTATA
1 TATAATTATGAAAAAAATAT-TT-ATTTATA
*
288474 TATATTTAT-AAATAAAATATTTATTTAT
1 TATAATTATGAAA-AAAATATTTATTTAT
288502 TTAGAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.23
30 5 0.19
31 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATGAAAAAAATATTTATTTATA
Found at i:290187 original size:3 final size:3
Alignment explanation
Indices: 290181--290236 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
290171 ATTATTTATT
* *
290181 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
290225 TAA TAA TAA TAA
1 TAA TAA TAA TAA
290237 ATAAAAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 8 0.17
3 39 0.83
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:290203 original size:19 final size:19
Alignment explanation
Indices: 290181--290233 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
290171 ATTATTTATT
* *
290181 TAATAATAATAATATAATA
1 TAATAATAATAATAAAACA
*
290200 TAATAATAATATTAAAACA
1 TAATAATAATAATAAAACA
*
290219 AAATAATAATAATAA
1 TAATAATAATAATAA
290234 TAAATAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATAATAATAATAAAACA
Found at i:290206 original size:22 final size:21
Alignment explanation
Indices: 290159--290240 Score: 83
Period size: 22 Copynumber: 3.8 Consensus size: 21
290149 ATTGGGCCTG
* * *
290159 TAATAATAATAAATTATTTATT
1 TAATAATAATAAATAATATA-A
290181 TAATAATAATAATATAATATAA
1 TAATAATAATAA-ATAATATAA
* * *
290203 TAATAATATTAAAACAAAATAA
1 TAATAATAAT-AAATAATATAA
290225 TAATAATAATAAATAA
1 TAATAATAATAAATAA
290241 AAAAATGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 5 0.10
22 37 0.74
23 8 0.16
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATAATAATAAATAATATAA
Found at i:290240 original size:16 final size:15
Alignment explanation
Indices: 290181--290236 Score: 66
Period size: 14 Copynumber: 4.0 Consensus size: 15
290171 ATTATTTATT
290181 TAATAATAATAAT-A
1 TAATAATAATAATAA
290195 TAAT-ATAATAATAA
1 TAATAATAATAATAA
* *
290209 TATTAA-AACAA-AA
1 TAATAATAATAATAA
290222 TAATAATAATAATAA
1 TAATAATAATAATAA
290237 ATAAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
13 15 0.44
14 16 0.47
15 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
TAATAATAATAATAA
Found at i:290736 original size:113 final size:113
Alignment explanation
Indices: 290499--291151 Score: 945
Period size: 113 Copynumber: 5.8 Consensus size: 113
290489 TTCAGATGAG
* * **
290499 TTCTTCTCATTATGAACTTCCTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACT-TCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
290563 GCAATGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
* *
290611 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * ** * *
290676 GAAATGCTGATCGATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
66 GAAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
*
290724 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
290789 GAAAAACTGATCCATCGAA-TGATGAATTCAAACAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATC-AAGTGATGAATTCAAACAAAAGGTTGAACAAA
* *
290837 TTCTTCTCATTATGATCTTCTTCTTCCTTCTTCGGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * ** * *
290902 TAAAAGGTGATCCATCAAGTGAT-AGATTTGAGCAAAAGGTTGAACAAG
66 GAAAAGCTGATCCATCAAGTGATGA-ATTCAAACAAAAGGTTGAACAAA
*
290950 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
291015 GAAAAACTGATCCATCGAA-TGATGAATTCAAACAAAAGGTTGAAAAAA
66 GAAAAGCTGATCCATC-AAGTGATGAATTCAAACAAAAGGTTGAACAAA
* * *
291063 TTCTTCTCGTTATGAACTTCTTCTTCCTTCTTCAGATGGGTTCTTCTCATTATGAACTTTATCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
291128 GAAAGGCTGATCCATCGAGTGATG
66 GAAAAGCTGATCCATCAAGTGATG
291152 GATTTGAATC
Statistics
Matches: 481, Mismatches: 53, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
112 59 0.12
113 417 0.87
114 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
Found at i:290833 original size:226 final size:226
Alignment explanation
Indices: 290500--291158 Score: 1097
Period size: 226 Copynumber: 2.9 Consensus size: 226
290490 TCAGATGAGT
* * **
290500 TCTTCTCATTATGAACTTCCTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACT-TCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* ** * *
290564 CAATGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTTATTATGAACT
66 AAAAACTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
* *
290629 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGAAATGCTGATCGATCAA
131 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGAAAAGCTGATCCATCAA
290694 GTGATGGATTTGAGCAAAAGGTTGAACAAGC
196 GTGATGGATTTGAGCAAAAGGTTGAACAAGC
290725 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
*
290790 AAAAACTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGATCT
66 AAAAACTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
* *
290855 TCTTCTTCCTTCTTCGGATGAGTTCTTCTCATTATGAACTTTCTC-TGTAAAAGGTGATCCATCA
131 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTG-AAAAGCTGATCCATCA
*
290919 AGTGATAGATTTGAGCAAAAGGTTGAACAAGC
195 AGTGATGGATTTGAGCAAAAGGTTGAACAAGC
290951 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* *
291016 AAAAACTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAAAAAATTCTTCTCGTTATGAACT
66 AAAAACTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
* * * * *
291081 TCTTCTTCCTTCTTCAGATGGGTTCTTCTCATTATGAACTTTATCTGGAAAGGCTGATCCATCGA
131 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGAAAAGCTGATCCATCAA
291146 GTGATGGATTTGA
196 GTGATGGATTTGA
291159 ATCTTTGCTA
Statistics
Matches: 405, Mismatches: 26, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
225 57 0.14
226 347 0.86
227 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (226 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAACTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGAAAAGCTGATCCATCAA
GTGATGGATTTGAGCAAAAGGTTGAACAAGC
Found at i:292697 original size:20 final size:20
Alignment explanation
Indices: 292667--292715 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
292657 GACCCTCCTT
292667 TTTTTTCCTTCTTTCATTTCA
1 TTTTTT-CTTCTTTCATTTCA
*
292688 TTTTTTCTTCTTTTATTTCA
1 TTTTTTCTTCTTTCATTTCA
292708 TTTTTTCT
1 TTTTTTCT
292716 ACAAGCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTTCTTCTTTCATTTCA
Found at i:300014 original size:15 final size:15
Alignment explanation
Indices: 299991--300022 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
299981 TAATGCAAAT
299991 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
300006 AATGCATGTATGCAA
1 AATGAATGTATGCAA
300021 AA
1 AA
300023 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:303372 original size:28 final size:27
Alignment explanation
Indices: 303321--303374 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
303311 ATATTAATAA
* *
303321 AATAATATATATAAATACTATGAAAAT
1 AATAATATATATAAAAAATATGAAAAT
*
303348 AATAAGTATATATAAAAAATTTGAAAA
1 AATAA-TATATATAAAAAATATGAAAA
303375 GAAAGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (27 bp):
AATAATATATATAAAAAATATGAAAAT
Found at i:303895 original size:26 final size:26
Alignment explanation
Indices: 303848--303903 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
303838 TATTTCAAAA
303848 TTATAATTATGAAAAAATATATTAAT
1 TTATAATTATGAAAAAATATATTAAT
*
303874 TTATATATTAT-AAATAAA-ATATTTAT
1 TTATA-ATTATGAAA-AAATATATTAAT
303900 TTAT
1 TTAT
303904 TAGAAATATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TTATAATTATGAAAAAATATATTAAT
Found at i:304035 original size:24 final size:23
Alignment explanation
Indices: 304008--304058 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
303998 ATAATTAAAT
304008 AAAATA-ATATATATTTAATTTATA
1 AAAATAGATATATATTT-ATTTA-A
*
304032 AAAATATGATATTTATTTATTTAA
1 AAAATA-GATATATATTTATTTAA
304056 AAA
1 AAA
304059 TATCAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 10 0.42
25 5 0.21
26 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AAAATAGATATATATTTATTTAA
Found at i:304049 original size:21 final size:22
Alignment explanation
Indices: 304013--304061 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 22
304003 TAAATAAAAT
304013 AATATATATTTAATTTA-TAAA
1 AATATATATTTAATTTATTAAA
304034 AATATGATATTT-ATTTATTTAAA
1 AATAT-ATATTTAATTTA-TTAAA
304057 AATAT
1 AATAT
304062 CAGAAAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.40
22 6 0.24
23 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATATATATTTAATTTATTAAA
Found at i:304144 original size:19 final size:19
Alignment explanation
Indices: 304113--304157 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
304103 TATTGAAAAA
304113 TAAATAA-TTAAAAATAAT
1 TAAATAAGTTAAAAATAAT
*
304131 TAAATAAGTTAAAAGTAAT
1 TAAATAAGTTAAAAATAAT
304150 TAAATAAG
1 TAAATAAG
304158 ATTTTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (19 bp):
TAAATAAGTTAAAAATAAT
Found at i:305407 original size:3 final size:3
Alignment explanation
Indices: 305399--305444 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
305389 ATTATTTATT
*
305399 TAA TAA TAA TAA TAA T-A TAA TAA TATA TAA -AA CAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
305442 TAA
1 TAA
305445 ATAAAACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.15
3 30 0.77
4 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:305438 original size:20 final size:20
Alignment explanation
Indices: 305415--305454 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
305405 TAATAATAAT
*
305415 ATAATAATATATAAAACAAA
1 ATAATAATAAATAAAACAAA
305435 ATAATAATAAATAAAACAAA
1 ATAATAATAAATAAAACAAA
305455 TGAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
ATAATAATAAATAAAACAAA
Found at i:305930 original size:113 final size:113
Alignment explanation
Indices: 305693--306345 Score: 1015
Period size: 113 Copynumber: 5.8 Consensus size: 113
305683 TTCAGATGAG
* * **
305693 TTCTTCTCATTATGAACTTCCTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACT-TCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
305757 GCAATGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
* *
305805 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * ** *
305870 GAAATGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
* *
305918 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTA
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
305983 GAAAAGCTGATCCATCGAA-TGATGAATTCAAACAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATC-AAGTGATGAATTCAAACAAAAGGTTGAACAAA
306031 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * ** * *
306096 TAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
66 GAAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
* * *
306144 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATTTATTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
306209 GAAAGGCTGATCCATCGAA-TGATGAATTCAAACAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATC-AAGTGATGAATTCAAACAAAAGGTTGAACAAA
306257 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
306322 GAAAAGCTGATCCATCGAGTGATG
66 GAAAAGCTGATCCATCAAGTGATG
306346 GATTTGAATC
Statistics
Matches: 491, Mismatches: 45, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
112 58 0.12
113 429 0.87
114 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
Found at i:306049 original size:226 final size:226
Alignment explanation
Indices: 305694--306352 Score: 1142
Period size: 226 Copynumber: 2.9 Consensus size: 226
305684 TCAGATGAGT
* * **
305694 TCTTCTCATTATGAACTTCCTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACT-TCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * * *
305758 CAATGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTTATTATGAACT
66 AAAAGCTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
*
305823 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGAAATGCTGATCCATCAA
131 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGAAAAGCTGATCCATCAA
305888 GTGATGGATTTGAGCAAAAGGTTGAACAAAC
196 GTGATGGATTTGAGCAAAAGGTTGAACAAAC
*
305919 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
305984 AAAAGCTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
66 AAAAGCTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
*
306049 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC-TGTAAAAGTTGATCCATCA
131 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTG-AAAAGCTGATCCATCA
*
306113 AGTGATGGATTTGAGCAAAAGGTTGAACAAGC
195 AGTGATGGATTTGAGCAAAAGGTTGAACAAAC
* *
306145 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATTTATTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
*
306210 AAAGGCTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
66 AAAAGCTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
* *
306275 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGA
131 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGAAAAGCTGATCCATCAA
306340 GTGATGGATTTGA
196 GTGATGGATTTGA
306353 ATCTTTGCTA
Statistics
Matches: 412, Mismatches: 19, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
225 57 0.14
226 354 0.86
227 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (226 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGAAAAGCTGATCCATCAA
GTGATGGATTTGAGCAAAAGGTTGAACAAAC
Found at i:314807 original size:15 final size:15
Alignment explanation
Indices: 314784--314815 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
314774 TGCAATGAAT
314784 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
314799 AATGCATGTATGCAA
1 AATGAATGTATGCAA
314814 AA
1 AA
314816 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:318160 original size:28 final size:27
Alignment explanation
Indices: 318109--318162 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
318099 ATATTAATAA
* *
318109 AATAATATATATAAATACTATGAAAAT
1 AATAATATATATAAAAAATATGAAAAT
*
318136 AATAAGTATATATAAAAAATTTGAAAA
1 AATAA-TATATATAAAAAATATGAAAA
318163 GAAAGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (27 bp):
AATAATATATATAAAAAATATGAAAAT
Found at i:318928 original size:18 final size:18
Alignment explanation
Indices: 318905--318942 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
318895 GCCCTTTCTT
318905 AATATTGAAAA-ATAAATA
1 AATATT-AAAACATAAATA
*
318923 AATATTAAAACATAATTA
1 AATATTAAAACATAAATA
318941 AA
1 AA
318943 ATAAGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AATATTAAAACATAAATA
Found at i:318988 original size:149 final size:148
Alignment explanation
Indices: 318684--318997 Score: 324
Period size: 149 Copynumber: 2.1 Consensus size: 148
318674 ATATATATTT
* * * *
318684 ATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCCTTAAGACAGCTC
1 ATAAAT-ATATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTGCCTTAAGACAGCTC
* *
318749 TTTTCTTAATATTAAAAAATAAATAAATATTAAAATAACATATTTCTAAAAATAATTAAATAAAA
65 CTTTCTTAATATTAAAAAATAAATAAATATT-AAATAACATATATCTAAAAATAATTAAATAAAA
* * *
318814 TAATATATATATAATTTATA
129 TAAGATATATATAATATAAA
* ** *
318834 A-AAATATGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTGTTTTAAGACTGC-
1 ATAAATAT-ATATTTATTTATTTAAAAATATCAGAAAA-GGACATCCAGGTGCCTTAAGACAGCT
*
318897 CCTTTCTTAATATTGAAAAATAAATAAATATT-AA-AACATA-AT-T-AAAATAAGTTAAAATTA
64 CCTTTCTTAATATTAAAAAATAAATAAATATTAAATAACATATATCTAAAAATAA-TT-AAA-T-
*
318957 ATTAAATAAGAT-TTTAATAA-ATAAA
125 A--AAATAAGATATAT-ATAATATAAA
318982 ATAAATAT-TATTTATT
1 ATAAATATATATTTATT
318998 ATATAAATAT
Statistics
Matches: 139, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
143 7 0.05
144 3 0.02
145 4 0.03
146 7 0.05
147 11 0.08
148 7 0.05
149 80 0.58
150 20 0.14
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (148 bp):
ATAAATATATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTGCCTTAAGACAGCTCC
TTTCTTAATATTAAAAAATAAATAAATATTAAATAACATATATCTAAAAATAATTAAATAAAATA
AGATATATATAATATAAA
Found at i:320375 original size:3 final size:3
Alignment explanation
Indices: 320369--320421 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
320359 ATTATTTATT
* * *
320369 TAA TAA TTA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
320413 TAA TAA TAA
1 TAA TAA TAA
320422 ATAAAACAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 8 0.19
3 34 0.81
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:320432 original size:22 final size:22
Alignment explanation
Indices: 320369--320431 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
320359 ATTATTTATT
* * * *
320369 TAATAATTATAATATAATATAA
1 TAATAATAATAAAACAAAATAA
*
320391 TAATAATATTAAAACAAAATAA
1 TAATAATAATAAAACAAAATAA
320413 TAATAATAAATAAAACAAA
1 TAATAAT-AATAAAACAAA
320432 TGAAAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 24 0.71
23 10 0.29
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (22 bp):
TAATAATAATAAAACAAAATAA
Found at i:320908 original size:113 final size:113
Alignment explanation
Indices: 320671--321328 Score: 991
Period size: 113 Copynumber: 5.8 Consensus size: 113
320661 TTCAGATGAG
* * **
320671 TTCTTCTCATTATGAACTTCCTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACT-TCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * *
320735 GCAATGCTGATCCATCAAATGATGAATTCAAAG-AAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATT-TAAGCAAAAGGTTGAACAAA
* *
320783 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * *
320848 GAAATGCTGATCCATCAAGTGATGGATTTGAGTAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTTAAGCAAAAGGTTGAACAAA
*
320896 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
320961 GAAAAGCTGATCCATCGAA-TGATGAATTCAAACAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATC-AAGTGATGAATTTAAGCAAAAGGTTGAACAAA
321009 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * *
321074 TAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
66 GAAAAGCTGATCCATCAAGTGATGAATTTAAGCAAAAGGTTGAACAAA
* *
321122 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
321187 GAAAGGCTGATCCATCGAA-TGATGAATTCAAACAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATC-AAGTGATGAATTTAAGCAAAAGGTTGAACAAA
*
321235 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
321300 GAAAAGCTGATCCATCGAGTGATGGATTT
66 GAAAAGCTGATCCATCAAGTGATGAATTT
321329 GAATCTTTGC
Statistics
Matches: 495, Mismatches: 45, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
112 60 0.12
113 431 0.87
114 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAGTGATGAATTTAAGCAAAAGGTTGAACAAA
Found at i:321005 original size:226 final size:226
Alignment explanation
Indices: 320672--321330 Score: 1133
Period size: 226 Copynumber: 2.9 Consensus size: 226
320662 TCAGATGAGT
* * **
320672 TCTTCTCATTATGAACTTCCTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACT-TCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * * * *
320736 CAATGCTGATCCATCAAATGATGAATTCAAAGAAAAGGTTGAACAAATTCTTCTTATTATGAACT
66 AAAAGCTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
*
320801 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGAAATGCTGATCCATCAA
131 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGAAAAGCTGATCCATCAA
*
320866 GTGATGGATTTGAGTAAAAGGTTGAACAAAC
196 GTGATGGATTTGAGCAAAAGGTTGAACAAAC
320897 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
320962 AAAAGCTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
66 AAAAGCTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
*
321027 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC-TGTAAAAGTTGATCCATCA
131 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTG-AAAAGCTGATCCATCA
*
321091 AGTGATGGATTTGAGCAAAAGGTTGAACAAGC
195 AGTGATGGATTTGAGCAAAAGGTTGAACAAAC
*
321123 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* *
321188 AAAGGCTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATT
66 AAAAGCTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
* *
321253 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGA
131 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGAAAAGCTGATCCATCAA
321318 GTGATGGATTTGA
196 GTGATGGATTTGA
321331 ATCTTTGCTA
Statistics
Matches: 412, Mismatches: 19, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
225 57 0.14
226 354 0.86
227 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (226 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCGAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGAAAAGCTGATCCATCAA
GTGATGGATTTGAGCAAAAGGTTGAACAAAC
Found at i:330212 original size:15 final size:15
Alignment explanation
Indices: 330189--330220 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
330179 TGCAATGAAT
330189 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
330204 AATGCATGTATGCAA
1 AATGAATGTATGCAA
330219 AA
1 AA
330221 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:333496 original size:28 final size:27
Alignment explanation
Indices: 333445--333498 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
333435 ATATTAATAA
* *
333445 AATAATATATATAAATACTATGAAAAT
1 AATAATATATATAAAAAATATGAAAAT
*
333472 AATAAGTATATATAAAAAATTTGAAAA
1 AATAA-TATATATAAAAAATATGAAAA
333499 GAAAGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (27 bp):
AATAATATATATAAAAAATATGAAAAT
Found at i:334216 original size:18 final size:18
Alignment explanation
Indices: 334193--334230 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
334183 GCCCTTTCTT
* *
334193 AATATTGAAAAATAAATA
1 AATATTAAAAAAGAAATA
334211 AATATTAAAAAAGAAATA
1 AATATTAAAAAAGAAATA
334229 AA
1 AA
334231 ATAAGTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AATATTAAAAAAGAAATA
Found at i:334241 original size:19 final size:20
Alignment explanation
Indices: 334219--334273 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
334209 TAAATATTAA
334219 AAAAGAAATAAAATAAG-TT
1 AAAAGAAATAAAATAAGATT
* *
334238 AAAAGTAATTAAATAAGATT
1 AAAAGAAATAAAATAAGATT
** *
334258 TTAATAAATAAAATAA
1 AAAAGAAATAAAATAA
334274 ATATTATTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
AAAAGAAATAAAATAAGATT
Found at i:334319 original size:3 final size:3
Alignment explanation
Indices: 334311--334340 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
334301 TTTATGGCTA
*
334311 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
334341 TAAAAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:335680 original size:22 final size:23
Alignment explanation
Indices: 335655--335699 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
335645 ATAATATAGT
*
335655 ATAATAATAAT-ATTAAAACAAA
1 ATAATAATAATAAATAAAACAAA
335677 ATAATAATAATAAATAAAACAAA
1 ATAATAATAATAAATAAAACAAA
335700 TGAAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (23 bp):
ATAATAATAATAAATAAAACAAA
Found at i:340335 original size:23 final size:23
Alignment explanation
Indices: 340265--340347 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
340255 ACACTTAACA
* *
340265 GTGCATCGATGTACCCCTTTGAAT
1 GTGCATCGATGCACACC-TTGAAT
*
340289 GTGCATCGAT--ACACCATGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
340310 GTGCACCGATGCACTCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
340333 GTGCATCGATGCACA
1 GTGCATCGATGCACA
340348 AGGCCATGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
21 14 0.28
22 4 0.08
23 22 0.44
24 10 0.20
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:343119 original size:65 final size:64
Alignment explanation
Indices: 343050--343202 Score: 197
Period size: 65 Copynumber: 2.4 Consensus size: 64
343040 GAATAAATTG
*
343050 AACATCGAATGCA-TTGTATGCATCGATGCACATA-CCATGCATCGATGCACTCAGG-T-TTCTA
1 AACATCGAATGCATTTG-ATGCATCGATGCACA-AGACATGCATCGATGCACTCAGGCTATT-T-
343111 TGAA
62 TG-A
*
343115 AACATCGAATGCATTTGATGCATTGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGA
* *
343179 AACATCGAATGCACTTCATGCATC
1 AACATCGAATGCATTTGATGCATC
343203 AAAGCACTCT
Statistics
Matches: 79, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
64 23 0.29
65 49 0.62
66 5 0.06
67 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTATTTTGA
Found at i:347559 original size:22 final size:22
Alignment explanation
Indices: 347531--347572 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
347521 GAGGGGTTTT
* *
347531 ATTTTTTTTTTTTAAAAAATAA
1 ATTTTTTATTATTAAAAAATAA
347553 ATTTTTTATTATTAAAAAAT
1 ATTTTTTATTATTAAAAAAT
347573 TAAAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTTTATTATTAAAAAATAA
Found at i:359845 original size:21 final size:22
Alignment explanation
Indices: 359805--359845 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
359795 TATTAAGGAA
*
359805 AGTATCGATACCTCAGACTAGG
1 AGTATCGATACCTCAAACTAGG
*
359827 AGTATCTATA-CTCAAACTA
1 AGTATCGATACCTCAAACTA
359846 TAATATTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (22 bp):
AGTATCGATACCTCAAACTAGG
Found at i:359929 original size:20 final size:20
Alignment explanation
Indices: 359890--359929 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
359880 AGTAAGTCAG
* *
359890 TAGTATTGATACCGAGAGGT
1 TAGTATCGATACCCAGAGGT
*
359910 TAGTATCGATACCCATAGGT
1 TAGTATCGATACCCAGAGGT
359930 CATTCCATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
TAGTATCGATACCCAGAGGT
Found at i:382896 original size:82 final size:82
Alignment explanation
Indices: 382760--383016 Score: 372
Period size: 82 Copynumber: 3.1 Consensus size: 82
382750 CATGCCTTGT
* * * *
382760 AGAGAATCTACACTATTCACGTCC-TTTGTTTTCATTGAAATTTCACATCGACTCAGATAAAATG
1 AGAGAATCTACACTATTCACGTCCTTTTCTTTTCATTGAAATTTCACATCAACTCAGATAAACTT
*
382824 AAAAAGTTTAGAGAGTC
66 AAAAATTTTAGAGAGTC
* * * * *
382841 AGAGAATTTATACTATTCGCATCCTTTTCTTTTCATTGACATTTCACATCAACTCAGATAAACTT
1 AGAGAATCTACACTATTCACGTCCTTTTCTTTTCATTGAAATTTCACATCAACTCAGATAAACTT
382906 AAAAATTTTAGAGAGTC
66 AAAAATTTTAGAGAGTC
* * * *
382923 AGAGAATCTACACTATTCACGTCCTATACTTTTCATTGATATTTCACGTCAACTCAGATAAACTT
1 AGAGAATCTACACTATTCACGTCCTTTTCTTTTCATTGAAATTTCACATCAACTCAGATAAACTT
*
382988 AAAAATTTTAGAGAATC
66 AAAAATTTTAGAGAGTC
383005 AGAGAATCTACA
1 AGAGAATCTACA
383017 TTATACTACC
Statistics
Matches: 156, Mismatches: 19, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
81 20 0.13
82 136 0.87
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (82 bp):
AGAGAATCTACACTATTCACGTCCTTTTCTTTTCATTGAAATTTCACATCAACTCAGATAAACTT
AAAAATTTTAGAGAGTC
Found at i:392440 original size:19 final size:18
Alignment explanation
Indices: 392412--392447 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
392402 TGACACAACT
*
392412 TAAAAATAAATTAATTAA
1 TAAAAATAAAATAATTAA
392430 TAAAAATTAAAATAATTA
1 TAAAAA-TAAAATAATTA
392448 TTATTAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAATAAAATAATTAA
Found at i:393883 original size:15 final size:14
Alignment explanation
Indices: 393857--393894 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 14
393847 TAATCAATTT
393857 ATATATTT-AAATA
1 ATATATTTAAAATA
393870 ATATATTTAAAAATA
1 ATATATTT-AAAATA
393885 ATAATATTTA
1 AT-ATATTTA
393895 CTGCATATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.36
15 8 0.36
16 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATTTAAAATA
Found at i:397682 original size:331 final size:332
Alignment explanation
Indices: 397072--397896 Score: 1174
Period size: 331 Copynumber: 2.5 Consensus size: 332
397062 GTTTATTTTT
* * * * * **
397072 ATAATAATAATTTTTTTATAATTTTAAAAATTATGAATTTCATATATTTTGAAAAAAAATATTTT
1 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTAAAAAAATTATTAC
*
397137 CTTTTAAAATTAATTGTTTAAAAATATAAAATATTAAAATACACTTTTAATTACAATTAAGAGAT
66 CTTTTAAAATTAATTGTTTAAAAATATAAAA-A-T---A-A-ACTTTTAATTACAATTGAGAGAT
* *
397202 CAAATGAATTATTATTCATTAATTTTTATTTTTTTAACAACGGTTAATAATGTTTATTCATTTTT
124 CAAATGAATTATTATTCATTAATTTTTATATTTTTAACAACAGTTAATAATGTTTATTCATTTTT
** * * *
397267 AATAAAATTATTTTGATTTTTGCATTAAAATTATACAATACGTATAATCTAGTATAGGAAAACTT
189 AATAAAATTATTTAAATTTTTGCATTAAAATTACACAATACATATAATCTAGTATAGAAAAACTT
* *
397332 TGAGGGTAAATATTTTAAAATATGAATAATTTTATAAAAGTTTTATAATTAGTATTTATTTTACA
254 TGAGGATAAATATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTATTTTACA
397397 AAATGATGATGATG
319 AAATGATGATGATG
*
397411 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTTAAAAAATTATTAC
1 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTAAAAAAATTATTAC
*
397476 CTTTTAAAATTAATTGTTTAAAAATATAAAAATAAACTTTTAATTACAATTGAGTGATCAAATGA
66 CTTTTAAAATTAATTGTTTAAAAATATAAAAATAAACTTTTAATTACAATTGAGAGATCAAATGA
*
397541 ATTATTATTTATTAATTTTTA-ATTTTTAACAACAGTTAATAATGTTTATTCATTTTTAATAAAA
131 ATTATTATTCATTAATTTTTATATTTTTAACAACAGTTAATAATGTTTATTCATTTTTAATAAAA
* *
397605 TTATTTAAATTTTTGCATTAAAATTACATAATACATATAATCTAGTATATAAAAACTTTGAGGAT
196 TTATTTAAATTTTTGCATTAAAATTACACAATACATATAATCTAGTATAGAAAAACTTTGAGGAT
* *
397670 AAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTCTTTTACAAAATGAT
261 AAATATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTATTTTACAAAATGAT
397735 GATGATG
326 GATGATG
* * * *
397742 ---ATGATAAATA-TTTATAATTTAAAAAATTATAAATTTCATAAATTTTTGAAAAAATTATTAC
1 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTAAAAAAATTATTAC
* *
397803 CTTTCAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTACAATTGAGGG
66 CTTTTAAAATTAATTGTTT-AAAA-AT-----ATA--AAAATAAACTTTTAATTACAATTGAGAG
* * *
397868 ATAAAATGAATTATTATTCAATATTTTTT
122 ATCAAATGAATTATTATTCATTAATTTTT
397897 TTAAAATATA
Statistics
Matches: 443, Mismatches: 34, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
327 66 0.15
328 13 0.03
329 2 0.00
331 167 0.38
332 48 0.11
333 1 0.00
334 4 0.01
336 52 0.12
337 1 0.00
338 1 0.00
339 88 0.20
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (332 bp):
ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTAAAAAAATTATTAC
CTTTTAAAATTAATTGTTTAAAAATATAAAAATAAACTTTTAATTACAATTGAGAGATCAAATGA
ATTATTATTCATTAATTTTTATATTTTTAACAACAGTTAATAATGTTTATTCATTTTTAATAAAA
TTATTTAAATTTTTGCATTAAAATTACACAATACATATAATCTAGTATAGAAAAACTTTGAGGAT
AAATATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTATTTTACAAAATGAT
GATGATG
Found at i:397927 original size:25 final size:26
Alignment explanation
Indices: 397894--397942 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
397884 TTCAATATTT
**
397894 TTTTTAAAA-TATATGAAATTTATAA
1 TTTTTAAAATTATAAAAAATTTATAA
397919 TTTTTAAAATTATAAAAAATTTAT
1 TTTTTAAAATTATAAAAAATTTAT
397943 TATTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
TTTTTAAAATTATAAAAAATTTATAA
Found at i:399411 original size:94 final size:94
Alignment explanation
Indices: 399250--399438 Score: 378
Period size: 94 Copynumber: 2.0 Consensus size: 94
399240 CAGAGAAAGG
399250 TTGGTATCATCAGGTTTACTTGTTAGTTAAATCCAGGTTGTTAAAATGAGTATTTAAGTCCCCCC
1 TTGGTATCATCAGGTTTACTTGTTAGTTAAATCCAGGTTGTTAAAATGAGTATTTAAGTCCCCCC
399315 CTGATCTTAGATTTTGGTTAATGAGCAGT
66 CTGATCTTAGATTTTGGTTAATGAGCAGT
399344 TTGGTATCATCAGGTTTACTTGTTAGTTAAATCCAGGTTGTTAAAATGAGTATTTAAGTCCCCCC
1 TTGGTATCATCAGGTTTACTTGTTAGTTAAATCCAGGTTGTTAAAATGAGTATTTAAGTCCCCCC
399409 CTGATCTTAGATTTTGGTTAATGAGCAGT
66 CTGATCTTAGATTTTGGTTAATGAGCAGT
399438 T
1 T
399439 GATGTGATTA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (94 bp):
TTGGTATCATCAGGTTTACTTGTTAGTTAAATCCAGGTTGTTAAAATGAGTATTTAAGTCCCCCC
CTGATCTTAGATTTTGGTTAATGAGCAGT
Done.