Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009084.1 Hibiscus syriacus cultivar Beakdansim tig00112528_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: 881682
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 4 of 4
Found at i:676108 original size:39 final size:39
Alignment explanation
Indices: 676065--676139 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
676055 AGTTAAATAT
* * *
676065 GAAGACTACACGACTGCATGGTGTCTTCAGGGAAATGAA
1 GAAGACTACACGACTACATGGCGTCTTCAGGCAAATGAA
* **
676104 GAAGATTTTACGACTACATGGCGTCTTCAGGCAAAT
1 GAAGACTACACGACTACATGGCGTCTTCAGGCAAAT
676140 TGAGAAAACC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (39 bp):
GAAGACTACACGACTACATGGCGTCTTCAGGCAAATGAA
Found at i:677768 original size:19 final size:19
Alignment explanation
Indices: 677746--677810 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
677736 ATTATGTTAG
677746 TTTTATTGTAATTTGTTCT
1 TTTTATTGTAATTTGTTCT
* **
677765 TTTTCATTCTGAAGGTTTGAGCT
1 TTTT-ATTGT-AA--TTTGTTCT
677788 TTTTATTGTAATTTGTTCT
1 TTTTATTGTAATTTGTTCT
677807 TTTT
1 TTTT
677811 CATTCTGAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 14 0.39
20 4 0.11
21 4 0.11
22 4 0.11
23 10 0.28
ACGTcount: A:0.15, C:0.08, G:0.14, T:0.63
Consensus pattern (19 bp):
TTTTATTGTAATTTGTTCT
Found at i:677789 original size:23 final size:23
Alignment explanation
Indices: 677763--677830 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
677753 GTAATTTGTT
677763 CTTTTTCATTCTGAAGGTTTGAG
1 CTTTTTCATTCTGAAGGTTTGAG
* **
677786 CTTTTT-ATTGT-AA--TTTGTT
1 CTTTTTCATTCTGAAGGTTTGAG
677805 CTTTTTCATTCTGAAGGTTTGAG
1 CTTTTTCATTCTGAAGGTTTGAG
677828 CTT
1 CTT
677831 AAATGGCGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 10 0.29
20 4 0.11
21 4 0.11
22 4 0.11
23 13 0.37
ACGTcount: A:0.16, C:0.12, G:0.18, T:0.54
Consensus pattern (23 bp):
CTTTTTCATTCTGAAGGTTTGAG
Found at i:677805 original size:42 final size:42
Alignment explanation
Indices: 677746--677830 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
677736 ATTATGTTAG
677746 TTTTATTGTAATTTGTTCTTTTTCATTCTGAAGGTTTGAGCT
1 TTTTATTGTAATTTGTTCTTTTTCATTCTGAAGGTTTGAGCT
677788 TTTTATTGTAATTTGTTCTTTTTCATTCTGAAGGTTTGAGCT
1 TTTTATTGTAATTTGTTCTTTTTCATTCTGAAGGTTTGAGCT
677830 T
1 T
677831 AAATGGCGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.58
Consensus pattern (42 bp):
TTTTATTGTAATTTGTTCTTTTTCATTCTGAAGGTTTGAGCT
Found at i:681114 original size:32 final size:34
Alignment explanation
Indices: 681073--681147 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 34
681063 AGTTATTAGA
*
681073 TTTTATATT-AAT-ATATTTATGTAAATATTATT
1 TTTTATATTAAATAATATTTATATAAATATTATT
* *
681105 TTTTTTATTAAAATAATATTTATATAATTATTATT
1 TTTTATATT-AAATAATATTTATATAAATATTATT
681140 TATTTATA
1 T-TTTATA
681148 ATTATTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 8 0.23
34 3 0.09
35 19 0.54
36 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (34 bp):
TTTTATATTAAATAATATTTATATAAATATTATT
Found at i:681308 original size:17 final size:17
Alignment explanation
Indices: 681286--681339 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
681276 AATGTTAATA
681286 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
681303 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
681320 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
681337 TTT
1 TTT
681340 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:682947 original size:21 final size:21
Alignment explanation
Indices: 682923--683033 Score: 125
Period size: 21 Copynumber: 5.3 Consensus size: 21
682913 CCATCTCCGT
*
682923 AGGGTTATATTCCGAGCCCGC
1 AGGGTTACATTCCGAGCCCGC
682944 AGGGTTACATTCCGAGCCCGC
1 AGGGTTACATTCCGAGCCCGC
* *
682965 AGTGTTACATTCCGATCCCGC
1 AGGGTTACATTCCGAGCCCGC
**
682986 AGGGTTACATTCCTTGCCCGCC
1 AGGGTTACATTCCGAGCCCG-C
* * * *
683008 A-GGTTAGATGCCTAGCCCGT
1 AGGGTTACATTCCGAGCCCGC
683028 AGGGTT
1 AGGGTT
683034 TTATACCATA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
20 1 0.01
21 74 0.96
22 2 0.03
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (21 bp):
AGGGTTACATTCCGAGCCCGC
Found at i:683656 original size:34 final size:34
Alignment explanation
Indices: 683551--683657 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
683541 ATAAATGTTT
*
683551 TTAAAATACAAATTATATTATTCAAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAAA
* * *
683585 TAAAAATAAAAATAATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAAA
* * *
683619 TTAAAATATAAATTATAGTATTCAAAATTTAACA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAAA
683653 TTAAA
1 TTAAA
683658 TTTTAACTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (34 bp):
TTAAAATAAAAATTATATTATTCAAAATTTAAAA
Found at i:684325 original size:128 final size:127
Alignment explanation
Indices: 684053--684340 Score: 470
Period size: 128 Copynumber: 2.3 Consensus size: 127
684043 GCAATCCATC
*
684053 TAGTGTCTCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCTCCGAGGGACATAAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
** * * * *
684118 GGAAGGCGCGCCCCGGGAACGTGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCAAGAACGCGCCTTCAAGTCCCCTAAAAAATAATAAGTACTGATATGAA
684180 TAGTGTCTCCGAGGGACATAAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCTCCGAGGGACATAAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
684245 GGAAGTCGCGTCCCCAAGAACGCGCCTTCAAGTCCCCTAAAAAATAATAAGTACTGATATGAA
66 GGAAGGCGCG-CCCCAAGAACGCGCCTTCAAGTCCCCTAAAAAATAATAAGTACTGATATGAA
*
684308 TAGTGTCCCCGAGGGACATGAA-TGACATAATAG
1 TAGTGTCTCCGAGGGACAT-AAGTGACATAATAG
684341 ATAATTCACT
Statistics
Matches: 150, Mismatches: 9, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
127 73 0.49
128 75 0.50
129 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (127 bp):
TAGTGTCTCCGAGGGACATAAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCAAGAACGCGCCTTCAAGTCCCCTAAAAAATAATAAGTACTGATATGAA
Found at i:693628 original size:14 final size:15
Alignment explanation
Indices: 693587--693630 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
693577 ATTGATTTTT
693587 TGAAAAATAAATTAC
1 TGAAAAATAAATTAC
** *
693602 TGAAATTTGAATT-C
1 TGAAAAATAAATTAC
693616 TGAAAAATAAATTAC
1 TGAAAAATAAATTAC
693631 ATTTATTAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (15 bp):
TGAAAAATAAATTAC
Found at i:694008 original size:23 final size:23
Alignment explanation
Indices: 693959--694009 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
693949 GTGTTATATT
**
693959 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
693982 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
694005 ATATT
1 ATATT
694010 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:694065 original size:19 final size:19
Alignment explanation
Indices: 693997--694065 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
693987 TTAAATATCT
*
693997 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATT-TA
**
694016 TTATTAGATTAATATTAACTA
1 TTATTA-A-TAATATTATTTA
*
694037 -TATAAATAATATTATTTA
1 TTATTAATAATATTATTTA
694055 TTATTAATAAT
1 TTATTAATAAT
694066 TTAATAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 10 0.26
19 16 0.41
20 5 0.13
21 1 0.03
22 7 0.18
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTTA
Found at i:694098 original size:27 final size:26
Alignment explanation
Indices: 694038--694102 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
694028 TATTAACTAT
* *
694038 ATAAATAATATTATTTATTATTAATA
1 ATAAATAATATTATTTACTATAAATA
*
694064 ATTTAATAATATTATTT-CTATGAAATTA
1 A-TAAATAATATTATTTACTAT-AAA-TA
694092 ATAAATAATAT
1 ATAAATAATAT
694103 AAATTTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
26 4 0.12
27 25 0.78
28 3 0.09
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
ATAAATAATATTATTTACTATAAATA
Found at i:694202 original size:20 final size:21
Alignment explanation
Indices: 694179--694218 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
694169 TTAATTATTT
694179 TATTATAATATTA-AAATATA
1 TATTATAATATTAGAAATATA
*
694199 TATTATATTATTAGAAATAT
1 TATTATAATATTAGAAATAT
694219 TAATAAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
TATTATAATATTAGAAATATA
Found at i:694204 original size:23 final size:22
Alignment explanation
Indices: 694150--694204 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 22
694140 AAATAATATC
694150 TTATATTATTATAATATAATTAA
1 TTATATTATTATAATATAA-TAA
*
694173 TTATTTTATTATAATATTAA-AA
1 TTATATTATTATAATA-TAATAA
694195 TATATATTAT
1 T-TATATTAT
694205 ATTATTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.11
23 22 0.79
24 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATATTATTATAATATAATAA
Found at i:694986 original size:9 final size:9
Alignment explanation
Indices: 694972--695059 Score: 52
Period size: 9 Copynumber: 10.6 Consensus size: 9
694962 AATTAATAAC
694972 AAATAATTA
1 AAATAATTA
694981 AAATAA--A
1 AAATAATTA
694988 AAATAA-T-
1 AAATAATTA
*
694995 -AGTAATTA
1 AAATAATTA
695003 ATAAT-ATTA
1 A-AATAATTA
695012 AATATAA-T-
1 AA-ATAATTA
695020 AAATAATTA
1 AAATAATTA
695029 AAAT-A-TA
1 AAATAATTA
*
695036 ATAATAAATA
1 A-AATAATTA
*
695046 AAGTAATTA
1 AAATAATTA
695055 AAATA
1 AAATA
695060 GATATTTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 24
0.68 0.05 0.26
Matches are distributed among these distances:
6 4 0.06
7 15 0.24
8 8 0.13
9 29 0.47
10 6 0.10
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
AAATAATTA
Found at i:694991 original size:16 final size:16
Alignment explanation
Indices: 694966--695047 Score: 60
Period size: 16 Copynumber: 5.1 Consensus size: 16
694956 AATTGAAATT
*
694966 AATAACAAATAATTAA
1 AATAAAAAATAATTAA
*
694982 AATAAAAAATAA-TAGT
1 AATAAAAAATAATTA-A
* *
694998 AATTAATAAT-ATTAA
1 AATAAAAAATAATTAA
*
695013 ATATAATAAATAATTAA
1 A-ATAAAAAATAATTAA
* *
695030 AATATAATAATAAATAA
1 AATA-AAAAATAATTAA
695047 A
1 A
695048 GTAATTAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
15 4 0.08
16 30 0.60
17 16 0.32
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (16 bp):
AATAAAAAATAATTAA
Found at i:695004 original size:26 final size:25
Alignment explanation
Indices: 694979--695055 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
694969 AACAAATAAT
694979 TAAAATAAAAAATAATAGTAATTAA
1 TAAAATAAAAAATAATAGTAATTAA
* * * *
695004 TAATATTAAATATAATAAATAATTAAAA
1 TAAAATAAAAAATAAT-AGTAATT--AA
* *
695032 TATAATAATAAATAA-AGTAATTAA
1 TAAAATAAAAAATAATAGTAATTAA
695056 AATAGATATT
Statistics
Matches: 39, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
24 2 0.05
25 13 0.33
26 12 0.31
28 12 0.31
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (25 bp):
TAAAATAAAAAATAATAGTAATTAA
Found at i:695056 original size:26 final size:26
Alignment explanation
Indices: 694982--695059 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
694972 AAATAATTAA
*
694982 AATAAAAAATAATAGTAATTAATAATAT
1 AATAATAAATAA-AGTAATTAA-AATAT
*
695010 TA-AATATAATAAA-TAATTAAAATAT
1 AATAATA-AATAAAGTAATTAAAATAT
695035 AATAATAAATAAAGTAATTAAAATA
1 AATAATAAATAAAGTAATTAAAATA
695060 GATATTTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
25 12 0.27
26 22 0.50
27 4 0.09
28 6 0.14
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (26 bp):
AATAATAAATAAAGTAATTAAAATAT
Found at i:695059 original size:21 final size:21
Alignment explanation
Indices: 695008--695059 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
694998 AATTAATAAT
*
695008 ATTAAATATAATAAATAATTAA
1 ATTAAA-ATAATAAATAAGTAA
* *
695030 AATATAATAATAAATAAAGT-A
1 ATTAAAATAATAAAT-AAGTAA
695051 ATTAAAATA
1 ATTAAAATA
695060 GATATTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
ATTAAAATAATAAATAAGTAA
Found at i:695071 original size:53 final size:47
Alignment explanation
Indices: 694963--695088 Score: 114
Period size: 53 Copynumber: 2.6 Consensus size: 47
694953 TCCAATTGAA
*
694963 ATTAATA-ACAAATAATTAAAATA-AAAAATAATAGTAATTAATAAT
1 ATTAATATAAAAATAATTAAAATATAAAAATAATAGTAATTAATAAT
*
695008 ATTAAATATAATAAATAATTAAAATATAATAATAAATAAAGTAATTAAAATAGAT
1 ATT-AATATAA-AAATAATTAAAATATAAAAAT-AAT--AGTAATT--AATA-AT
* *
695063 ATT-TTATAAATAATAATTATAATATA
1 ATTAATATAAA-AATAATTAAAATATA
695089 TTTTGTAAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
45 3 0.05
46 4 0.06
47 1 0.02
48 14 0.21
49 5 0.08
50 3 0.05
52 8 0.12
53 19 0.29
54 4 0.06
55 5 0.08
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (47 bp):
ATTAATATAAAAATAATTAAAATATAAAAATAATAGTAATTAATAAT
Found at i:695089 original size:25 final size:26
Alignment explanation
Indices: 695017--695098 Score: 87
Period size: 25 Copynumber: 3.1 Consensus size: 26
695007 TATTAAATAT
* *
695017 AATAAATAATTAAAATATA-ATAATA
1 AATAAATAATTAAAATATATTTTATA
695042 AATAAAGTAATTAAAATAGATATTTTATA
1 AATAAA-TAATTAAAAT--ATATTTTATA
* *
695071 AAT-AATAATTATAATATATTTTGTA
1 AATAAATAATTAAAATATATTTTATA
695096 AAT
1 AAT
695099 TTTAAAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
25 18 0.37
26 10 0.20
27 9 0.18
28 5 0.10
29 7 0.14
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (26 bp):
AATAAATAATTAAAATATATTTTATA
Found at i:695108 original size:83 final size:82
Alignment explanation
Indices: 695020--695184 Score: 183
Period size: 83 Copynumber: 2.0 Consensus size: 82
695010 TAAATATAAT
* * * * *
695020 AAATAAT-TAAAATATA-ATAATAAATAAAGTAATTAAAATAGATATTTTATAA-ATAATAATTA
1 AAATAATGAAAAATATATAT-AT-AATAAAGTAAATAAAATAAATA-ATTAAAATATAATAATTA
*
695082 TAATATATTTTGTAAATTTTA
63 TAATATATTTT-TAAAATTTA
* * * *
695103 AAATAATGAAAAATATATGTATAATATATTAAATATAATAAATAATTAAAATATAATAATTATAA
1 AAATAATGAAAAATATATATATAATAAAGTAAATAAAATAAATAATTAAAATATAATAATTATAA
695168 TATATTTTTAAAATTTA
66 TATATTTTTAAAATTTA
695185 TAAGATAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
82 13 0.19
83 45 0.65
84 10 0.14
85 1 0.01
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (82 bp):
AAATAATGAAAAATATATATATAATAAAGTAAATAAAATAAATAATTAAAATATAATAATTATAA
TATATTTTTAAAATTTA
Found at i:695137 original size:9 final size:9
Alignment explanation
Indices: 695113--695173 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
695103 AAATAATGAA
695113 AAATATATGT
1 AAATATAT-T
695123 ATAATATATT
1 A-AATATATT
*
695133 AAATATAAT
1 AAATATATT
695142 AAATA-ATT
1 AAATATATT
695150 AAA-ATA-T
1 AAATATATT
695157 -AATA-ATT
1 AAATATATT
695164 ATAATATATT
1 A-AATATATT
695174 TTTAAAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
6 3 0.07
7 4 0.10
8 6 0.14
9 16 0.38
10 6 0.14
11 7 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (9 bp):
AAATATATT
Found at i:695146 original size:18 final size:19
Alignment explanation
Indices: 695125--695166 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
695115 ATATATGTAT
695125 AATATATT-AAATATAATA
1 AATATATTAAAATATAATA
695143 AATA-ATTAAAATATAATA
1 AATATATTAAAATATAATA
*
695161 ATTATA
1 AATATA
695167 ATATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 17 0.81
19 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATATATTAAAATATAATA
Found at i:695178 original size:27 final size:27
Alignment explanation
Indices: 695041--695181 Score: 81
Period size: 27 Copynumber: 5.1 Consensus size: 27
695031 ATATAATAAT
* *
695041 AAATA-AAGTAATTAAAATAGATATTTTA
1 AAATATAA-TAATTATAATATAT-TTTTA
*
695069 TAA-ATAATAATTATAATATATTTTGTA
1 AAATATAATAATTATAATATATTTT-TA
* * * * * *
695096 AATTTTAA-AATAATGAAAAATATATGTA
1 AAATATAATAATTAT--AATATATTTTTA
* * * * **
695124 TAATATATTAAATATAATAAATAATTA
1 AAATATAATAATTATAATATATTTTTA
695151 AAATATAATAATTATAATATATTTTTA
1 AAATATAATAATTATAATATATTTTTA
695178 AAAT
1 AAAT
695182 TTATAAGATA
Statistics
Matches: 81, Mismatches: 26, Indels: 13
0.68 0.22 0.11
Matches are distributed among these distances:
26 3 0.04
27 54 0.67
28 13 0.16
29 11 0.14
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (27 bp):
AAATATAATAATTATAATATATTTTTA
Found at i:698979 original size:17 final size:17
Alignment explanation
Indices: 698939--699022 Score: 66
Period size: 16 Copynumber: 4.8 Consensus size: 17
698929 ATTTATAAAA
* *
698939 TATATTTT-TTAATTAC
1 TATATTTTATTTATTAT
698955 TATA-TTTATTTATTAT
1 TATATTTTATTTATTAT
*
698971 TATATTTTAATTATTTAT
1 TATATTTTATTTA-TTAT
698989 TATATTCAATTATTAGTATTAT
1 TATATT---TTATT--TATTAT
699011 TATATTTT-TTTA
1 TATATTTTATTTA
699023 CTATACTTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
15 3 0.05
16 16 0.29
17 7 0.12
18 12 0.21
19 2 0.04
21 4 0.07
22 10 0.18
23 2 0.04
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (17 bp):
TATATTTTATTTATTAT
Found at i:698990 original size:18 final size:17
Alignment explanation
Indices: 698950--699003 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
698940 ATATTTTTTA
* *
698950 ATTACTATA-TTTATTT
1 ATTATTATATTTTAATT
698966 ATTATTATATTTTAATT
1 ATTATTATATTTTAATT
*
698983 ATTTATTATA-TTCAATT
1 A-TTATTATATTTTAATT
699000 ATTA
1 ATTA
699004 GTATTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 11 0.33
17 14 0.42
18 8 0.24
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATTATATTTTAATT
Found at i:705612 original size:6 final size:6
Alignment explanation
Indices: 705601--705625 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
705591 GACACGTATT
705601 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
705626 GCCGAGCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:711426 original size:6 final size:6
Alignment explanation
Indices: 711415--711445 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
711405 GACACGTATT
*
711415 ACCACG ACCACG ACCACG ACCACT ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG A
711446 GCCGAGCCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.35, C:0.48, G:0.13, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:718775 original size:29 final size:29
Alignment explanation
Indices: 718733--718815 Score: 98
Period size: 27 Copynumber: 2.9 Consensus size: 29
718723 AACCCAACCA
*
718733 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACGCCCAGCGACCTCC
* * **
718762 TAGGCCGCCATGCACGCCCGGCGA--TGG
1 TAGGTCGCCATGCACGCCCAGCGACCTCC
*
718789 TAGGTCGCCATGCACGCCCCGCGACCT
1 TAGGTCGCCATGCACGCCCAGCGACCT
718816 TGTCTTTGGC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
27 23 0.51
29 22 0.49
ACGTcount: A:0.16, C:0.42, G:0.28, T:0.14
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCCAGCGACCTCC
Found at i:718865 original size:48 final size:47
Alignment explanation
Indices: 718808--718903 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 47
718798 ATGCACGCCC
* * *
718808 CGCGACCTTGTCTTTGGCCCCTGCTGCATGCTCGCATGCTCGCCTGCT
1 CGCGACCTTGTCTTTGGCCCCTACTCCACGCT-GCATGCTCGCCTGCT
*
718856 CGCGACCTTGTCTTTGGCCCCTACTCCACGCTGCATGGTCGCCTGCT
1 CGCGACCTTGTCTTTGGCCCCTACTCCACGCTGCATGCTCGCCTGCT
718903 C
1 C
718904 CCCACTGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 15 0.34
48 29 0.66
ACGTcount: A:0.07, C:0.41, G:0.24, T:0.28
Consensus pattern (47 bp):
CGCGACCTTGTCTTTGGCCCCTACTCCACGCTGCATGCTCGCCTGCT
Found at i:719440 original size:30 final size:30
Alignment explanation
Indices: 719381--719486 Score: 142
Period size: 30 Copynumber: 3.5 Consensus size: 30
719371 TTTAGTTAAT
*
719381 TAGTTTTTTAGTAGTGAA-TTATAATTAAAAAA
1 TAGTTTATTAGT--TGAAGTTAT-ATTAAAAAA
* *
719413 TATTTTATTAGTTTAAGTTATATTAAAAAA
1 TAGTTTATTAGTTGAAGTTATATTAAAAAA
*
719443 TAGTTTATTAGTTGAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAAAA
719473 TAGTTTATTAGTTG
1 TAGTTTATTAGTTG
719487 TTTAAAGAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
30 53 0.79
31 4 0.06
32 10 0.15
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (30 bp):
TAGTTTATTAGTTGAAGTTATATTAAAAAA
Found at i:719567 original size:15 final size:16
Alignment explanation
Indices: 719539--719572 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
719529 GTTTGTTACT
719539 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
719555 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
719570 TTA
1 TTA
719573 ATTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:722511 original size:15 final size:16
Alignment explanation
Indices: 722474--722511 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
722464 AAACAACACT
722474 AAATATTTTTAAATACA
1 AAAT-TTTTTAAATACA
722491 ATAATTTTTTAAATA-A
1 A-AATTTTTTAAATACA
722507 AAATT
1 AAATT
722512 ATCTTGCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 2 0.10
17 11 0.55
18 3 0.15
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTTTTTAAATACA
Found at i:723037 original size:21 final size:21
Alignment explanation
Indices: 723004--723052 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
722994 AATATAATAT
723004 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
723025 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
723046 ATTAACT
1 A-TAACT
723053 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:723713 original size:36 final size:37
Alignment explanation
Indices: 723658--723776 Score: 125
Period size: 36 Copynumber: 3.0 Consensus size: 37
723648 TCCCCAATCT
723658 CCTCATGCATGAACCGATCCTTGGTCGCCCCGAGTGC
1 CCTCATGCATGAACCGATCCTTGGTCGCCCCGAGTGC
*
723695 CCT-ATGTATGAACCGATCCTTGGTTATCCTTGGTCGCCTCGAGTG-
1 CCTCATGCATGAACCGATCCTTGG---T-C---G-C-CC-CGAGTGC
723740 CCTCATGCATGAACCGATCCTTGGTCGCCCCGAGTGC
1 CCTCATGCATGAACCGATCCTTGGTCGCCCCGAGTGC
723777 ATGGCGACCT
Statistics
Matches: 68, Mismatches: 2, Indels: 24
0.72 0.02 0.26
Matches are distributed among these distances:
36 25 0.37
37 5 0.07
38 1 0.01
39 2 0.03
40 1 0.01
42 1 0.01
43 2 0.03
44 1 0.01
45 5 0.07
46 25 0.37
ACGTcount: A:0.16, C:0.34, G:0.24, T:0.26
Consensus pattern (37 bp):
CCTCATGCATGAACCGATCCTTGGTCGCCCCGAGTGC
Found at i:723741 original size:46 final size:46
Alignment explanation
Indices: 723674--723764 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
723664 GCATGAACCG
*
723674 ATCCTTGGTCGCCCCGAGTGCC-CTATGTATGAACCGATCCTTGGTT
1 ATCCTTGGTCGCCCCGAGTGCCTC-ATGCATGAACCGATCCTTGGTT
*
723720 ATCCTTGGTCGCCTCGAGTGCCTCATGCATGAACCGATCCTTGGT
1 ATCCTTGGTCGCCCCGAGTGCCTCATGCATGAACCGATCCTTGGT
723765 CGCCCCGAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 41 0.98
47 1 0.02
ACGTcount: A:0.15, C:0.31, G:0.24, T:0.30
Consensus pattern (46 bp):
ATCCTTGGTCGCCCCGAGTGCCTCATGCATGAACCGATCCTTGGTT
Found at i:723792 original size:29 final size:29
Alignment explanation
Indices: 723760--723823 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
723750 GAACCGATCC
723760 TTGGTCGCCCCGAGTGCATGGCGACCTCT
1 TTGGTCGCCCCGAGTGCATGGCGACCTCT
**** *
723789 TTGGTCGTTGGGCGTGCATGGCGACCTCT
1 TTGGTCGCCCCGAGTGCATGGCGACCTCT
723818 TTGGTC
1 TTGGTC
723824 ACTGTACAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.08, C:0.28, G:0.34, T:0.30
Consensus pattern (29 bp):
TTGGTCGCCCCGAGTGCATGGCGACCTCT
Found at i:724852 original size:17 final size:18
Alignment explanation
Indices: 724819--724852 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
724809 GTCTGCATGG
*
724819 GTTGTTGAGAGTCGTTAA
1 GTTGTTGAGAGTAGTTAA
724837 GTTGTT-AGAGTAGTTA
1 GTTGTTGAGAGTAGTTA
724853 CAACTCCCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.03, G:0.32, T:0.41
Consensus pattern (18 bp):
GTTGTTGAGAGTAGTTAA
Found at i:726593 original size:24 final size:24
Alignment explanation
Indices: 726561--726624 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
726551 AAGCTACCAA
*
726561 AAAGACAGAGAAAAAACGTGCCAC
1 AAAGGCAGAGAAAAAACGTGCCAC
* * *
726585 AAAGGCAGAG-ATAAATGTGCCAT
1 AAAGGCAGAGAAAAAACGTGCCAC
* *
726608 AAAGGTAGAGAACAAAC
1 AAAGGCAGAGAAAAAAC
726625 ATAATTATTC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
23 19 0.59
24 13 0.41
ACGTcount: A:0.52, C:0.16, G:0.23, T:0.09
Consensus pattern (24 bp):
AAAGGCAGAGAAAAAACGTGCCAC
Found at i:730863 original size:2 final size:2
Alignment explanation
Indices: 730856--730882 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
730846 CGGTTTATTT
730856 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
730883 TAAATGTTTA
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:731013 original size:39 final size:39
Alignment explanation
Indices: 730892--731013 Score: 119
Period size: 39 Copynumber: 3.2 Consensus size: 39
730882 TTAAATGTTT
* *
730892 ATTTATAATTT-TCAAATTATTTCAC-TCTAACATTCTAA
1 ATTTTTAATTTCTTAAATTATTTCACATC-AACATTCTAA
** *
730930 ATTCCTAATTTCTTAAATT-TTGCTACCAT-AACATT-TGAA
1 ATTTTTAATTTCTTAAATTATTTC-A-CATCAACATTCT-AA
730969 ATTTTTAATTTCTTAAATTATTTCACATCAACATTCTAA
1 ATTTTTAATTTCTTAAATTATTTCACATCAACATTCTAA
*
731008 TTTTTT
1 ATTTTT
731014 TTAAAATATT
Statistics
Matches: 68, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
38 16 0.24
39 46 0.68
40 5 0.07
41 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.49
Consensus pattern (39 bp):
ATTTTTAATTTCTTAAATTATTTCACATCAACATTCTAA
Found at i:731201 original size:16 final size:17
Alignment explanation
Indices: 731176--731209 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
731166 ATCTATATAT
*
731176 ATATATTTTAAA-AAAA
1 ATATAATTTAAAGAAAA
731192 ATATAATTTAAAGAAAA
1 ATATAATTTAAAGAAAA
731209 A
1 A
731210 AAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
ATATAATTTAAAGAAAA
Found at i:732842 original size:19 final size:18
Alignment explanation
Indices: 732815--732850 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
732805 ATTTTATGTG
732815 ACAACTATCATATGTTACA
1 ACAACTATCATAT-TTACA
*
732834 ACAATTATCATATTTAC
1 ACAACTATCATATTTAC
732851 TTTACTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (18 bp):
ACAACTATCATATTTACA
Found at i:738081 original size:18 final size:18
Alignment explanation
Indices: 738058--738094 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
738048 TATTAAAAGG
738058 AGTGCACAAGAACAGGCA
1 AGTGCACAAGAACAGGCA
* *
738076 AGTGCACGAGAATAGGCA
1 AGTGCACAAGAACAGGCA
738094 A
1 A
738095 ACCAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.19, G:0.30, T:0.08
Consensus pattern (18 bp):
AGTGCACAAGAACAGGCA
Found at i:747943 original size:30 final size:29
Alignment explanation
Indices: 747841--747976 Score: 109
Period size: 30 Copynumber: 4.6 Consensus size: 29
747831 ATTTATGTCC
747841 TAACTTTAAAAATATATATTTATTTT-TAT
1 TAACTTTAAAAATATAT-TTTATTTTATAT
** ** *
747870 TCAAC-TTATTTAATACGTTTTAATTTTATTT
1 T-AACTTTA-AAAATATATTTT-ATTTTATAT
747901 TAAC-TT-AAAATATATTTTATTCTTATAT
1 TAACTTTAAAAATATATTTTATT-TTATAT
* *
747929 TAACTTTAAAAATATATTTCATTCTTCTAT
1 TAACTTTAAAAATATATTTTATT-TTATAT
*
747959 TAATTTTAAAATATATAT
1 TAACTTTAAAA-ATATAT
747977 ATATATATAT
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
27 3 0.03
28 17 0.20
29 9 0.10
30 48 0.56
31 9 0.10
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.54
Consensus pattern (29 bp):
TAACTTTAAAAATATATTTTATTTTATAT
Found at i:760281 original size:40 final size:40
Alignment explanation
Indices: 760226--760386 Score: 281
Period size: 40 Copynumber: 4.0 Consensus size: 40
760216 TGCAGGTTTA
760226 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
760266 TAATACACTTCGGTGTATATGGTGGG-ACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
760305 TAATACACTTCGGTGTATATGGTGGGC-CTGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCAC-GACCTTATGTG
* *
760345 TAATACATTTGGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
760385 TA
1 TA
760387 GCACTACGGT
Statistics
Matches: 116, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
39 40 0.34
40 75 0.65
41 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:760360 original size:79 final size:80
Alignment explanation
Indices: 760226--760386 Score: 281
Period size: 79 Copynumber: 2.0 Consensus size: 80
760216 TGCAGGTTTA
760226 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGG
760291 G-ACGACCTTATGTG
66 GCACGACCTTATGTG
* *
760305 TAATACACTTCGGTGTATATGGTGGGC-CTGACCTTATGTGTAATACATTTGGGTGTATATGGTG
1 TAATACACTTCGGTGTATATGGTGGGCAC-GACCTTATGTGTAATACACTTCGGTGTATATGGTG
760369 GGCACGACCTTATGTG
65 GGCACGACCTTATGTG
760385 TA
1 TA
760387 GCACTACGGT
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
78 1 0.01
79 62 0.79
80 15 0.19
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (80 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGG
GCACGACCTTATGTG
Found at i:760969 original size:42 final size:42
Alignment explanation
Indices: 760912--760991 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
760902 ACTATAGCGC
*
760912 TTACTGTAGCGTATCGATGCATTGTAGCAGTTACTGTAACAG
1 TTACTATAGCGTATCGATGCATTGTAGCAGTTACTGTAACAG
* *
760954 TTACTATAGCTTATCGATGCATTGTAGTAGTTACTGTA
1 TTACTATAGCGTATCGATGCATTGTAGCAGTTACTGTA
760992 GCTTATCGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (42 bp):
TTACTATAGCGTATCGATGCATTGTAGCAGTTACTGTAACAG
Found at i:761103 original size:20 final size:23
Alignment explanation
Indices: 761058--761110 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 23
761048 GCGCATCGAT
*
761058 TCACTGTTCACAGGTTCTGTTCA
1 TCACTGTTCACAGGTTATGTTCA
761081 TCACTGTTCAC-GG-TATG-TCA
1 TCACTGTTCACAGGTTATGTTCA
*
761101 TCACTATTCA
1 TCACTGTTCA
761111 TAAAAAATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 12 0.43
21 3 0.11
22 2 0.07
23 11 0.39
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (23 bp):
TCACTGTTCACAGGTTATGTTCA
Found at i:761549 original size:75 final size:74
Alignment explanation
Indices: 761420--761634 Score: 263
Period size: 75 Copynumber: 2.9 Consensus size: 74
761410 CTACAGTGCA
** *
761420 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGAGCTACAGTGCAGGATGTTTTCGAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGT-ATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAAGCCTT
**
761485 CAGGAGTTTTT
64 CAGGAACTTTT
* * *
761496 TGATGTTTTCAAAACCTTCGAGTGTCCATAATACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC
1 TGATGTTTTCAAAACCTTCGGGTATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAAGCCTTC
*
761561 GGGAACTTTT
65 AGGAACTTTT
* * *
761571 TGACGTTTTCAAAACCTTCGGGTCA-CCTATAAGACCTTCAGTGCATGATGTTTTCAAAA-CCTT
1 TGATGTTTTCAAAACCTTCGGGT-ATCC-ATAAGACCTACAGTGCAGGATGTTTTCAAAAGCCTT
761634 C
64 C
761635 GGGTCATCTG
Statistics
Matches: 121, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
74 5 0.04
75 70 0.58
76 46 0.38
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (74 bp):
TGATGTTTTCAAAACCTTCGGGTATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAGCCTTCA
GGAACTTTT
Found at i:761626 original size:45 final size:45
Alignment explanation
Indices: 761575--762032 Score: 577
Period size: 45 Copynumber: 10.2 Consensus size: 45
761565 ACTTTTTGAC
* *
761575 GTTTTCAAAACCTTCGGGTCACCTATAAGACCTTCAGTGCATGAT
1 GTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGAT
* *
761620 GTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTTAGTACATGAT
1 GTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGAT
* *
761665 GTTTTCAAAACCTTTGGGTCATCTGTAAGACCTTTAGTGCATGAT
1 GTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGAT
*
761710 GTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTAAGTGCATGAT
1 GTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGAT
* *
761755 GTTTTCAAAAAACCTTCAGGTCATTTGTAAGACCTTCAGTGCATGAT
1 GTTTTC--AAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGAT
*
761802 GTTTTCAAAACCTTCAGGTCATCTGTAAGACCTTCAGTGCATGAT
1 GTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGAT
* *
761847 GCTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCAAGAT
1 GTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGAT
* ** * *
761892 G--TT-AAAGTCCTTCGGGTCATCCATAAGACCTTCAGTGTAGGAT
1 GTTTTCAAA-ACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGAT
* * * * *
761935 GTTTTTTTAAAGCCTTCGGGTCATTTGTAAGACCTTCAGCGCAAGAT
1 G--TTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGAT
* * ** * *
761982 G--TT-AAAGCCTTCGGGCCATCCATGAGACCTTCAGTGCAGGAT
1 GTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGAT
762024 GTTTTCAAA
1 GTTTTCAAA
762033 TAAATTTTAT
Statistics
Matches: 368, Mismatches: 34, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
42 36 0.10
43 36 0.10
44 2 0.01
45 217 0.59
47 74 0.20
48 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (45 bp):
GTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGAT
Found at i:761791 original size:20 final size:20
Alignment explanation
Indices: 761766--761838 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
761756 TTTTCAAAAA
761766 ACCTTCAGGTCATTTGTAAG
1 ACCTTCAGGTCATTTGTAAG
* * *
761786 ACCTTCAGTGCATGATGTTTTCAAA
1 ACCTTCAG-G--TCAT-TTGT-AAG
*
761811 ACCTTCAGGTCATCTGTAAG
1 ACCTTCAGGTCATTTGTAAG
761831 ACCTTCAG
1 ACCTTCAG
761839 TGCATGATGC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
20 18 0.44
21 3 0.07
22 3 0.07
23 3 0.07
24 4 0.10
25 10 0.24
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (20 bp):
ACCTTCAGGTCATTTGTAAG
Found at i:762161 original size:73 final size:73
Alignment explanation
Indices: 762038--762217 Score: 288
Period size: 73 Copynumber: 2.5 Consensus size: 73
762028 TCAAATAAAT
762038 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAATTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAATTTCACTCGA
* *
762103 AATAGCAA
66 AACAACAA
* * * *
762111 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGTTGGAGACAGTTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAATTTCACTCGA
762176 AACAACAA
66 AACAACAA
* *
762184 TTTATCTAACTTGAGATTATTTTTCTTAAAACAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
762218 GATTCGTCTC
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 99 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (73 bp):
TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAATTTCACTCGA
AACAACAA
Found at i:762228 original size:73 final size:72
Alignment explanation
Indices: 762038--762250 Score: 286
Period size: 73 Copynumber: 2.9 Consensus size: 72
762028 TCAAATAAAT
* * *
762038 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAATTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AAATGTTTCTCGTTGGAGACAGTTTCACTCGA
* *
762103 AATAGCAA
65 AACAACAA
762111 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGTTGGAGACAGTTTCACTCGA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-TGTTTCTCGTTGGAGACAGTTTCACTCGA
762176 AACAACAA
65 AACAACAA
* * * *
762184 TTTATCTAACTTGAGATTATTTTTCTTAAAACAAGAT-TCGTCTCGCTT-GAGACAGTTTCACTA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAA-ATGT-TTCTCG-TTGGAGACAGTTTCACTC
762247 GAAA
63 GAAA
762251 TAGAAATTTC
Statistics
Matches: 127, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
72 4 0.03
73 120 0.94
74 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (72 bp):
TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATGTTTCTCGTTGGAGACAGTTTCACTCGAA
ACAACAA
Found at i:762465 original size:112 final size:111
Alignment explanation
Indices: 762262--762948 Score: 707
Period size: 112 Copynumber: 5.9 Consensus size: 111
762252 AGAAATTTCC
* * *
762262 ATCACTCGATGGATCAACATTTTCAGAGGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGA
1 ATCACTAGATGGATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGA
*
762327 AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAGTCT
66 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAGTCT
* *
762373 ATCACTCGATGGATCAACATTTCTAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAG
1 ATCACTAGATGGATCAACATTTCCAGAGG-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAG
* * *
762438 TAGAAGTTCATAATGAGAATAACTTGTTCAACCTTTTGCTCGATTCT
65 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAGTCT
* * * * * *
762485 ATCCCAAAAGGAGATAGATCAGCACCAACATTTCTAGAAGTGTTCATAATGAGAAGAACTCATCT
1 AT--C------A-CTAGAT--GGATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCT
* * * * *
762550 GAAGAGGAAAAAGAAGTTCACAATGAGAATAATTTGTTCAACCTTTTGCTCGAGCCT
55 GAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAGTCT
*
762607 ATCACTCGATGGATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAG
1 ATCACTAGATGGATCAACATTTCCAGAGG-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAG
* **
762672 AAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGACACT
65 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAGTCT
* * * *
762719 ATCACAGAAGGAGATAGACCATCATCAACATTTCCA-AAGTGTTCATAATGAGAAGAACTCATCT
1 ATCAC-----TAGAT-G-----GATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCT
*
762783 GAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCGT-GATTCT
55 GAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC-TCGAGTCT
* ** *
762840 ATCACAAAAGAGATAAATCAACATCAATATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCT
1 ATCAC----TAGATGGATC-A-A-C---ATTTCCAG-AGGAGTTCATAATGAGAAGAACTCATCT
*
762905 GATA-AGGAAGAGGAAGTTCATAATGAGAAG-ACTTGTTCAACCTT
55 GA-AGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
762949 GCCTTAATTC
Statistics
Matches: 495, Mismatches: 47, Indels: 58
0.82 0.08 0.10
Matches are distributed among these distances:
111 42 0.08
112 158 0.32
113 4 0.01
114 5 0.01
115 1 0.00
116 1 0.00
117 4 0.01
118 1 0.00
120 16 0.03
121 99 0.20
122 134 0.27
123 30 0.06
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (111 bp):
ATCACTAGATGGATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGA
AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAGTCT
Found at i:762685 original size:234 final size:233
Alignment explanation
Indices: 762292--762948 Score: 917
Period size: 234 Copynumber: 2.8 Consensus size: 233
762282 TTTCAGAGGA
*
762292 GTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
1 GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
* *
762357 CCTTTTGCTCGAGTCTATCACTCGATGGATCAACATTTCTAGAGGAAGTTCATAATGAGAAGAAC
66 CCTTTTGCTCGAGCCTATCACTCGATGGATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAAC
* * * **
762422 TCATCTGAAGAGGAAGTAGAAGTTCATAATGAGAATAACTTGTTCAACCTTTTGCTCGATTCTAT
131 TCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGACACTAT
* * *
762487 CCCAAAAGGAGATAGATCAGCACCAACATTTCTAGAAGT
196 CACAAAAGGAGATAGACCAGCACCAACATTTCCA-AAGT
* * *
762526 GTTCATAATGAGAAGAACTCATCTGAAGAGGAAAAAGAAGTTCACAATGAGAATAATTTGTTCAA
1 GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
762591 CCTTTTGCTCGAGCCTATCACTCGATGGATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAAC
66 CCTTTTGCTCGAGCCTATCACTCGATGGATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAAC
762656 TCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGACACTAT
131 TCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGACACTAT
* * *
762721 CACAGAAGGAGATAGACCATCATCAACATTTCCAAAGT
196 CACAAAAGGAGATAGACCAGCACCAACATTTCCAAAGT
*
762759 GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
1 GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
** ** ** *
762824 CCTTTTGCGT-GATTCTATCACAAAAGAGATAAATCAACATCAATATTTCCAGA-AAGAGTTCAT
66 CCTTTTGC-TCGAGCCTATCAC----TCGATGGATC-A-A-C---ATTTCCAGAGGA-AGTTCAT
* *
762887 AATGAGAAGAACTCATCTGATA-AGGAAGAGGAAGTTCATAATGAGAAG-ACTTGTTCAACCTT
119 AATGAGAAGAACTCATCTGA-AGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTT
762949 GCCTTAATTC
Statistics
Matches: 380, Mismatches: 30, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
233 82 0.22
234 213 0.56
237 6 0.02
238 1 0.00
239 1 0.00
240 1 0.00
242 15 0.04
243 60 0.16
244 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (233 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
CCTTTTGCTCGAGCCTATCACTCGATGGATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAAC
TCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGACACTAT
CACAAAAGGAGATAGACCAGCACCAACATTTCCAAAGT
Found at i:762769 original size:121 final size:120
Alignment explanation
Indices: 762619--762948 Score: 477
Period size: 121 Copynumber: 2.7 Consensus size: 120
762609 CACTCGATGG
* *
762619 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATA
1 ATCAACATTTCCA-AAG-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
762684 ATGAGAAGAACTTGTTCAACCTTTTGC-TCGACACTATCACAGAAGGAGATAGACCATC
64 ATGAGAAGAACTTGTTCAACCTTTTGCGT-GACACTATCACA-AAAGAGATAAACCAAC
*
762742 ATCAACATTTCCAAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
1 ATCAACATTTCCAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
** *
762807 GAGAAGAACTTGTTCAACCTTTTGCGTGATTCTATCACAAAAGAGATAAATCAAC
66 GAGAAGAACTTGTTCAACCTTTTGCGTGACACTATCACAAAAGAGATAAACCAAC
* *
762862 ATCAATATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGATA-AGGAAGAGGAAGTTCAT
1 ATCAACATTTCC--AAAGAGTTCATAATGAGAAGAACTCATCTGA-AGAGGAAGAAGAAGTTCAT
762926 AATGAGAAG-ACTTGTTCAACCTT
63 AATGAGAAGAACTTGTTCAACCTT
762949 GCCTTAATTC
Statistics
Matches: 191, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
120 23 0.12
121 96 0.50
122 58 0.30
123 14 0.07
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (120 bp):
ATCAACATTTCCAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTTTGCGTGACACTATCACAAAAGAGATAAACCAAC
Found at i:762933 original size:355 final size:344
Alignment explanation
Indices: 762262--762948 Score: 961
Period size: 355 Copynumber: 2.0 Consensus size: 344
762252 AGAAATTTCC
*
762262 ATCACTCGATGGATCAACATTTTCAGAGGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGA
1 ATCACTCGATGGATCAACATTTCCAGAGGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGA
* * ** ** *
762327 AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAGTCTATCACTCGATGGATCAACA
66 AGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGACACTATCACGAGATGCATCAACA
* * *
762392 TTTCTAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGTAGAAGTTCATAATGAGAA
131 TTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
* * * * *
762457 TAACTTGTTCAACCTTTTGCTCGATTCTATCCCAAAAGGAGATAGATCAGCACCAACATTTCTAG
196 GAACTTGTTCAACCTTTTGCTCGATTCTATCACAAAAGGAGATAAATCAACACCAACATTTCCAG
* *
762522 AAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAAAAGAAGTTCACAATGAGAATAATTTGT
261 AAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAAAAGAAGTTCACAATGAGAA-AACTTGT
762587 TCAACCTTTTGCTCGAGCCT
325 TCAACCTTTTGCTCGAGCCT
*
762607 ATCACTCGATGGATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAG
1 ATCACTCGATGGATCAACATTTCCAGAGG-AGTTCATAATAAGAAGAACTCATCTGAAGAGGAAG
762672 AAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGACACTATCACAGAAGGAGATAGA
65 AAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGACACTATCAC-----GAGAT-G-
*
762737 CCATCATCAACATTTCCA-AAG-TGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGT
123 ----CATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGT
762800 TCATAATGAGAAGAACTTGTTCAACCTTTTGCGT-GATTCTATCACAAAA-GAGATAAATCAACA
184 TCATAATGAGAAGAACTTGTTCAACCTTTTGC-TCGATTCTATCACAAAAGGAGATAAATCAACA
* * * * *
762863 TCAATATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGATA-AGGAAGAGGAAGTTCATA
248 CCAACATTTCCAG-AAGAGTTCATAATGAGAAGAACTCATCTGA-AGAGGAAAAAGAAGTTCACA
*
762927 ATGAGAAGACTTGTTCAACCTT
311 ATGAGAAAACTTGTTCAACCTT
762949 GCCTTAATTC
Statistics
Matches: 301, Mismatches: 26, Indels: 21
0.86 0.07 0.06
Matches are distributed among these distances:
345 28 0.09
346 82 0.27
351 3 0.01
352 1 0.00
354 35 0.12
355 136 0.45
356 4 0.01
357 12 0.04
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (344 bp):
ATCACTCGATGGATCAACATTTCCAGAGGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGA
AGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGACACTATCACGAGATGCATCAACA
TTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
GAACTTGTTCAACCTTTTGCTCGATTCTATCACAAAAGGAGATAAATCAACACCAACATTTCCAG
AAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAAAAGAAGTTCACAATGAGAAAACTTGTT
CAACCTTTTGCTCGAGCCT
Found at i:764108 original size:20 final size:20
Alignment explanation
Indices: 764085--764143 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
764075 ATGTTGTTTT
764085 TGTTTTATTATATTTTTCAC
1 TGTTTTATTATATTTTTCAC
* *
764105 TGTTTAATTATAATTTTGTTAC
1 TGTTTTATTAT-ATTTT-TCAC
* *
764127 TATTTTATCATATTTTT
1 TGTTTTATTATATTTTT
764144 ATTTATGTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 11 0.34
21 10 0.31
22 11 0.34
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.64
Consensus pattern (20 bp):
TGTTTTATTATATTTTTCAC
Found at i:764488 original size:23 final size:21
Alignment explanation
Indices: 764461--764507 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
764451 TTTTAAGTAA
764461 ATAAATATCTTATTTATAAAATT
1 ATAAATAT-TT-TTTATAAAATT
* *
764484 ATAAATATTTTTTTTTAAATT
1 ATAAATATTTTTTATAAAATT
764505 ATA
1 ATA
764508 CTAATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 2 0.09
23 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAATATTTTTTATAAAATT
Found at i:764550 original size:2 final size:2
Alignment explanation
Indices: 764543--764571 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
764533 ATGAATTAAG
764543 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 T
764572 TCTCTCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:767481 original size:18 final size:19
Alignment explanation
Indices: 767458--767494 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
767448 AGTATTTTGA
767458 TTATTTTGTAA-TTTATTT
1 TTATTTTGTAACTTTATTT
*
767476 TTATTTTTTAACTTTATTT
1 TTATTTTGTAACTTTATTT
767495 CTCTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (19 bp):
TTATTTTGTAACTTTATTT
Found at i:771659 original size:15 final size:15
Alignment explanation
Indices: 771639--771677 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
771629 TGTGCAAATT
* *
771639 CGGGTACCGGGTTTG
1 CGGGTACCCGATTTG
*
771654 CGGGTACCCGATTTT
1 CGGGTACCCGATTTG
771669 CGGGTACCC
1 CGGGTACCC
771678 AGAACTTTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.10, C:0.28, G:0.36, T:0.26
Consensus pattern (15 bp):
CGGGTACCCGATTTG
Found at i:771748 original size:15 final size:15
Alignment explanation
Indices: 771728--771776 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
771718 CCGGATGTTA
771728 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
* **
771743 CGGGTATCCGGATTTT
1 CGGGTACCCGG-TAAT
771759 GCGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
771775 CG
1 CG
771777 ATACCCGATA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
15 12 0.46
16 4 0.15
17 10 0.38
ACGTcount: A:0.16, C:0.24, G:0.35, T:0.24
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:778741 original size:15 final size:15
Alignment explanation
Indices: 778721--778753 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
778711 CTGTTGGTAG
*
778721 GTCTAGTTTATGTAC
1 GTCTAGTTTATATAC
778736 GTCTAGTTTATATAC
1 GTCTAGTTTATATAC
778751 GTC
1 GTC
778754 GTTACTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.45
Consensus pattern (15 bp):
GTCTAGTTTATATAC
Found at i:783470 original size:21 final size:23
Alignment explanation
Indices: 783444--783496 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
783434 GGTCACTAGT
*
783444 ATAATTTATCTTT-TA-TTTTAA
1 ATAATTTATCTTTAAATTTTTAA
*
783465 ATAATTTACCTTTAAATTTTTAA
1 ATAATTTATCTTTAAATTTTTAA
*
783488 CTAATTTAT
1 ATAATTTAT
783497 AATTATACGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 12 0.46
22 1 0.04
23 13 0.50
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (23 bp):
ATAATTTATCTTTAAATTTTTAA
Found at i:787781 original size:44 final size:44
Alignment explanation
Indices: 787731--787845 Score: 180
Period size: 44 Copynumber: 2.6 Consensus size: 44
787721 ACAATTAAAT
*
787731 AATAAAAACATTAAGAAACAAAACAAAAT-AAAAGT-CATAATTAA
1 AATAAAAACATTAAGAAACAAAA-AAAATAAAAAATCCATAATT-A
*
787775 AATAAAAACATTAAGAAACAAAATAAATAAAAAATCCATAATTA
1 AATAAAAACATTAAGAAACAAAAAAAATAAAAAATCCATAATTA
787819 AATAAAAACATTAAGAAACAAAAAAAA
1 AATAAAAACATTAAGAAACAAAAAAAA
787846 CAAGTCTATC
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
43 4 0.06
44 55 0.83
45 7 0.11
ACGTcount: A:0.70, C:0.09, G:0.03, T:0.17
Consensus pattern (44 bp):
AATAAAAACATTAAGAAACAAAAAAAATAAAAAATCCATAATTA
Found at i:794490 original size:23 final size:23
Alignment explanation
Indices: 794419--794490 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 23
794409 AATATTTAAT
*
794419 ATATTTAAAAATT-AAATATAATA
1 ATATTCAAAAATTAAAATAT-ATA
* *
794442 ATA-CCAAAAATAAAAAT-TA-A
1 ATATTCAAAAATTAAAATATATA
794462 ATTATTCAAAAATTAAAATATATA
1 A-TATTCAAAAATTAAAATATATA
*
794486 CTATT
1 ATATT
794491 AGTTTTTATC
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 2 0.05
21 3 0.08
22 19 0.50
23 13 0.34
24 1 0.03
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATTCAAAAATTAAAATATATA
Found at i:794687 original size:21 final size:21
Alignment explanation
Indices: 794663--794702 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
794653 ATAAAGTATT
794663 ATTAAAAAATTAAAATTTAAA
1 ATTAAAAAATTAAAATTTAAA
**
794684 ATTATGAAATTAAAATTTA
1 ATTAAAAAATTAAAATTTA
794703 TATATAAATT
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:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
ATTAAAAAATTAAAATTTAAA
Found at i:795106 original size:22 final size:22
Alignment explanation
Indices: 795056--795107 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
795046 TTAAAACAAA
* *
795056 ATATATATATTTATTTTTTAGT
1 ATATTTATATTTATTTTTTAAT
*
795078 ATTTTTATATTTATTTTTTAAT
1 ATATTTATATTTATTTTTTAAT
*
795100 GTATTTAT
1 ATATTTAT
795108 GTTTTAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
ATATTTATATTTATTTTTTAAT
Found at i:800036 original size:102 final size:103
Alignment explanation
Indices: 799858--800069 Score: 363
Period size: 102 Copynumber: 2.1 Consensus size: 103
799848 GGGTCTACGC
* *
799858 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCTGGTGAGACTCATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCTGGCGAGACACATACTTGAT
* *
799923 CCTTGGCATATGTATATGATTCTTAAGGAA-GATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
*
799960 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGCGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCTGGCGAGACACATACTTGAT
*
800025 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
800063 GGTCCTT
1 GGTCCTT
800070 ATGGACATTA
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 89 0.86
103 14 0.14
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCTGGCGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:800119 original size:23 final size:23
Alignment explanation
Indices: 800086--800148 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
800076 ATTATTATAT
*
800086 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACAC
* *
800109 GGCACTCCGGTGCAATTCTACAT
1 GGCACTACGGTGCAATTCTACAC
*
800132 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
800149 ATACTAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACAC
Found at i:802986 original size:21 final size:21
Alignment explanation
Indices: 802960--803011 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
802950 CTAAATTGCA
802960 AATTTTGAAAGTTTTGTGTTC
1 AATTTTGAAAGTTTTGTGTTC
802981 AATTTTGAAAGTTTTGTGTTC
1 AATTTTGAAAGTTTTGTGTTC
*
803002 AATTTAGAAA
1 AATTTTGAAA
803012 TGAAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (21 bp):
AATTTTGAAAGTTTTGTGTTC
Found at i:805309 original size:103 final size:103
Alignment explanation
Indices: 805089--805301 Score: 363
Period size: 103 Copynumber: 2.1 Consensus size: 103
805079 GGGTCTACGC
*
805089 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGCGTGAAGTCTGGTGAGACTCATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGCGTGAAGTCTGGTGAGACACATACTTGAT
** *
805154 CTTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
* *
805192 GGTCCTTCGGGACATATATGTATTCTTTTGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGCGTGAAGTCTGGTGAGACACATACTTGAT
*
805257 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
805295 GGTCCTT
1 GGTCCTT
805302 ATGGACATTA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGCGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:805351 original size:23 final size:23
Alignment explanation
Indices: 805318--805385 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
805308 ATTATTATAT
*
805318 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* * * *
805341 GGCACTCCGGTGCATTTATATGT
1 GGCACTACGGTGCAATTATACGC
*
805364 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
805386 AGTTGTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:812518 original size:17 final size:17
Alignment explanation
Indices: 812498--812536 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
812488 GAAATAAACT
812498 TCAACAAACCATAACCA
1 TCAACAAACCATAACCA
812515 TCAACAAACCATAACCA
1 TCAACAAACCATAACCA
812532 TCAAC
1 TCAAC
812537 GATTAACGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (17 bp):
TCAACAAACCATAACCA
Found at i:814217 original size:27 final size:29
Alignment explanation
Indices: 814184--814262 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
814174 AACTAAATTT
*
814184 ATGTCATTACTTACATCA-TTAA-TAAAG
1 ATGTCATTGCTTACATCATTTAAGTAAAG
*
814211 ATGTCATTGCTTACATCATTTAAGTAATG
1 ATGTCATTGCTTACATCATTTAAGTAAAG
814240 ATGTCATTGCTTACATCAATTTA
1 ATGTCATTGCTTACATC-ATTTA
814263 GTTAGGTAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 17 0.36
28 4 0.09
29 21 0.45
30 5 0.11
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (29 bp):
ATGTCATTGCTTACATCATTTAAGTAAAG
Found at i:818819 original size:29 final size:29
Alignment explanation
Indices: 818784--818865 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
818774 AAACTAAATT
* *
818784 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
818813 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
818842 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
818866 GTTAGATAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:820647 original size:20 final size:21
Alignment explanation
Indices: 820609--820648 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
820599 AAATATGATA
820609 AATAATATTTTTAAATATTAG
1 AATAATATTTTTAAATATTAG
820630 AATAAT-TTATTT-AATATTA
1 AATAATATT-TTTAAATATTA
820649 TTTATGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
AATAATATTTTTAAATATTAG
Found at i:820660 original size:15 final size:14
Alignment explanation
Indices: 820634--820665 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
820624 TATTAGAATA
820634 ATTTATTTAATATT
1 ATTTATTTAATATT
820648 ATTTATGTTAATATT
1 ATTTAT-TTAATATT
820663 ATT
1 ATT
820666 ATTAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
ATTTATTTAATATT
Found at i:828884 original size:58 final size:55
Alignment explanation
Indices: 828794--828972 Score: 197
Period size: 50 Copynumber: 3.2 Consensus size: 55
828784 ATGATGTTGC
* * ** *
828794 TTTGTTGAGTCACTTGAGTATTTAAAGTTACAAAATGGTCCTTTGATTATTGGTGTTAT
1 TTTGTTGAGTC-CCTGAATATCAAAAGTTACAAAATGGT-CTTTGA-TATTGATG-TAT
* *
828853 TTTGTTGAGTTCCTGAATATCAAAAGTTACAAAATAGTCTTTG--A-TGATG--T
1 TTTGTTGAGTCCCTGAATATCAAAAGTTACAAAATGGTCTTTGATATTGATGTAT
828903 TTTGTTGAGTCCCTGAATATCAAAAGTTACAAAATGGTCTTTGACTATATGATGATAT
1 TTTGTTGAGTCCCTGAATATCAAAAGTTACAAAATGGTCTTTGA-TAT-TGATG-TAT
828961 TTTGTTGAGTCC
1 TTTGTTGAGTCC
828973 TCGGCTATTA
Statistics
Matches: 103, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
50 42 0.41
53 5 0.05
54 1 0.01
55 5 0.05
57 5 0.05
58 35 0.34
59 10 0.10
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (55 bp):
TTTGTTGAGTCCCTGAATATCAAAAGTTACAAAATGGTCTTTGATATTGATGTAT
Found at i:841137 original size:29 final size:29
Alignment explanation
Indices: 841094--841176 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
841084 CTTACCTAAC
*
841094 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
841124 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
841153 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
841177 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:855693 original size:2 final size:2
Alignment explanation
Indices: 855686--855715 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
855676 GAAAAGGATA
855686 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
855716 GGAAAAGCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:871331 original size:30 final size:31
Alignment explanation
Indices: 871275--871332 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
871265 AAAAGATATT
* * *
871275 TGGTATTAAGTTATTTTAATGTGATTTTGAG
1 TGGTATTAAGTTATCTAAAGGTGATTTTGAG
871306 TGGTATTAA-TTATCTAAAGGTGATTTT
1 TGGTATTAAGTTATCTAAAGGTGATTTT
871333 ACATTGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.50
Consensus pattern (31 bp):
TGGTATTAAGTTATCTAAAGGTGATTTTGAG
Found at i:876657 original size:3 final size:3
Alignment explanation
Indices: 876645--876674 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
876635 AACTAAGCCC
876645 TCT T-T TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
876675 AGTTAGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:880219 original size:24 final size:24
Alignment explanation
Indices: 880192--880240 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
880182 AAAAGTCGGT
880192 GTCGGATCTTTTTAGACAGCGAAA
1 GTCGGATCTTTTTAGACAGCGAAA
880216 GTCGGATCTTTTTAGACAGCGAAA
1 GTCGGATCTTTTTAGACAGCGAAA
880240 G
1 G
880241 GCCGTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (24 bp):
GTCGGATCTTTTTAGACAGCGAAA
Done.