Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007973.1 Hibiscus syriacus cultivar Beakdansim tig00110410_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: 1299094
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:601367 original size:14 final size:14
Alignment explanation
Indices: 601350--601376 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
601340 AAATCAAGTT
601350 TTGAAATTAGAAAA
1 TTGAAATTAGAAAA
601364 TTGAAATTAGAAA
1 TTGAAATTAGAAA
601377 TTACTCCCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (14 bp):
TTGAAATTAGAAAA
Found at i:603658 original size:21 final size:21
Alignment explanation
Indices: 603632--603671 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
603622 CAGAACCCCA
*
603632 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
603653 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
603672 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:603702 original size:22 final size:23
Alignment explanation
Indices: 603653--603712 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
603643 ATTCCCCTGT
603653 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTTCCCCTTCAA
*
603676 AGGGGGAATCGGTT-CCCTT--A
1 GGGGGGAATCGGTTCCCCTTCAA
* *
603696 GGGGGGGATCGATTCCC
1 GGGGGGAATCGGTTCCC
603713 TCTGCACCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.38
21 2 0.06
22 5 0.16
23 13 0.41
ACGTcount: A:0.17, C:0.23, G:0.38, T:0.22
Consensus pattern (23 bp):
GGGGGGAATCGGTTCCCCTTCAA
Found at i:607565 original size:22 final size:21
Alignment explanation
Indices: 607523--607562 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
607513 GAGTTTGTTT
*
607523 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
607544 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
607563 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:610600 original size:20 final size:20
Alignment explanation
Indices: 610577--610629 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
610567 CACGGAATGT
*
610577 AAGATTACCAGTGTGAATAA
1 AAGATTACCAGTGGGAATAA
610597 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
*
610617 AAAATTACCAGTG
1 AAGATTACCAGTG
610630 AATATGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (20 bp):
AAGATTACCAGTGGGAATAA
Found at i:610855 original size:36 final size:38
Alignment explanation
Indices: 610779--610856 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 38
610769 AACAAGTTGA
* * *
610779 AAAATATTTATATATTTTCTTTAAAAATTTAAATTCAT
1 AAAATATATATATATTTTCTTTAAAAATTGAAAATCAT
610817 AAAATATATATATA-TTT-TTTACAAAATTGAAAAT-AT
1 AAAATATATATATATTTTCTTTA-AAAATTGAAAATCAT
610853 AAAA
1 AAAA
610857 AGGTTTAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 10 0.28
37 13 0.36
38 13 0.36
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (38 bp):
AAAATATATATATATTTTCTTTAAAAATTGAAAATCAT
Found at i:620129 original size:3 final size:3
Alignment explanation
Indices: 620114--620211 Score: 142
Period size: 3 Copynumber: 32.7 Consensus size: 3
620104 TTTTTACCCA
* * * *
620114 TAT TAT AAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAC TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
620162 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
620210 TA
1 TA
620212 AATATATTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:620221 original size:9 final size:10
Alignment explanation
Indices: 620207--620245 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
620197 TTATTATTAT
620207 TATTAAAT-A
1 TATTAAATAA
620216 TATTAAATACA
1 TATTAAATA-A
620227 TATATAAATAA
1 TAT-TAAATAA
620238 TATTAAAT
1 TATTAAAT
620246 TACAAGCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.30
10 5 0.19
11 8 0.30
12 6 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:620352 original size:16 final size:16
Alignment explanation
Indices: 620331--620365 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
620321 CCTAATCCCT
620331 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
620347 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
620363 AGC
1 AGC
620366 GCTGCCACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.09, C:0.54, G:0.20, T:0.17
Consensus pattern (16 bp):
AGCCGCCTCTGCCTCC
Found at i:622110 original size:29 final size:28
Alignment explanation
Indices: 622068--622135 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
622058 AAAAATTCAT
* *
622068 ATATTTAATTTTTAATTATTTCTTTTCAAA
1 ATATTT-ATATTTAATTA-TTATTTTCAAA
* * *
622098 ATTTTTATATTTACTTATTATTTTCATA
1 ATATTTATATTTAATTATTATTTTCAAA
622126 ATATTTATAT
1 ATATTTATAT
622136 GTTTTATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 18 0.56
29 9 0.28
30 5 0.16
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (28 bp):
ATATTTATATTTAATTATTATTTTCAAA
Found at i:632803 original size:23 final size:23
Alignment explanation
Indices: 632775--632844 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
632765 ATTATGCTTG
* * *
632775 AAGAAAAAAGAAAAAGGAAAAGA
1 AAGAAAAAAAAAAAAGAAAAAAA
632798 AAGAAAGAAAAAAAAAGAAAAAAA
1 AAGAAA-AAAAAAAAAGAAAAAAA
*
632822 AGAGAAAAAAAAGAAA-AAAAAAA
1 A-AGAAAAAAAAAAAAGAAAAAAA
632845 GGGGGGTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.32
24 23 0.56
25 5 0.12
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (23 bp):
AAGAAAAAAAAAAAAGAAAAAAA
Found at i:632804 original size:14 final size:14
Alignment explanation
Indices: 632775--632843 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 14
632765 ATTATGCTTG
*
632775 AAGAAAAAAGAA-A
1 AAGAAAAAAAAAGA
* *
632788 AAGGAAAAGAAAGA
1 AAGAAAAAAAAAGA
632802 AAGAAAAAAAAAGA
1 AAGAAAAAAAAAGA
* *
632816 AAAAAAAGAGAAAAAA
1 AAGAAAA-A-AAAAGA
632832 AAGAAAAAAAAA
1 AAGAAAAAAAAA
632844 AGGGGGGTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
13 9 0.20
14 23 0.51
15 2 0.04
16 11 0.24
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAAAGA
Found at i:632814 original size:30 final size:30
Alignment explanation
Indices: 632778--632843 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
632768 ATGCTTGAAG
*
632778 AAAAAAGAAAAAGGAAA-AG-AAAGAAAGAAA
1 AAAAAAGAAAAA--AAAGAGAAAAAAAAGAAA
632808 AAAAAAGAAAAAAAAGAGAAAAAAAAGAAA
1 AAAAAAGAAAAAAAAGAGAAAAAAAAGAAA
632838 AAAAAA
1 AAAAAA
632844 AGGGGGGTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
28 3 0.09
29 2 0.06
30 28 0.85
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (30 bp):
AAAAAAGAAAAAAAAGAGAAAAAAAAGAAA
Found at i:632818 original size:9 final size:9
Alignment explanation
Indices: 632778--632842 Score: 60
Period size: 10 Copynumber: 6.7 Consensus size: 9
632768 ATGCTTGAAG
632778 AAAAAAGAA
1 AAAAAAGAA
632787 AAAGGAAA-AGA
1 AAA--AAAGA-A
*
632798 AAGAAAGAAA
1 AAAAAAG-AA
632808 AAAAAAGAAA
1 AAAAAAG-AA
632818 AAAAAGAGAA
1 AAAAA-AGAA
632828 AAAAAAGAA
1 AAAAAAGAA
632837 AAAAAA
1 AAAAAA
632843 AAGGGGGGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
9 16 0.33
10 23 0.48
11 9 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:632821 original size:11 final size:11
Alignment explanation
Indices: 632779--632845 Score: 68
Period size: 11 Copynumber: 6.0 Consensus size: 11
632769 TGCTTGAAGA
632779 AAAAAGAAAAAGG
1 AAAAA-AAAAA-G
632792 AAAAGAAAGAAAG
1 AAAA-AAA-AAAG
632805 -AAAAAAAAAG
1 AAAAAAAAAAG
632815 --AAAAAAAAG
1 AAAAAAAAAAG
*
632824 AGAAAAAAAAG
1 AAAAAAAAAAG
632835 AAAAAAAAAAG
1 AAAAAAAAAAG
632846 GGGGGTCAAG
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
9 9 0.18
10 4 0.08
11 22 0.45
12 3 0.06
13 7 0.14
14 4 0.08
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:632831 original size:20 final size:19
Alignment explanation
Indices: 632778--632842 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 19
632768 ATGCTTGAAG
632778 AAAAAAGAAAAAGGAAAAG-A
1 AAAAAAGAAAAA--AAAAGAA
*
632798 AAGAAAGAAAAAAAAAGAA
1 AAAAAAGAAAAAAAAAGAA
632817 AAAAAAGAGAAAAAAAAGAA
1 AAAAAAGA-AAAAAAAAGAA
632837 AAAAAA
1 AAAAAA
632843 AAGGGGGGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.12
19 8 0.20
20 28 0.68
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAAAAAAGAA
Found at i:634117 original size:83 final size:83
Alignment explanation
Indices: 633978--634450 Score: 815
Period size: 83 Copynumber: 5.7 Consensus size: 83
633968 AAACATTAAC
*
633978 TAAAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 TAAAAGATGAATGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
634043 AGAACAAATCATTGAATT
66 AGAACAAATCATTGAATT
*
634061 TAAAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 TAAAAGATGAATGTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
634125 CAGAACAAATCATTGAATT
65 CAGAACAAATCATTGAATT
*
634144 TAGAAGATGAATGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 TAAAAGATGAATGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
634209 AGAACAAATCATTGAATT
66 AGAACAAATCATTGAATT
*
634227 TAGAAGATGAATGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 TAAAAGATGAATGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
634292 AGAACAAATCATTGAATT
66 AGAACAAATCATTGAATT
* *
634310 TAGAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 TAAAAGATGAATGTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
* *
634374 CTGAACCAATCATTGAATT
65 CAGAACAAATCATTGAATT
* * *
634393 TAAAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTG
1 TAAAAGATGAATGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
634451 ATTCGGTAGG
Statistics
Matches: 374, Mismatches: 12, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
82 1 0.00
83 371 0.99
84 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
TAAAAGATGAATGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
AGAACAAATCATTGAATT
Found at i:635379 original size:40 final size:40
Alignment explanation
Indices: 635328--635429 Score: 195
Period size: 40 Copynumber: 2.5 Consensus size: 40
635318 TTTTCCAGAG
635328 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
635368 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
*
635408 GAAGTTCATAATGAGAAGAACT
1 AAAGTTCATAATGAGAAGAACT
635430 TTTTCAACCT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.49, C:0.10, G:0.23, T:0.19
Consensus pattern (40 bp):
AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
Found at i:635418 original size:153 final size:153
Alignment explanation
Indices: 635217--635539 Score: 628
Period size: 153 Copynumber: 2.1 Consensus size: 153
635207 TGTCAGGTAG
*
635217 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
635282 AACCTTTTACATGAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
66 AACCTTTTACATGAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
635347 ACTCATCTGAAGAAGGAAGAAAA
131 ACTCATCTGAAGAAGGAAGAAAA
*
635370 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTTTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
635435 AACCTTTTACATGAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
66 AACCTTTTACATGAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
635500 ACTCATCTGAAGAAGGAAGAAAA
131 ACTCATCTGAAGAAGGAAGAAAA
635523 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
635540 GCTTATTCAA
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 168 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.25
Consensus pattern (153 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTACATGAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGGAAGAAAA
Found at i:635492 original size:113 final size:113
Alignment explanation
Indices: 635368--635727 Score: 607
Period size: 113 Copynumber: 3.2 Consensus size: 113
635358 GAAGGAAGAA
*
635368 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTTT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTAT
635433 TCAACCTTTTACATGAATCCATCATTTGATGGATCAGCTTTTCCAGAG
66 TCAACCTTTTACATGAATCCATCATTTGATGGATCAGCTTTTCCAGAG
* *
635481 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTAT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTAT
* *
635546 TCAACCTTTTGC-TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAG
66 TCAACCTTTTACAT-GAATCCATCATTTGATGGATCAGCTTTTCCAGAG
*
635594 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTAT
* * *
635659 TCAACCTTTTACATGAATTCATCAATTGATGGATCAGCATTTCCAGAG
66 TCAACCTTTTACATGAATCCATCATTTGATGGATCAGCTTTTCCAGAG
*
635707 -AAGTTCATAATAAGAAGAACT
1 AAAGTTCATAATGAGAAGAACT
635728 TGTTCAACTT
Statistics
Matches: 231, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
112 21 0.09
113 209 0.90
114 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (113 bp):
AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTAT
TCAACCTTTTACATGAATCCATCATTTGATGGATCAGCTTTTCCAGAG
Found at i:636077 original size:3 final size:3
Alignment explanation
Indices: 636069--636154 Score: 127
Period size: 3 Copynumber: 28.7 Consensus size: 3
636059 ATATTATAAA
* * * *
636069 TAT TAT TAT TAT TAT AAT TAT TAT TAT TAC TAT AAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
636117 TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
636155 AATATATTAA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:636083 original size:18 final size:18
Alignment explanation
Indices: 636060--636163 Score: 138
Period size: 18 Copynumber: 5.8 Consensus size: 18
636050 TTTTTACCCA
*
636060 TATTATAAATATTATTAT
1 TATTATAATTATTATTAT
636078 TATTATAATTATTATTAT
1 TATTATAATTATTATTAT
* *
636096 TACTATAATTATTAATAT
1 TATTATAATTATTATTAT
*
636114 TATTATTATTATTATTAT
1 TATTATAATTATTATTAT
* *
636132 TATCATTATTATTATTAT
1 TATTATAATTATTATTAT
636150 TATTA-AATATATTA
1 TATTATAAT-TATTA
636164 AATACATATA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
17 2 0.03
18 74 0.97
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTATAATTATTATTAT
Found at i:636162 original size:9 final size:10
Alignment explanation
Indices: 636150--636188 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
636140 TTATTATTAT
636150 TATTAAAT-A
1 TATTAAATAA
636159 TATTAAATACA
1 TATTAAATA-A
636170 TATATAAATAA
1 TAT-TAAATAA
636181 TATTAAAT
1 TATTAAAT
636189 TACAAGCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.30
10 5 0.19
11 8 0.30
12 6 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:636162 original size:12 final size:11
Alignment explanation
Indices: 636059--636163 Score: 71
Period size: 12 Copynumber: 9.5 Consensus size: 11
636049 TTTTTTACCC
636059 ATATTA-TAA-
1 ATATTATTAAT
636068 ATATTATT-AT
1 ATATTATTAAT
636078 -TATTA-TAATT
1 ATATTATTAA-T
*
636088 ATTATTATTACT
1 A-TATTATTAAT
636100 ATAATTATTAAT
1 AT-ATTATTAAT
636112 ATTATTATT-AT
1 A-TATTATTAAT
*
636123 -TATTATTATT
1 ATATTATTAAT
*
636133 ATCATTATTATT
1 AT-ATTATTAAT
636145 ATTATTATTAAAT
1 A-TATTATT-AAT
636158 ATATTA
1 ATATTA
636164 AATACATATA
Statistics
Matches: 78, Mismatches: 4, Indels: 25
0.73 0.04 0.23
Matches are distributed among these distances:
8 1 0.01
9 20 0.26
10 3 0.04
11 4 0.05
12 43 0.55
13 7 0.09
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
ATATTATTAAT
Found at i:639761 original size:31 final size:31
Alignment explanation
Indices: 639725--639783 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
639715 AATAAAAAAT
*
639725 AAAA-TTGAAAGTTAGAGTGATTAAATTAGGA
1 AAAATTTGAAAGTTA-AGTAATTAAATTAGGA
639756 AAAATTTGAAAGTTAAGTAATTAAATTA
1 AAAATTTGAAAGTTAAGTAATTAAATTA
639784 AAACATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (31 bp):
AAAATTTGAAAGTTAAGTAATTAAATTAGGA
Found at i:640567 original size:14 final size:14
Alignment explanation
Indices: 640548--640623 Score: 80
Period size: 14 Copynumber: 5.1 Consensus size: 14
640538 ATATTTTGCA
640548 ATATATATAATAGTAC
1 ATATATAT-ATA-TAC
*
640564 ATATATTATAATGGTAC
1 ATATA-TAT-AT-ATAC
*
640581 ATATATATATATAT
1 ATATATATATATAC
*
640595 ATATATATATATAT
1 ATATATATATATAC
640609 ATATATATATATAC
1 ATATATATATATAC
640623 A
1 A
640624 GGTAACATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
14 30 0.56
15 2 0.04
16 8 0.15
17 14 0.26
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:640586 original size:2 final size:2
Alignment explanation
Indices: 640581--640785 Score: 91
Period size: 2 Copynumber: 108.5 Consensus size: 2
640571 ATAATGGTAC
*
640581 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
640623 AG GT A- AC AT AT GT AT -T GT -T TT A- AT AT AT AT -T AT AGT AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T A-T
* * * * *
640662 AT AT GT AT -T AT -T TT AG A- AT AT AA AT AT -T AT AT AT CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
640700 AT AT AT AT AT AT AT AT AT -T GA- AA AC AT AT AT GT AT -T AT -T
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
* * *
640739 GT A- AT AT AT AT AT AT GT AT AGT AT AT AT AT -T AT -T AT AA AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
*
640779 AT GT AT A
1 AT AT AT A
640786 AATTATATGG
Statistics
Matches: 156, Mismatches: 28, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
1 16 0.10
2 133 0.85
3 7 0.04
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (2 bp):
AT
Found at i:640730 original size:19 final size:18
Alignment explanation
Indices: 640706--640753 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
640696 CTATATATAT
640706 ATATATATATATTGAAAAC
1 ATATATATATATTG-AAAC
* * *
640725 ATATATGTATTATTGTAAT
1 ATATATATA-TATTGAAAC
640744 ATATATATAT
1 ATATATATAT
640754 GTATAGTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 18 0.75
20 5 0.21
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (18 bp):
ATATATATATATTGAAAC
Found at i:640996 original size:18 final size:18
Alignment explanation
Indices: 640949--641004 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
640939 TCCAAGAATA
* *
640949 CAAATCCAAGTCAAAGTC
1 CAAATCCAAGTTAAGGTC
*
640967 CAAATCTAAGTTAAGGTC
1 CAAATCCAAGTTAAGGTC
640985 CAAATCCAAGTTAAGGTC
1 CAAATCCAAGTTAAGGTC
641003 CA
1 CA
641005 GCAAAGAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.21
Consensus pattern (18 bp):
CAAATCCAAGTTAAGGTC
Found at i:641505 original size:21 final size:20
Alignment explanation
Indices: 641458--641508 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
641448 CTAAGGGTGG
* *
641458 ATATCGATACTGGAGGGACT
1 ATATCGATACTGAAGGGACA
*
641478 GTATCGATACTGAAGGGATCA
1 ATATCGATACTGAAGGGA-CA
641499 ATATCGATAC
1 ATATCGATAC
641509 CCTCATGCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (20 bp):
ATATCGATACTGAAGGGACA
Found at i:641854 original size:2 final size:2
Alignment explanation
Indices: 641847--641873 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
641837 ACGATAAATG
641847 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 T
641874 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:641878 original size:2 final size:2
Alignment explanation
Indices: 641873--641949 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
641863 TATATATATA
641873 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
641915 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
641950 ATAGTGATAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:644967 original size:42 final size:42
Alignment explanation
Indices: 644877--644958 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
644867 TTTAGCGGCA
* * * ** *
644877 ATTTTCATACAAATGTTGCTATTAGTTATGATATATAGTGGC
1 ATTTTTATGCAAATGCTGCTAAGAGTCATGATATATAGTGGC
644919 ATTTTTATGCAAATGCTGCTAAGAGTCATGATATATAGTG
1 ATTTTTATGCAAATGCTGCTAAGAGTCATGATATATAGTG
644959 TTTTTTTTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (42 bp):
ATTTTTATGCAAATGCTGCTAAGAGTCATGATATATAGTGGC
Found at i:646786 original size:24 final size:24
Alignment explanation
Indices: 646754--646799 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
646744 TCTTCCAGAT
646754 GATGTATAAAACATCTACGTACAC
1 GATGTATAAAACATCTACGTACAC
*
646778 GATGTATAAAACATCTATGTAC
1 GATGTATAAAACATCTACGTAC
646800 CATATCATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (24 bp):
GATGTATAAAACATCTACGTACAC
Found at i:650116 original size:15 final size:15
Alignment explanation
Indices: 650093--650134 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
650083 CCGTAAGTTT
650093 TTCATTATCTAACCC
1 TTCATTATCTAACCC
*
650108 TTTATTATCTAACCC
1 TTCATTATCTAACCC
650123 TTCATTATCTAA
1 TTCATTATCTAA
650135 TCCTAATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (15 bp):
TTCATTATCTAACCC
Found at i:655011 original size:58 final size:58
Alignment explanation
Indices: 654942--655114 Score: 301
Period size: 58 Copynumber: 3.0 Consensus size: 58
654932 CATTAGTTTC
654942 AATGCCTCTTGTTCCTTTTGGAACCCATACTTGTCTAATTTTAAATCGTTTTCCTTTA
1 AATGCCTCTTGTTCCTTTTGGAACCCATACTTGTCTAATTTTAAATCGTTTTCCTTTA
* *
655000 AATGCCTCTTGTTTCTTTTGGAACCCATATTTGTCTAATTTTAAATCGTTTTCCTTTA
1 AATGCCTCTTGTTCCTTTTGGAACCCATACTTGTCTAATTTTAAATCGTTTTCCTTTA
* * *
655058 AATGCCTCTTGTTCTTTTTGGAACCCATACTTGTCTACTTTTAAATTGTTTTCCTTT
1 AATGCCTCTTGTTCCTTTTGGAACCCATACTTGTCTAATTTTAAATCGTTTTCCTTT
655115 CTTTAAAGGA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 108 1.00
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.49
Consensus pattern (58 bp):
AATGCCTCTTGTTCCTTTTGGAACCCATACTTGTCTAATTTTAAATCGTTTTCCTTTA
Found at i:659409 original size:21 final size:21
Alignment explanation
Indices: 659383--659425 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
659373 CAGGTAAATT
659383 ACAAGCAACAATACCTGCAAG
1 ACAAGCAACAATACCTGCAAG
659404 ACAAGCAACAATACCTGCAAG
1 ACAAGCAACAATACCTGCAAG
659425 A
1 A
659426 TTCACACTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (21 bp):
ACAAGCAACAATACCTGCAAG
Found at i:663043 original size:29 final size:30
Alignment explanation
Indices: 663003--663059 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
662993 AACATATGTA
*
663003 TTTGTTTCCAGTTT-AGTGTCTCACGTTTAT
1 TTTGTTTCCAGTTTGA-TGTCTAACGTTTAT
663033 TTTG-TTCCAGTTTGATGTCTAACGTTT
1 TTTGTTTCCAGTTTGATGTCTAACGTTT
663060 CATTCTGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.14, C:0.16, G:0.18, T:0.53
Consensus pattern (30 bp):
TTTGTTTCCAGTTTGATGTCTAACGTTTAT
Found at i:663741 original size:29 final size:30
Alignment explanation
Indices: 663695--663756 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
663685 CTAAATGTGT
*
663695 AACGGAATGAAACATTAGGCACCAAACTAG
1 AACGAAATGAAACATTAGGCACCAAACTAG
* *
663725 AACGAAAT-AAACTTTAGGCACTAAACTAG
1 AACGAAATGAAACATTAGGCACCAAACTAG
663754 AAC
1 AAC
663757 CAAAGACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.48, C:0.19, G:0.16, T:0.16
Consensus pattern (30 bp):
AACGAAATGAAACATTAGGCACCAAACTAG
Found at i:665813 original size:3 final size:3
Alignment explanation
Indices: 665807--665865 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
665797 AATTATTTAA
665807 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
665855 AAT AAT AAT AA
1 AAT AAT AAT AA
665866 AGGTGGGAAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:669530 original size:29 final size:30
Alignment explanation
Indices: 669490--669546 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
669480 AACATATGTA
669490 TTTGTTTCCAGTTT-ATTGCCTAACGTTTAT
1 TTTGTTTCCAGTTTGA-TGCCTAACGTTTAT
*
669520 TTTG-TTCCAGTTTGATGTCTAACGTTT
1 TTTGTTTCCAGTTTGATGCCTAACGTTT
669547 CATTCTGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (30 bp):
TTTGTTTCCAGTTTGATGCCTAACGTTTAT
Found at i:670078 original size:2 final size:2
Alignment explanation
Indices: 670071--670128 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
670061 TGTTTTCTTT
670071 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
670111 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
670129 ATTTTTTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 52 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:670659 original size:44 final size:38
Alignment explanation
Indices: 670569--670645 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
670559 AAACATTTTA
670569 GATCTTTATCAATTTAACTTAAATAAAATTAAAATTAT
1 GATCTTTATCAATTTAACTTAAATAAAATTAAAATTAT
670607 GATCTTTATCAATTTAACTTAAATAAAATTAAAATTAT
1 GATCTTTATCAATTTAACTTAAATAAAATTAAAATTAT
670645 G
1 G
670646 TAACAATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.42
Consensus pattern (38 bp):
GATCTTTATCAATTTAACTTAAATAAAATTAAAATTAT
Found at i:672384 original size:3 final size:3
Alignment explanation
Indices: 672378--672431 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
672368 AATTATTTAA
672378 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
672426 AAT AAT
1 AAT AAT
672432 GAATTCCATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:681761 original size:18 final size:19
Alignment explanation
Indices: 681735--681803 Score: 70
Period size: 18 Copynumber: 3.6 Consensus size: 19
681725 CCTAATTTTG
*
681735 GTATTGATACTCAATCA-A
1 GTATCGATACTCAATCAGA
*
681753 GTATCGATACTCCAACACCAGA
1 GTATCGATACT-C-A-ATCAGA
*
681775 GTATCGATACTCAGT-AGA
1 GTATCGATACTCAATCAGA
681793 GTATCGATACT
1 GTATCGATACT
681804 ACCTTACCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 24 0.56
19 1 0.02
20 2 0.05
21 4 0.09
22 12 0.28
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (19 bp):
GTATCGATACTCAATCAGA
Found at i:684209 original size:194 final size:193
Alignment explanation
Indices: 683847--684238 Score: 446
Period size: 194 Copynumber: 2.0 Consensus size: 193
683837 CGAACAGAAA
* * *
683847 ATTGTCACATTGTTAGTAACATAGTATATCGTCACCTAATAGTAGCATGATTGACATTTATATAT
1 ATTGTCACATTGTTAGTAACATAATATATCGTCACCTAATAATAGCATGAATGACATTTATATAT
* * **
683912 AACGTCACTATATAATTAATATTCAATGACAACTAATTATGTCATTAAATTATGTAAAATTTCGT
66 AACGTCACTATATAATTAATATTCAATGACAACTAATTACGTCACTAAATTAAATAAAATTTCGT
* *** **
683977 TATTGATTATTTATAGCGTCATGGATAATACATTAAAATCAACCTATATGTGACGAAAGAGAT
131 TATTGATAATTTATAGCGTCACAAATAATACATTAAAATCAACCTATACATGACGAAAGAGAT
* * * ** *
684040 ATTGTCACATTTTTAGTGACATAATATAAAT-GTTACCTAATAATATTATGAATGACGTTTATGA
1 ATTGTCACATTGTTAGTAACATAATAT--ATCGTCACCTAATAATAGCATGAATGACATTTAT-A
* * * * ** ** *
684104 -ATAACGTCATTTTATAATTTATATTCTATGACAGTTGGTTACGTCACTAAATTAAATAAGATTT
63 TATAACGTCACTATATAATTAATATTCAATGACAACTAATTACGTCACTAAATTAAATAAAATTT
*** * *
684168 CGTTATTGATAATTTATATTTTCACAAATAATGCATTAAAATCAACTTATACATGACGAAAGAGA
128 CGTTATTGATAATTTATAGCGTCACAAATAATACATTAAAATCAACCTATACATGACGAAAGAGA
684233 T
193 T
684234 ATTGT
1 ATTGT
684239 AGCAAAACAA
Statistics
Matches: 163, Mismatches: 33, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
193 24 0.15
194 136 0.83
195 3 0.02
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (193 bp):
ATTGTCACATTGTTAGTAACATAATATATCGTCACCTAATAATAGCATGAATGACATTTATATAT
AACGTCACTATATAATTAATATTCAATGACAACTAATTACGTCACTAAATTAAATAAAATTTCGT
TATTGATAATTTATAGCGTCACAAATAATACATTAAAATCAACCTATACATGACGAAAGAGAT
Found at i:686362 original size:55 final size:54
Alignment explanation
Indices: 686176--686361 Score: 284
Period size: 54 Copynumber: 3.4 Consensus size: 54
686166 ATCGAATAAT
*
686176 AAAAGCAGCAACGTTTAACAAAATTTAAAAGAAAAAACTAACAATTATTTTGTA
1 AAAAGCAGCAACGTTTAGCAAAATTTAAAAGAAAAAACTAACAATTATTTTGTA
* *
686230 AAGAGTAGCAACGTTTAGCAAAATTTAAAAGAAAAAACTAACAATTATTTTGT-
1 AAAAGCAGCAACGTTTAGCAAAATTTAAAAGAAAAAACTAACAATTATTTTGTA
* *
686283 AAAAGACAGTAGCGTTTAGCAAAAATTTAAAAGAAAAAACTAACAATTATTTTGTA
1 AAAAG-CAGCAACGTTTAGC-AAAATTTAAAAGAAAAAACTAACAATTATTTTGTA
* *
686339 AAAAGCAACAACATTTAGCAAAA
1 AAAAGCAGCAACGTTTAGCAAAA
686362 AATCAGAAAT
Statistics
Matches: 118, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
53 4 0.03
54 65 0.55
55 44 0.37
56 5 0.04
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.25
Consensus pattern (54 bp):
AAAAGCAGCAACGTTTAGCAAAATTTAAAAGAAAAAACTAACAATTATTTTGTA
Found at i:690030 original size:21 final size:20
Alignment explanation
Indices: 689990--690031 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
689980 TCAACTTACA
*
689990 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
690010 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
690031 A
1 A
690032 GTTGTATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:695153 original size:20 final size:19
Alignment explanation
Indices: 695108--695155 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
695098 ATCAATCTCA
*
695108 ATAATTTTAATATAAAAAT
1 ATAATTTTTATATAAAAAT
* * *
695127 TTTATTTTTATTTAAATAAT
1 ATAATTTTTATATAAA-AAT
695147 ATAATTTTT
1 ATAATTTTT
695156 TTTCAAGTAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATAATTTTTATATAAAAAT
Found at i:700072 original size:24 final size:24
Alignment explanation
Indices: 700044--700108 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
700034 AGGTAAAGGC
700044 CATGGACGAGGTGAAAGTCGCGGT
1 CATGGACGAGGTGAAAGTCGCGGT
*
700068 TATGGACGAGGTGAAAGTCGCGGT
1 CATGGACGAGGTGAAAGTCGCGGT
*
700092 CGTGGACGAGGTTGAAA
1 CATGGACGAGG-TGAAA
700109 TTACAACAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
24 32 0.86
25 5 0.14
ACGTcount: A:0.26, C:0.14, G:0.42, T:0.18
Consensus pattern (24 bp):
CATGGACGAGGTGAAAGTCGCGGT
Found at i:710439 original size:2 final size:2
Alignment explanation
Indices: 710427--710531 Score: 93
Period size: 2 Copynumber: 55.5 Consensus size: 2
710417 GTATATCAGG
* * *
710427 TA TA TA T- TA TA TA -A GTT TA TT TA TA T- TA TCA TA TA TA T- TC
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA T-A TA TA TA TA TA
710467 TA TA -A TA -A T- TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
710507 TA -A TA -A TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
710532 TTGGAATAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
1 9 0.10
2 73 0.85
3 4 0.05
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:710539 original size:28 final size:28
Alignment explanation
Indices: 710484--710542 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
710474 ATTAGTATAT
*
710484 ATATATATATATATATATATATATAATA
1 ATATATATATATATATATATATAGAATA
* *
710512 ATATATATATATATATATATTTGGAATA
1 ATATATATATATATATATATATAGAATA
710540 ATA
1 ATA
710543 ACGTCGGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (28 bp):
ATATATATATATATATATATATAGAATA
Found at i:716193 original size:12 final size:12
Alignment explanation
Indices: 716165--716202 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
716155 TAGGTATATA
716165 TTATTATATTA-
1 TTATTATATTAT
716176 -TATTATATTAT
1 TTATTATATTAT
*
716187 TTATTATTTTAT
1 TTATTATATTAT
716199 TTAT
1 TTAT
716203 ATTTTCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 10 0.42
12 14 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTATATTAT
Found at i:719056 original size:32 final size:32
Alignment explanation
Indices: 718964--719079 Score: 144
Period size: 32 Copynumber: 3.6 Consensus size: 32
718954 TACTAATCAT
* * * *
718964 GTTTGCATTAATATAATGCACAGTATAGCCAT
1 GTTTGCATTCAGATAATGCACAGTATAGTCAG
* *
718996 GTTTGCATTCAGTTAATGCACATTATAGTCAG
1 GTTTGCATTCAGATAATGCACAGTATAGTCAG
*
719028 GTTTGCATTCAGATAATGCATAGTATAGTCAG
1 GTTTGCATTCAGATAATGCACAGTATAGTCAG
*
719060 GTTCGCATTC-GAATAATGCA
1 GTTTGCATTCAG-ATAATGCA
719080 ATGAGTATTA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
31 1 0.01
32 72 0.99
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (32 bp):
GTTTGCATTCAGATAATGCACAGTATAGTCAG
Found at i:721798 original size:12 final size:12
Alignment explanation
Indices: 721781--721824 Score: 88
Period size: 12 Copynumber: 3.7 Consensus size: 12
721771 CAATCCAGGC
721781 GACATACGGGGT
1 GACATACGGGGT
721793 GACATACGGGGT
1 GACATACGGGGT
721805 GACATACGGGGT
1 GACATACGGGGT
721817 GACATACG
1 GACATACG
721825 AGCCATACGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.27, C:0.18, G:0.39, T:0.16
Consensus pattern (12 bp):
GACATACGGGGT
Found at i:721939 original size:29 final size:29
Alignment explanation
Indices: 721889--721997 Score: 175
Period size: 29 Copynumber: 3.8 Consensus size: 29
721879 AGGAATAGAG
* *
721889 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
721918 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
*
721947 AGGTCGCCATGTAGTCCCGGTGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
721976 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCCGGCG
721998 CCATTCCCAT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 73 0.97
30 2 0.03
ACGTcount: A:0.15, C:0.30, G:0.32, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:722213 original size:25 final size:25
Alignment explanation
Indices: 722184--722235 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
722174 TGTACAATTA
722184 TTGGTGAAATAATTGAGACAACCGG
1 TTGGTGAAATAATTGAGACAACCGG
* *
722209 TTGGTGAAATAATTGAGGCAGCCGG
1 TTGGTGAAATAATTGAGACAACCGG
722234 TT
1 TT
722236 ATAAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (25 bp):
TTGGTGAAATAATTGAGACAACCGG
Found at i:722276 original size:23 final size:23
Alignment explanation
Indices: 722248--722293 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
722238 AAAAGAAAGA
722248 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
722271 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
722294 CTGAGAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.39, T:0.09
Consensus pattern (23 bp):
AAGAAAGGGAGAAGAGATTGCAG
Found at i:722308 original size:25 final size:23
Alignment explanation
Indices: 722248--722308 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
722238 AAAAGAAAGA
**
722248 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
**
722271 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
*
722294 CTGAGAAAGAAAGAA
1 --AAGAAAGAAAGAA
722309 AGGGAGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 23 0.70
25 10 0.30
ACGTcount: A:0.51, C:0.05, G:0.36, T:0.08
Consensus pattern (23 bp):
AAGAAAGAAAGAAGAGATTGCAG
Found at i:722596 original size:45 final size:45
Alignment explanation
Indices: 722493--722624 Score: 134
Period size: 45 Copynumber: 3.0 Consensus size: 45
722483 TACATAAATT
*
722493 AAAAATTATTTAATTAGTATATG-TTTG---ATAGTTA--TATAGTTA
1 AAAAATTATTTAATTAGT-T-TGTTTTGTTAATAGTTAGTTATA-TAA
*
722535 AAAAA-TAATTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
1 AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
*
722579 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAATTATTTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATAT
722625 TTGTTTGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
39 2 0.03
40 5 0.07
41 11 0.14
42 5 0.07
43 7 0.09
44 7 0.09
45 19 0.25
46 5 0.07
47 7 0.09
48 8 0.11
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (45 bp):
AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
Found at i:722819 original size:16 final size:16
Alignment explanation
Indices: 722787--722833 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
722777 TTTAAAAAGT
*
722787 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
722803 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
722819 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
722834 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:722828 original size:15 final size:14
Alignment explanation
Indices: 722808--722838 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
722798 GTTTATTAGT
722808 TTATTATATTATAAG
1 TTATTATATTA-AAG
722823 TTATTATATTAAAG
1 TTATTATATTAAAG
722837 TT
1 TT
722839 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:726609 original size:26 final size:24
Alignment explanation
Indices: 726551--726609 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
726541 CTAATAAACC
*
726551 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
726575 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
726603 TAATAAT
1 TAATAAT
726610 ATGATTTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:727456 original size:28 final size:30
Alignment explanation
Indices: 727416--727478 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
727406 ATTTTTTATA
*
727416 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
727446 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
727474 TAATA
1 TAATA
727479 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:727485 original size:28 final size:28
Alignment explanation
Indices: 727420--727485 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
727410 TTTATATAAT
*
727420 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
727448 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
727476 ATAATTTATA
1 ATAATATATA
727486 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:727488 original size:21 final size:21
Alignment explanation
Indices: 727455--727503 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
727445 CTAATATAAT
727455 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
727476 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
727497 ATTAACT
1 A-TAACT
727504 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:727967 original size:16 final size:16
Alignment explanation
Indices: 727946--728020 Score: 80
Period size: 17 Copynumber: 4.6 Consensus size: 16
727936 CAATGCACAG
727946 CATGCATCCCCTCCCC
1 CATGCATCCCCTCCCC
* *
727962 CATGCATTCCC-ACCC
1 CATGCATCCCCTCCCC
* * *
727977 CATGCATTCCCACGTCC
1 CATGCATCCCCTC-CCC
727994 CATGCATCCCCTCCCC
1 CATGCATCCCCTCCCC
728010 CATGCAATCCC
1 CATGC-ATCCC
728021 ACGTCCCATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
15 14 0.29
16 17 0.35
17 18 0.37
ACGTcount: A:0.17, C:0.55, G:0.08, T:0.20
Consensus pattern (16 bp):
CATGCATCCCCTCCCC
Found at i:727979 original size:15 final size:15
Alignment explanation
Indices: 727959--728022 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
727949 GCATCCCCTC
727959 CCCCATGCATTCCCA
1 CCCCATGCATTCCCA
727974 CCCCATGCATTCCCA
1 CCCCATGCATTCCCA
* *
727989 CGTCCCATGCATCCCCTC
1 C--CCCATGCATTCCC-A
*
728007 CCCCATGCAATCCCA
1 CCCCATGCATTCCCA
728022 C
1 C
728023 GTCCCATGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
15 17 0.41
16 11 0.27
17 12 0.29
18 1 0.02
ACGTcount: A:0.19, C:0.55, G:0.08, T:0.19
Consensus pattern (15 bp):
CCCCATGCATTCCCA
Found at i:727997 original size:17 final size:16
Alignment explanation
Indices: 727946--728030 Score: 82
Period size: 16 Copynumber: 5.2 Consensus size: 16
727936 CAATGCACAG
* * *
727946 CATGCATCCCCTCCCC
1 CATGCATTCCCACTCC
727962 CATGCATTCCCAC-CC
1 CATGCATTCCCACTCC
727977 CATGCATTCCCACGTCC
1 CATGCATTCCCAC-TCC
* * *
727994 CATGCATCCCCTCCCC
1 CATGCATTCCCACTCC
*
728010 CATGCAATCCCACGTCC
1 CATGCATTCCCAC-TCC
728027 CATG
1 CATG
728031 TTGATTGCAT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
15 15 0.26
16 23 0.40
17 19 0.33
ACGTcount: A:0.18, C:0.53, G:0.09, T:0.20
Consensus pattern (16 bp):
CATGCATTCCCACTCC
Found at i:728015 original size:33 final size:32
Alignment explanation
Indices: 727960--728030 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 32
727950 CATCCCCTCC
* *
727960 CCCATGCATTCCCACCCCATGCATTCCCACGT
1 CCCATGCATCCCCACCCCATGCAATCCCACGT
*
727992 CCCATGCATCCCCTCCCCCATGCAATCCCACGT
1 CCCATGCATCCCC-ACCCCATGCAATCCCACGT
728025 CCCATG
1 CCCATG
728031 TTGATTGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 12 0.34
33 23 0.66
ACGTcount: A:0.18, C:0.52, G:0.10, T:0.20
Consensus pattern (32 bp):
CCCATGCATCCCCACCCCATGCAATCCCACGT
Found at i:728112 original size:29 final size:29
Alignment explanation
Indices: 728070--728159 Score: 171
Period size: 29 Copynumber: 3.1 Consensus size: 29
728060 AAATACACAC
*
728070 AGGTCGCCCGGATGCCATGGCGACCTCTA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
728099 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
728128 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
728157 AGG
1 AGG
728160 CCACTGTAGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:729111 original size:2 final size:2
Alignment explanation
Indices: 729104--729146 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
729094 TTTTCTGAAC
729104 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
729146 A
1 A
729147 ATTTATTACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:730865 original size:21 final size:23
Alignment explanation
Indices: 730825--730872 Score: 73
Period size: 21 Copynumber: 2.1 Consensus size: 23
730815 CTTCTGCTCA
730825 CTTACTTTTTGATATTCTATATTT
1 CTTACTTTTT-ATATTCTATATTT
730849 CTTACTTTTT-T-TTCTATATTT
1 CTTACTTTTTATATTCTATATTT
730870 CTT
1 CTT
730873 TATTAACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 13 0.54
22 1 0.04
24 10 0.42
ACGTcount: A:0.17, C:0.15, G:0.02, T:0.67
Consensus pattern (23 bp):
CTTACTTTTTATATTCTATATTT
Found at i:734252 original size:3 final size:3
Alignment explanation
Indices: 734244--734329 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
734234 TTTTTATCCA
* *
734244 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
734292 TAT TAT TAT TAT TAT TAT TAT TTT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
734330 AATATATTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:748353 original size:52 final size:52
Alignment explanation
Indices: 748290--748504 Score: 403
Period size: 52 Copynumber: 4.1 Consensus size: 52
748280 GAACAAATGA
*
748290 ACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGTTTGG
1 ACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
*
748342 ACAGAAAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
1 ACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
*
748394 ACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGTTTGG
1 ACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
748446 ACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
1 ACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
748498 ACAGAAC
1 ACAGAAC
748505 TAATCATTGA
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 158 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (52 bp):
ACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
Found at i:748571 original size:84 final size:84
Alignment explanation
Indices: 748453--748680 Score: 402
Period size: 84 Copynumber: 2.7 Consensus size: 84
748443 TGGACAGAAC
* *
748453 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACTAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAAT
748518 TAGAAGATGAATGTGCTCA
66 TAGAAGATGAATGTGCTCA
748537 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAAT
748602 TAGAAGATGAATGTGCTCA
66 TAGAAGATGAATGTGCTCA
** * *
748621 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGAAGTACAGAAACAATCATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATT
748681 CGAATCAAAA
Statistics
Matches: 138, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 138 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (84 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAAT
TAGAAGATGAATGTGCTCA
Found at i:749594 original size:113 final size:113
Alignment explanation
Indices: 749418--750172 Score: 1341
Period size: 113 Copynumber: 6.7 Consensus size: 113
749408 TGCAAGGTAG
* *
749418 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAAAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* ** *
749483 AACCTTTTACTTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
66 AACTTTTTGTTTAAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
749531 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
749596 AACTTTTTGTTTAAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
66 AACTTTTTGTTTAAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
*
749644 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
749709 AACTTTTTGTTTAAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
66 AACTTTTTGTTTAAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
749757 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
749822 AACTTTTTGTTTAAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
66 AACTTTTTGTTTAAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
749870 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
749935 AACTTTTTGTTTAAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
66 AACTTTTTGTTTAAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
*
749983 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAGGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * * *
750048 AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCTAGAGAA
66 AACTTTTTGTTTAAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
* *
750096 AGTTCATGAATGAAAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
750161 CAAC-CTTTGTTT
65 CAACTTTTTGTTT
750173 GATATTATCT
Statistics
Matches: 622, Mismatches: 19, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
113 564 0.91
114 58 0.09
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTTGTTTAAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
Found at i:750470 original size:3 final size:3
Alignment explanation
Indices: 750462--750565 Score: 154
Period size: 3 Copynumber: 34.7 Consensus size: 3
750452 TTTTTATCCA
* * *
750462 TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
750510 TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
750558 TAT TAT TA
1 TAT TAT TA
750566 AATATATTAA
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:753844 original size:19 final size:19
Alignment explanation
Indices: 753820--753880 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
753810 AAATCGAAAC
753820 CGGTTTTTTCGGTTCGGTT
1 CGGTTTTTTCGGTTCGGTT
* *
753839 CGGTTTTTT---TAACTGTT
1 CGGTTTTTTCGGT-TCGGTT
*
753856 CGGGTTTTTCGGTTCGGTT
1 CGGTTTTTTCGGTTCGGTT
753875 CGGTTT
1 CGGTTT
753881 ATCGGTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 1 0.03
17 12 0.38
19 18 0.56
20 1 0.03
ACGTcount: A:0.03, C:0.15, G:0.30, T:0.52
Consensus pattern (19 bp):
CGGTTTTTTCGGTTCGGTT
Found at i:753879 original size:18 final size:18
Alignment explanation
Indices: 753824--753887 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
753814 CGAAACCGGT
753824 TTTTTCGGTTCGGTTCGG
1 TTTTTCGGTTCGGTTCGG
*
753842 TTTTT---TTAACTGTTCGGG
1 TTTTTCGGTT--CGGTTC-GG
753860 TTTTTCGGTTCGGTTCGG
1 TTTTTCGGTTCGGTTCGG
*
753878 TTTATCGGTT
1 TTTTTCGGTT
753888 TTTCAATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
15 2 0.05
17 5 0.14
18 23 0.62
19 5 0.14
21 2 0.05
ACGTcount: A:0.05, C:0.14, G:0.28, T:0.53
Consensus pattern (18 bp):
TTTTTCGGTTCGGTTCGG
Found at i:756840 original size:182 final size:184
Alignment explanation
Indices: 756527--756896 Score: 502
Period size: 182 Copynumber: 2.0 Consensus size: 184
756517 TTCAAAAGAT
* * * * *
756527 AAAACTCATTTTACCATTCAAACTTAAATATATATTATTTTAATTTAAAATATATAAAAGTATAT
1 AAAACTCATTTTACCATTAAAACTTAAACACATAATATTTTAATTTAAAATATACAAAAGTATAT
* * *
756592 AATTATCTTTAATATTGAAAGTTAAAAAAGTAAAAAATATCTTTTTAAGTTGACATATTCAAAGA
66 AATTATCTTTAATATTGAAAATTAAAAAAGTAAAAAATACCTTTTTAAGTTGACATATTAAAAGA
756657 GTAA-TATCCTACTAATATTCAAATTAAATAA-TATA-TTTAATTTAG-AATGGTC
131 GTAATTATCCTACTAATATTCAAATTAAA-AATTATATTTTAATTT-GCAATGGTC
* *
756709 AAAACTCATTTTACTATTAAAACTTAAACACATAATATTTTAATTTGAAATATACAAAAGTATAT
1 AAAACTCATTTTACCATTAAAACTTAAACACATAATATTTTAATTTAAAATATACAAAAGTATAT
* * *
756774 AATTATCTTTTAATATTTAAAATT-AAAAAG-ATACAAATACCTTTTATAA-TTGACTTATTAAA
66 AATTATC-TTTAATATTGAAAATTAAAAAAGTA-AAAAATACCTTTT-TAAGTTGACATATTAAA
* * *
756836 AGAGTAATTTTTCTACTAATATTCAAATTAAAAATTATATTTTAATTTGCAATTGTC
128 AGAGTAATTATCCTACTAATATTCAAATTAAAAATTATATTTTAATTTGCAATGGTC
756893 AAAA
1 AAAA
756897 TGCCTATGAA
Statistics
Matches: 165, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
181 1 0.01
182 102 0.62
183 44 0.27
184 18 0.11
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (184 bp):
AAAACTCATTTTACCATTAAAACTTAAACACATAATATTTTAATTTAAAATATACAAAAGTATAT
AATTATCTTTAATATTGAAAATTAAAAAAGTAAAAAATACCTTTTTAAGTTGACATATTAAAAGA
GTAATTATCCTACTAATATTCAAATTAAAAATTATATTTTAATTTGCAATGGTC
Found at i:761977 original size:2 final size:2
Alignment explanation
Indices: 761970--762036 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
761960 AGATGACTAA
761970 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
762012 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
762037 ATTAAGAAAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:768850 original size:6 final size:6
Alignment explanation
Indices: 768839--768864 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
768829 TTTAATATTT
768839 AAACCG AAACCG AAACCG AAACCG AA
1 AAACCG AAACCG AAACCG AAACCG AA
768865 TAGTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.31, G:0.15, T:0.00
Consensus pattern (6 bp):
AAACCG
Found at i:769465 original size:16 final size:16
Alignment explanation
Indices: 769444--769519 Score: 127
Period size: 16 Copynumber: 4.8 Consensus size: 16
769434 AATTGAACTA
*
769444 AAAGCAACCCGAATCT
1 AAAGCAACCCGAATCG
*
769460 AAAGCAA-CCGAATCA
1 AAAGCAACCCGAATCG
769475 AAAGCAACCCGAATCG
1 AAAGCAACCCGAATCG
769491 AAAGCAACCCGAATCG
1 AAAGCAACCCGAATCG
769507 AAAGCAACCCGAA
1 AAAGCAACCCGAA
769520 CCAAACGTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
15 14 0.25
16 43 0.75
ACGTcount: A:0.47, C:0.30, G:0.16, T:0.07
Consensus pattern (16 bp):
AAAGCAACCCGAATCG
Found at i:769481 original size:31 final size:32
Alignment explanation
Indices: 769443--769519 Score: 129
Period size: 31 Copynumber: 2.4 Consensus size: 32
769433 TAATTGAACT
*
769443 AAAAGCAACCCGAATCTAAAGCAA-CCGAATC
1 AAAAGCAACCCGAATCGAAAGCAACCCGAATC
769474 AAAAGCAACCCGAATCGAAAGCAACCCGAATC
1 AAAAGCAACCCGAATCGAAAGCAACCCGAATC
*
769506 GAAAGCAACCCGAA
1 AAAAGCAACCCGAA
769520 CCAAACGTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
31 23 0.53
32 20 0.47
ACGTcount: A:0.48, C:0.30, G:0.16, T:0.06
Consensus pattern (32 bp):
AAAAGCAACCCGAATCGAAAGCAACCCGAATC
Found at i:770902 original size:20 final size:20
Alignment explanation
Indices: 770879--770917 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
770869 GAAAAACAGT
770879 AAAGAGATAATAAA-AAATAG
1 AAAGAGA-AATAAACAAATAG
*
770899 AAAGATAAATAAACAAATA
1 AAAGAGAAATAAACAAATA
770918 TATAGAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (20 bp):
AAAGAGAAATAAACAAATAG
Found at i:770964 original size:23 final size:25
Alignment explanation
Indices: 770929--770991 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
770919 ATAGAAGAAA
770929 AAATAAA-ATAAAAAA-T-TAAAA-C
1 AAATAAAGA-AAAAAAGTATAAAAGC
770951 ATAATAAAGAAAAAAAGTATAAAAGC
1 A-AATAAAGAAAAAAAGTATAAAAGC
770977 AAA-AAAGCAAAAAAA
1 AAATAAAG-AAAAAAA
770992 AAAAAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
22 1 0.03
23 12 0.34
24 6 0.17
25 14 0.40
26 2 0.06
ACGTcount: A:0.76, C:0.05, G:0.06, T:0.13
Consensus pattern (25 bp):
AAATAAAGAAAAAAAGTATAAAAGC
Found at i:771617 original size:18 final size:19
Alignment explanation
Indices: 771577--771619 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
771567 TTTTCTTTTC
*
771577 TTTTCTTTTTATCTTTATT
1 TTTTATTTTTATCTTTATT
771596 TTTTATTTTTATC-TTATT
1 TTTTATTTTTATCTTTATT
771614 TTTTAT
1 TTTTAT
771620 CTACTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTTTATCTTTATT
Found at i:773725 original size:31 final size:31
Alignment explanation
Indices: 773684--773770 Score: 158
Period size: 31 Copynumber: 2.8 Consensus size: 31
773674 GTCTTTGAAC
773684 TTTTT-CAAAGTTTATACTTTAGTCACCAAA
1 TTTTTCCAAAGTTTATACTTTAGTCACCAAA
773714 TTTTTCCAAAGTTTATACTTTAGTCACCAAA
1 TTTTTCCAAAGTTTATACTTTAGTCACCAAA
*
773745 TTTTTCCAAAGTTTATACTTTGGTCA
1 TTTTTCCAAAGTTTATACTTTAGTCA
773771 TTTAACTTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.09
31 50 0.91
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (31 bp):
TTTTTCCAAAGTTTATACTTTAGTCACCAAA
Found at i:779659 original size:30 final size:31
Alignment explanation
Indices: 779590--779657 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
779580 TAACTATTCA
*
779590 CAACTTTTCAAAAATTACCAAATTGGTCTCC
1 CAACTTTTCAAAAATTACCAAAATGGTCTCC
*
779621 TAACTTTTCAAAAATTA-CAAAATGGTC-CC
1 CAACTTTTCAAAAATTACCAAAATGGTCTCC
*
779650 CAATTTTT
1 CAACTTTT
779658 TCTAAGGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 8 0.24
30 9 0.27
31 16 0.48
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (31 bp):
CAACTTTTCAAAAATTACCAAAATGGTCTCC
Found at i:782219 original size:31 final size:31
Alignment explanation
Indices: 782152--782211 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
782142 CAATTTAAGG
*
782152 CAAAATGGTTTTTAGACTTGAATTGAATTTA
1 CAAAATGGTATTTAGACTTGAATTGAATTTA
*
782183 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTAGACTTGAATTGAATTTA
782212 TTCAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 10 0.37
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTAGACTTGAATTGAATTTA
Found at i:783455 original size:21 final size:21
Alignment explanation
Indices: 783429--783470 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
783419 ATTTGAATAT
783429 TATGAAGGGGTA-TCGATTCCC
1 TATGAAGGGGTACT-GATTCCC
783450 TATGAAGGGGTACTGATTCCC
1 TATGAAGGGGTACTGATTCCC
783471 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (21 bp):
TATGAAGGGGTACTGATTCCC
Found at i:784623 original size:632 final size:634
Alignment explanation
Indices: 783503--784671 Score: 1923
Period size: 632 Copynumber: 1.8 Consensus size: 634
783493 TGCAGAAAAA
* * ** *
783503 TCATTCCCAAACGGTTCCAAAACATCCCCAACGGCTAGATATGACTTCAAACACATTCCAAGCTA
1 TCATCCCCAAACGGCTCCAAAACATCCCCAACAACTAGATACGACTTCAAACACATTCCAAGCTA
*
783568 TAAATACAACCTAAGGACACTTGAAGAAGTAAGAGAACAATTATCCAAGCAATCAAACACAAGAG
66 TAAATACAACCTAAGGACACTTGAAGAAGTAAGAGAACAACTATCCAAGCAATCAAACACAAGAG
*
783633 AAGAGTTTTTCAATCTTATTTCATCTTTCTCTTGTAAATATTTTGTTCTTGAGAGCTCAATCTTG
131 AAGAGTTTTTCAATCTTATTTCATCTTTCTCTTGTAAATATTTTATTCTTGAGAGCTCAATCTTG
* *
783698 TAAACACCTACCTTAGAGAGGTTTTCTTGTTTACATTTCTTATCCTTTTGTAAAGGGGAAAGGTT
196 TAAACACCTACCTTAGAGAGGTTTTCTTGTTTACATTTCTTATCATTTTGTAAAGGGGAAAGATT
*
783763 CTAGCTTAGCCCGTGTAAAAGCCCGGAAAAACTAGGGAGTTTGTAAGGTTACTCTTTATCCTCAA
261 CTAGCTT---CC------AAGCCCAGAAAAACTAGGGAGTTTGTAAGGTTACTCTTTATCCTCAA
783828 AAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCTTGGTGAGGAGCTAAGGTAGTGGACGTAG
317 AAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCTTGGTGAGGAGCTAAGGTAGTGGACGTAG
* *
783893 ACTTTGATTGAGAAAGTCGAACCACTATAAATCGCTGTGCAATTCTCTATCTTTCAATCTCCTTA
382 ACTTTGATTGAGAAAGTCAAACCACTATAAATCGCTGTGCAATTCCCTATCTTTCAATCTCCTTA
*
783958 CTCCCTAAACACAAAACCGTTCCGACCCCTCTTTGCAAACCGTTCCGGTTGTCGATTCGAGCTTC
447 CTCCCTAAACACAAAACCATTCCGACCCCTCTTTGCAAACCGTTCCGGTTGTCGATTCGAGCTTC
784023 CGAAAATCCCAACAATTCCCCTCGTGTAACGATCGAAATATTTGAATTTTACACTGCAGGAACCG
512 CGAAAATCCCAACAATTCCCCTCGTGTAACGATCGAAATATTTGAATTTTACACTGCAGGAACCG
784088 ATTCCCTATGAGGGGGTACCGATTCCCCCACGCTCCAAGCTGTTTTATTAATTGATTC
577 ATTCCCTATGAGGGGGTACCGATTCCCCCACGCTCCAAGCTGTTTTATTAATTGATTC
*
784146 TCATCCCCAAACGGCTCCAAAACATCCCCAACAACTATATACGACTTCAAACACATTCCAAGCTA
1 TCATCCCCAAACGGCTCCAAAACATCCCCAACAACTAGATACGACTTCAAACACATTCCAAGCTA
* *
784211 TAAATACAAGCTAAGGACACTTGAAGAAGTAAGAGAACAACTATCCAAGTAATCAAACACAAGAG
66 TAAATACAACCTAAGGACACTTGAAGAAGTAAGAGAACAACTATCCAAGCAATCAAACACAAGAG
* * * *
784276 AAGAGTTTTTCATTCTTATTTCATCTTTCTCTTTTAAATATTTTATTCTTGTGAGCTTAATTCTT
131 AAGAGTTTTTCAATCTTATTTCATCTTTCTCTTGTAAATATTTTATTCTTGAGAGCTCAA-TCTT
784341 GTAAACACCTACCTTAGAGAGGTTTTCTTGTTTACATTTCTTATCATTTTGTAAAGGGGAAAGAT
195 GTAAACACCTACCTTAGAGAGGTTTTCTTGTTTACATTTCTTATCATTTTGTAAAGGGGAAAGAT
* * * *
784406 TCTAG-TT-C-AGCTCAGAAAAACTAGGGAG-TTGTAAGGTTATCTCTTTGTCCTCAAAATAGAG
260 TCTAGCTTCCAAGCCCAGAAAAACTAGGGAGTTTGTAAGGTTA-CTCTTTATCCTCAAAAGAAAG
* *
784467 AATAAATTAGTGAATTTGTTGGAAAATCCTTGGTGAGGAGCTAAGGTAGTGGACGTAGACTTTGG
324 AACAAATTAGTGAATTTGTTGGAAAATCCTTGGTGAGGAGCTAAGGTAGTGGACGTAGACTTTGA
*
784532 TTGAGAAAGTCAAACCACTATAAATTGCTGTGCAATTCCCTATCTTTCAATCTCCTTACTCCCTA
389 TTGAGAAAGTCAAACCACTATAAATCGCTGTGCAATTCCCTATCTTTCAATCTCCTTACTCCCTA
* * * *
784597 AACACAAAACCATTCCGACTCCTCTTTGCAAACTGTTCTGGTTGTCGATTCGAGCTTCCGAAAGT
454 AACACAAAACCATTCCGACCCCTCTTTGCAAACCGTTCCGGTTGTCGATTCGAGCTTCCGAAAAT
*
784662 CCTAACAATT
519 CCCAACAATT
784672 GGCATCAGAG
Statistics
Matches: 492, Mismatches: 32, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
631 11 0.02
632 230 0.47
639 1 0.00
643 178 0.36
644 72 0.15
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (634 bp):
TCATCCCCAAACGGCTCCAAAACATCCCCAACAACTAGATACGACTTCAAACACATTCCAAGCTA
TAAATACAACCTAAGGACACTTGAAGAAGTAAGAGAACAACTATCCAAGCAATCAAACACAAGAG
AAGAGTTTTTCAATCTTATTTCATCTTTCTCTTGTAAATATTTTATTCTTGAGAGCTCAATCTTG
TAAACACCTACCTTAGAGAGGTTTTCTTGTTTACATTTCTTATCATTTTGTAAAGGGGAAAGATT
CTAGCTTCCAAGCCCAGAAAAACTAGGGAGTTTGTAAGGTTACTCTTTATCCTCAAAAGAAAGAA
CAAATTAGTGAATTTGTTGGAAAATCCTTGGTGAGGAGCTAAGGTAGTGGACGTAGACTTTGATT
GAGAAAGTCAAACCACTATAAATCGCTGTGCAATTCCCTATCTTTCAATCTCCTTACTCCCTAAA
CACAAAACCATTCCGACCCCTCTTTGCAAACCGTTCCGGTTGTCGATTCGAGCTTCCGAAAATCC
CAACAATTCCCCTCGTGTAACGATCGAAATATTTGAATTTTACACTGCAGGAACCGATTCCCTAT
GAGGGGGTACCGATTCCCCCACGCTCCAAGCTGTTTTATTAATTGATTC
Found at i:785325 original size:20 final size:19
Alignment explanation
Indices: 785291--785338 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
785281 AACGATTTTC
* *
785291 TTTTGAAAACAAAATTAGA
1 TTTTGAAAACAAAATAAAA
*
785310 TTTTGAAAGCCAAAATAAAA
1 TTTTGAAA-ACAAAATAAAA
785330 TTTTGAAAA
1 TTTTGAAAA
785339 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.31
Consensus pattern (19 bp):
TTTTGAAAACAAAATAAAA
Found at i:786405 original size:13 final size:13
Alignment explanation
Indices: 786387--786413 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
786377 AGTGTTAGAG
786387 TAAGGGGGAGTAA
1 TAAGGGGGAGTAA
786400 TAAGGGGGAGTAA
1 TAAGGGGGAGTAA
786413 T
1 T
786414 TTTTCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.44, T:0.19
Consensus pattern (13 bp):
TAAGGGGGAGTAA
Found at i:786584 original size:20 final size:20
Alignment explanation
Indices: 786545--786585 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
786535 TAAGTGTTAA
**
786545 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTACATAT
786565 TGAATTTTAAGATTACATAT
1 TGAATTTTAAGATTACATAT
786585 T
1 T
786586 CGATTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (20 bp):
TGAATTTTAAGATTACATAT
Found at i:786863 original size:35 final size:35
Alignment explanation
Indices: 786778--786914 Score: 222
Period size: 35 Copynumber: 3.9 Consensus size: 35
786768 ATTGCCCAGA
* *
786778 GGGAACAGATTCCCCCTA-GGGGTACCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTACCGATTCTCC
*
786812 GGGAATAGATTCCCCCCCAGGGGGTACCGATTCTCC
1 GGGAACAGATT-CCCCCCAGGGGGTACCGATTCTCC
786848 GGGAACAGATTCCCCCCAGGGGGTACCGATTCTCC
1 GGGAACAGATTCCCCCCAGGGGGTACCGATTCTCC
*
786883 GGGAACAGATTCCCCCCAGGGGGTACCCATTC
1 GGGAACAGATTCCCCCCAGGGGGTACCGATTC
786915 CCCCCCAGGT
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
34 10 0.10
35 61 0.64
36 25 0.26
ACGTcount: A:0.20, C:0.34, G:0.28, T:0.18
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCAGGGGGTACCGATTCTCC
Found at i:793527 original size:16 final size:16
Alignment explanation
Indices: 793502--793536 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
793492 GAAAATTTCA
793502 TTTTTTAATTTT-AAT
1 TTTTTTAATTTTAAAT
793517 TTTTTTCAATTTTAAAT
1 TTTTTT-AATTTTAAAT
793534 TTT
1 TTT
793537 AGTTATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 6 0.33
17 6 0.33
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTAATTTTAAAT
Found at i:798220 original size:3 final size:3
Alignment explanation
Indices: 798212--798281 Score: 74
Period size: 3 Copynumber: 24.0 Consensus size: 3
798202 CATTTTGTTT
** *
798212 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA ATA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
798257 TTA -TA TTA TTA TTA -AA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
798282 CAAACAGGCT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
2 5 0.09
3 47 0.85
4 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:799288 original size:27 final size:28
Alignment explanation
Indices: 799246--799311 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
799236 ATTACTAGTT
* *
799246 TTTTTATTTATAGTTTTA-ATTTCATTA
1 TTTTTAATTATTGTTTTATATTTCATTA
*
799273 TTTTTAATTATTGTTTTATATTTTATTA
1 TTTTTAATTATTGTTTTATATTTCATTA
*
799301 TTATT-ATTATT
1 TTTTTAATTATT
799312 ATGTATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 22 0.65
28 12 0.35
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.70
Consensus pattern (28 bp):
TTTTTAATTATTGTTTTATATTTCATTA
Found at i:805990 original size:31 final size:31
Alignment explanation
Indices: 805952--806010 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
805942 GCACATATAA
*
805952 AATCTGTCAACTCTGTAATTGATGAATTTAG
1 AATCTGTCAACTCTGCAATTGATGAATTTAG
805983 AATCTGTCAACTCTGCAATTGATGAATT
1 AATCTGTCAACTCTGCAATTGATGAATT
806011 CAGACCACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (31 bp):
AATCTGTCAACTCTGCAATTGATGAATTTAG
Found at i:808490 original size:22 final size:22
Alignment explanation
Indices: 808461--808515 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
808451 ATCTACACTC
808461 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
808483 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
808505 TTCAAAGATGA
1 TTCAAAGATGA
808516 AAGCTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:809300 original size:166 final size:166
Alignment explanation
Indices: 809026--809353 Score: 638
Period size: 166 Copynumber: 2.0 Consensus size: 166
809016 CACAAGAATG
*
809026 AGCATTATCTTGATATTGGGTCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
1 AGCATTATCTTGAGATTGGGTCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
809091 CAATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
66 CAATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
809156 TTCTTAGTTTTTTTACTTAGTAAACTATTTCCAAAC
131 TTCTTAGTTTTTTTACTTAGTAAACTATTTCCAAAC
809192 AGCATTATCTTGAGATTGGGTCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
1 AGCATTATCTTGAGATTGGGTCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
*
809257 CGATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
66 CAATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
809322 TTCTTAGTTTTTTTACTTAGTAAACTATTTCC
131 TTCTTAGTTTTTTTACTTAGTAAACTATTTCC
809354 CACATCCATA
Statistics
Matches: 160, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 160 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (166 bp):
AGCATTATCTTGAGATTGGGTCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
CAATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
TTCTTAGTTTTTTTACTTAGTAAACTATTTCCAAAC
Found at i:809513 original size:72 final size:72
Alignment explanation
Indices: 809396--810030 Score: 1092
Period size: 72 Copynumber: 8.8 Consensus size: 72
809386 TCAAATAAAA
809396 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
809461 ACAGAAC
66 ACAGAAC
* *
809468 TTTATCTCACTTGAGATTGTTTTTATTAAAATAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
809533 ACAGAAC
66 ACAGAAC
809540 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
*
809605 ACATAAC
66 ACAGAAC
*
809612 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTGTCTCGCTTGAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
*
809677 ACATAAC
66 ACAGAAC
* *
809684 TTTATCTCACTTGAGATTATTTTTCTTAAAACAAATTTGTCTCGTTTGAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
809749 ACAGAAC
66 ACAGAAC
809756 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
*
809821 ACAAAAC
66 ACAGAAC
*
809828 TTTATCTCACTTGAGATTGTTTTTCTTAAAATAAATTTTGTCTCGCTTGAGACAGTTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-TTTGTCTCGCTTGAGACAGTTTCACTCGA
*
809893 AACAGAAT
65 AACAGAAC
*
809901 TTTATCTCACTTGAGATTGTTTTTCTT-AAACAAATTTTGTCTCGCTTGAGACAGTTTCACTTGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-TTTGTCTCGCTTGAGACAGTTTCACTCGA
* *
809965 AACAAAAA
65 AACAGAAC
* *
809973 TTTATCTCACTTCAGATTGTTTTTCTTAAAACAAAGATTTGTCTCGCTTGAGATAGTT
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AA-ATTTGTCTCGCTTGAGACAGTT
810031 ATTTCGAGTT
Statistics
Matches: 537, Mismatches: 22, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
72 448 0.83
73 66 0.12
74 22 0.04
75 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (72 bp):
TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
ACAGAAC
Found at i:810390 original size:3 final size:3
Alignment explanation
Indices: 810382--810459 Score: 83
Period size: 3 Copynumber: 27.0 Consensus size: 3
810372 TTCCATTTTG
** *
810382 TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA ATA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
810427 TTA TTA -TA TTA -TA TTA TTA TTA -AA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
810460 CAAACAGGCC
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
2 7 0.11
3 52 0.84
4 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:810414 original size:24 final size:24
Alignment explanation
Indices: 810382--810459 Score: 99
Period size: 24 Copynumber: 3.2 Consensus size: 24
810372 TTCCATTTTG
810382 TTATTATTATTATTATTA-AAATTA
1 TTATTATTA-TATTATTATAAATTA
*
810406 TTATTATTAATATTA-TATATATTA
1 TTATTATT-ATATTATTATAAATTA
810430 TTA-TATTATATTATTATTAAATTA
1 TTATTATTATATTATTA-TAAATTA
810454 TTATTA
1 TTATTA
810460 CAAACAGGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.13
23 8 0.17
24 30 0.64
25 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTATTATATTATTATAAATTA
Found at i:811719 original size:25 final size:26
Alignment explanation
Indices: 811690--811745 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
811680 TATATATATA
* *
811690 ATAAATAAT-ATGTTTATTTATTTTT
1 ATAAATAATCATATTTATTTAATTTT
*
811715 ATAAA-AATCCTATTTATTTAATTTT
1 ATAAATAATCATATTTATTTAATTTT
811740 ATAAAT
1 ATAAAT
811746 TACTTTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (26 bp):
ATAAATAATCATATTTATTTAATTTT
Found at i:814405 original size:18 final size:18
Alignment explanation
Indices: 814382--814416 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
814372 TCGAGTCAAA
814382 TTTAGTATCGATACCCTG
1 TTTAGTATCGATACCCTG
*
814400 TTTAGTATCGGTACCCT
1 TTTAGTATCGATACCCT
814417 ATTTTGGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (18 bp):
TTTAGTATCGATACCCTG
Found at i:822129 original size:65 final size:64
Alignment explanation
Indices: 822058--822209 Score: 218
Period size: 65 Copynumber: 2.4 Consensus size: 64
822048 CTAAGGGTGT
* *
822058 ATCGATGCATAAAATGCATTCGATGTTT-CA-AACAAGCTTGGAGTGCATCGATGCATGGTCTGT
1 ATCGATGCATAAAATGCATTCGATGTTTCCATAA-AAGCCT-GAGTGCATCGATGCATGG-CAGT
822121 GC
63 GC
* * *
822123 ATCGATGCATGAAATGCATTCGATGTTTCCATAAAATCCTGAGTGCATCGATGTATGGCAGTGC
1 ATCGATGCATAAAATGCATTCGATGTTTCCATAAAAGCCTGAGTGCATCGATGCATGGCAGTGC
822187 ATCGATGCATAAAATGCATTCGA
1 ATCGATGCATAAAATGCATTCGA
822210 AATGGGTTGT
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
64 27 0.34
65 44 0.56
66 6 0.08
67 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (64 bp):
ATCGATGCATAAAATGCATTCGATGTTTCCATAAAAGCCTGAGTGCATCGATGCATGGCAGTGC
Found at i:824862 original size:23 final size:23
Alignment explanation
Indices: 824832--824914 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
824822 ATGCACTGCT
824832 GAGTGCATCGATGCACATTCAAG
1 GAGTGCATCGATGCACATTCAAG
* * *
824855 GAGTGCATCGGTGCACCTTC-AT
1 GAGTGCATCGATGCACATTCAAG
*
824877 G-GTGTATCGATGCACATTCATAG
1 GAGTGCATCGATGCACATTCA-AG
*
824900 GA-TGAATCGATGCAC
1 GAGTGCATCGATGCAC
824915 TGGATAGTGT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 32 0.65
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (23 bp):
GAGTGCATCGATGCACATTCAAG
Found at i:824888 original size:44 final size:43
Alignment explanation
Indices: 824818--824933 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 43
824808 CGATGCGTGT
* *
824818 ATCGATGCACTGC-TGAGTGCATCGATGCACATTCA-AGGAGTGC
1 ATCGATGCACTGCAT-AGTGTATCGATGCACATTCATAGGA-TGA
* * *
824861 ATCGGTGCACCTTCATGGTGTATCGATGCACATTCATAGGATGA
1 ATCGATGCA-CTGCATAGTGTATCGATGCACATTCATAGGATGA
*
824905 ATCGATGCACTGGATAGTGTATCGATGCA
1 ATCGATGCACTGCATAGTGTATCGATGCA
824934 TTATGCACAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
43 25 0.41
44 31 0.51
45 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (43 bp):
ATCGATGCACTGCATAGTGTATCGATGCACATTCATAGGATGA
Found at i:828787 original size:22 final size:21
Alignment explanation
Indices: 828745--828784 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
828735 AAGACTATTT
828745 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
828766 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
828785 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:830630 original size:21 final size:21
Alignment explanation
Indices: 830604--830660 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
830594 TGGGAGTGTG
830604 TGTGCATCGATGCATAGTTAA
1 TGTGCATCGATGCATAGTTAA
830625 TGTGCATCGATGCATAGTTAA
1 TGTGCATCGATGCATAGTTAA
*
830646 TGTGTATCGATGCAT
1 TGTGCATCGATGCAT
830661 CAAGTGTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (21 bp):
TGTGCATCGATGCATAGTTAA
Found at i:830833 original size:65 final size:65
Alignment explanation
Indices: 830720--830842 Score: 178
Period size: 65 Copynumber: 1.9 Consensus size: 65
830710 TGCACTAAGG
830720 GTGCATCGATGAATAAAATGCATTCGATGTTTCAAACAAGCCTGGAGTGCATCGATGCGTAGTCT
1 GTGCATCGATGAATAAAATGCATTCGATGTTTCAAACAAGCCTGGAGTGCATCGATGCGTAGTCT
* * **
830785 GTGCATCGATGCATGAAATGCATTCGATGTTTCCATAA-AATTCT-GAGTGCATCGATGC
1 GTGCATCGATGAATAAAATGCATTCGATGTTT-CA-AACAAGCCTGGAGTGCATCGATGC
830843 ATAAAATGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
65 44 0.85
66 6 0.12
67 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGAATAAAATGCATTCGATGTTTCAAACAAGCCTGGAGTGCATCGATGCGTAGTCT
Found at i:830914 original size:20 final size:20
Alignment explanation
Indices: 830866--830920 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
830856 GAAATGGGGT
* *
830866 GTGCATCGATACATCAATGA
1 GTGCATCGGTGCATCAATGA
830886 GTGCATCGGTGCATCAATGA
1 GTGCATCGGTGCATCAATGA
830906 GTGCATCGGTGCATC
1 GTGCATCGGTGCATC
830921 CCTTCACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (20 bp):
GTGCATCGGTGCATCAATGA
Found at i:836273 original size:3 final size:3
Alignment explanation
Indices: 836265--836295 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
836255 TGTAAAAAGA
*
836265 AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
836296 TTGTCTTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:840841 original size:15 final size:14
Alignment explanation
Indices: 840810--840848 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
840800 TGTTTCACTG
840810 AAAATAATTTATGA
1 AAAATAATTTATGA
840824 AAAATAAATTT-TGA
1 AAAAT-AATTTATGA
840838 AAAATAATTTA
1 AAAATAATTTA
840849 CATTTTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.22
14 13 0.57
15 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (14 bp):
AAAATAATTTATGA
Found at i:847622 original size:17 final size:18
Alignment explanation
Indices: 847586--847622 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
847576 TTCAGTTTTG
847586 AATAGTAAGTTGAAAATAA
1 AATAGTAAGTTG-AAATAA
847605 AATAGTAAGTTG-AATAA
1 AATAGTAAGTTGAAATAA
847622 A
1 A
847623 TGTCAACTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.57, C:0.00, G:0.16, T:0.27
Consensus pattern (18 bp):
AATAGTAAGTTGAAATAA
Found at i:848177 original size:21 final size:20
Alignment explanation
Indices: 848153--848194 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
848143 AGATAAAACC
*
848153 ACTAGTAAAGATTAAGGTAGT
1 ACTACTAAAGA-TAAGGTAGT
*
848174 ACTACTAAGGATAAGGTAGT
1 ACTACTAAAGATAAGGTAGT
848194 A
1 A
848195 GTGCAAGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (20 bp):
ACTACTAAAGATAAGGTAGT
Found at i:850903 original size:31 final size:31
Alignment explanation
Indices: 850865--850924 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
850855 AAGAGTTTGG
850865 GAGTTCCTAATAAGAATGACATATTGAATGA
1 GAGTTCCTAATAAGAATGACATATTGAATGA
* *
850896 GAGTTCCTAGTGAGAATGACATATTGAAT
1 GAGTTCCTAATAAGAATGACATATTGAAT
850925 TCACTGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (31 bp):
GAGTTCCTAATAAGAATGACATATTGAATGA
Done.