Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_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: 3924084
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 18
Found at i:806 original size:22 final size:21
Alignment explanation
Indices: 779--820 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
769 GTGACCGTCA
779 TTGACCACCGTTGACCAGACCT
1 TTGACCACCGTTGACC-GACCT
**
801 TTGACCGGCGTTGACCGACC
1 TTGACCACCGTTGACCGACC
821 GTTAACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.19, C:0.36, G:0.24, T:0.21
Consensus pattern (21 bp):
TTGACCACCGTTGACCGACCT
Found at i:9043 original size:25 final size:24
Alignment explanation
Indices: 9005--9054 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8995 TGCTGGGGCA
*
9005 GTTTGAGCCAGTTTTGACCCGACCC
1 GTTTGACCCAG-TTTGACCCGACCC
* *
9030 GTTTGACCCGGTTTGATCCGACCC
1 GTTTGACCCAGTTTGACCCGACCC
9054 G
1 G
9055 ACCCGTTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.14, C:0.32, G:0.26, T:0.28
Consensus pattern (24 bp):
GTTTGACCCAGTTTGACCCGACCC
Found at i:14103 original size:20 final size:21
Alignment explanation
Indices: 14051--14111 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
14041 TTCCCCTGTT
14051 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
*
14074 GGGGGAATCGGTTCCCTC-AG
1 GGGGGAATCGGTTCCCTCAAA
* *
14094 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
14112 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.16, C:0.26, G:0.36, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:17958 original size:22 final size:21
Alignment explanation
Indices: 17916--17955 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17906 TGAGTTTGTT
*
17916 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
17937 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
17956 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:22217 original size:22 final size:22
Alignment explanation
Indices: 22192--22241 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
22182 ATGGGCAAAC
22192 ACTTGTAGATCACAATTCACTA
1 ACTTGTAGATCACAATTCACTA
22214 ACTTGTAGATCACAATTCACTA
1 ACTTGTAGATCACAATTCACTA
22236 ACTTGT
1 ACTTGT
22242 CAGGCACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (22 bp):
ACTTGTAGATCACAATTCACTA
Found at i:22249 original size:22 final size:22
Alignment explanation
Indices: 22192--22249 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
22182 ATGGGCAAAC
*
22192 ACTTGTAGATCACAATTCACTA
1 ACTTGTAGAGCACAATTCACTA
*
22214 ACTTGTAGATCACAATTCACTA
1 ACTTGTAGAGCACAATTCACTA
22236 ACTTGTCAG-GCACA
1 ACTTGT-AGAGCACA
22250 TGGAGGGGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.29
Consensus pattern (22 bp):
ACTTGTAGAGCACAATTCACTA
Found at i:22912 original size:16 final size:18
Alignment explanation
Indices: 22886--22918 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22876 TTTTGGTATG
22886 AAAATGAAAATA-AAAAT
1 AAAATGAAAATAGAAAAT
22903 AAAA-GAAAATAGAAAA
1 AAAATGAAAATAGAAAA
22919 ATTCTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (18 bp):
AAAATGAAAATAGAAAAT
Found at i:23082 original size:17 final size:16
Alignment explanation
Indices: 23068--23099 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23058 ATAAAATATT
23068 TAAAATTAAAAAATAA
1 TAAAATTAAAAAATAA
23084 TAAAATTAAAAAATAA
1 TAAAATTAAAAAATAA
23100 GGGTTTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAAATTAAAAAATAA
Found at i:23631 original size:13 final size:14
Alignment explanation
Indices: 23591--23630 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
23581 CATTAATTAA
*
23591 AATTTAATTATTTT
1 AATTAAATTATTTT
*
23605 AAATAAA-TATTTT
1 AATTAAATTATTTT
23618 AATTAAATTATTT
1 AATTAAATTATTT
23631 AGAAAAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTAAATTATTTT
Found at i:23735 original size:54 final size:54
Alignment explanation
Indices: 23672--23835 Score: 303
Period size: 54 Copynumber: 3.1 Consensus size: 54
23662 ATGAGCACCG
23672 TTAATTTAATTTATACAAATTTAGAATTCTAAAGGGTCAACGTATAATTATAAA
1 TTAATTTAATTTATACAAATTTAGAATTCTAAAGGGTCAACGTATAATTATAAA
*
23726 TTAATTTAATTTATACAAATTTAGAATTCTAAAAGGTCAACGTATAATTATAAA
1 TTAATTTAATTTATACAAATTTAGAATTCTAAAGGGTCAACGTATAATTATAAA
*
23780 TTAATTTAATTTATACAAATTTAGAA-TCTAAAGGGTCAACATATAATTATAAA
1 TTAATTTAATTTATACAAATTTAGAATTCTAAAGGGTCAACGTATAATTATAAA
23833 TTA
1 TTA
23836 GTTAAAAATT
Statistics
Matches: 107, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
53 28 0.26
54 79 0.74
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (54 bp):
TTAATTTAATTTATACAAATTTAGAATTCTAAAGGGTCAACGTATAATTATAAA
Found at i:28309 original size:25 final size:23
Alignment explanation
Indices: 28281--28335 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
28271 ATTAATTCAG
28281 GAGTGCAAAAACTGCACTAATACAA
1 GAGTGCAAAAA--GCACTAATACAA
* *
28306 GAGTGCACAAAGCACTGATACAA
1 GAGTGCAAAAAGCACTAATACAA
28329 GAGTGCA
1 GAGTGCA
28336 CGAATTCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 18 0.64
25 10 0.36
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.15
Consensus pattern (23 bp):
GAGTGCAAAAAGCACTAATACAA
Found at i:30005 original size:19 final size:21
Alignment explanation
Indices: 29962--30007 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
29952 GACTTAATCC
**
29962 AAAAATCAAAGGAAAATGACT
1 AAAAATCAAAGGAAAATGAAG
29983 AAAAAT-AAA-GAAAATGAAG
1 AAAAATCAAAGGAAAATGAAG
30002 AAAAAT
1 AAAAAT
30008 TACATCACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 14 0.61
20 3 0.13
21 6 0.26
ACGTcount: A:0.70, C:0.04, G:0.13, T:0.13
Consensus pattern (21 bp):
AAAAATCAAAGGAAAATGAAG
Found at i:30941 original size:14 final size:14
Alignment explanation
Indices: 30922--30957 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
30912 ATATATATGT
*
30922 ATGTAATGGCATGA
1 ATGTAATGGCAAGA
30936 ATGTAATGGCAAGA
1 ATGTAATGGCAAGA
*
30950 ATATAATG
1 ATGTAATG
30958 TCCTTATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (14 bp):
ATGTAATGGCAAGA
Found at i:32586 original size:2 final size:2
Alignment explanation
Indices: 32579--32605 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32569 GAAACAAATA
32579 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
32606 CAAACAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35254 original size:71 final size:71
Alignment explanation
Indices: 35164--35378 Score: 403
Period size: 71 Copynumber: 3.0 Consensus size: 71
35154 TATATAATCA
* *
35164 AACTTTAAATAAAAAAAAAAAAGAAAAGGGTTAAAATTAACCAAATATATTAAGGGTGTAATAAA
1 AACTTTAAATAAAATAAAAAAATAAAAGGGTTAAAATTAACCAAATATATTAAGGGTGTAATAAA
35229 TAAAAG
66 TAAAAG
35235 AACTTTAAATAAAATAAAAAAATAAAAGGGTTAAAATTAACCAAATATATTAAGGGTGTAATAAA
1 AACTTTAAATAAAATAAAAAAATAAAAGGGTTAAAATTAACCAAATATATTAAGGGTGTAATAAA
35300 TAAAAG
66 TAAAAG
*
35306 AATTTTAAATAAAATAAAAAAATAAAAGGGTTAAAATTAACCAAATATATTAAGGGTGTAATAAA
1 AACTTTAAATAAAATAAAAAAATAAAAGGGTTAAAATTAACCAAATATATTAAGGGTGTAATAAA
35371 TAAAAG
66 TAAAAG
35377 AA
1 AA
35379 TAAATGAGAT
Statistics
Matches: 141, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 141 1.00
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.25
Consensus pattern (71 bp):
AACTTTAAATAAAATAAAAAAATAAAAGGGTTAAAATTAACCAAATATATTAAGGGTGTAATAAA
TAAAAG
Found at i:39052 original size:23 final size:20
Alignment explanation
Indices: 39026--39087 Score: 52
Period size: 23 Copynumber: 2.9 Consensus size: 20
39016 CCATAAACCC
39026 AGGGGGTATCGATTCCCCTTCAA
1 AGGGGG-ATCGATT-CCC-TCAA
* * *
39049 AGGGGAAATCGGTTCCCTCAT
1 AGGGG-GATCGATTCCCTCAA
*
39070 AGGGGGATCGATTTCCTC
1 AGGGGGATCGATTCCCTC
39088 TGCACCAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 10 0.31
21 8 0.25
22 3 0.09
23 11 0.34
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (20 bp):
AGGGGGATCGATTCCCTCAA
Found at i:39085 original size:21 final size:22
Alignment explanation
Indices: 39026--39085 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 22
39016 CCATAAACCC
*
39026 AGGGGGTATCGATTCCCCTTCAA
1 AGGGGG-ATCGATTTCCCTTCAA
* * *
39049 AGGGGAAATCG-GTTCCC-TCAT
1 AGGGG-GATCGATTTCCCTTCAA
39070 AGGGGGATCGATTTCC
1 AGGGGGATCGATTTCC
39086 TCTGCACCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
20 4 0.14
21 12 0.41
22 4 0.14
23 9 0.31
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (22 bp):
AGGGGGATCGATTTCCCTTCAA
Found at i:48149 original size:201 final size:201
Alignment explanation
Indices: 47804--48207 Score: 799
Period size: 201 Copynumber: 2.0 Consensus size: 201
47794 TTCATGATGC
47804 ATTCCCTAGAGAGACTATCTTGTTCGAAAATATTTTCCTACTTTTGTTTTTCAAAATGTGAAACA
1 ATTCCCTAGAGAGACTATCTTGTTCGAAAATATTTTCCTACTTTTGTTTTTCAAAATGTGAAACA
47869 TTTCCCATTTTTTAAGAAACAAAATTGTGACCCTTGTTTTAGGCTCGCAATTGAATCATATTATA
66 TTTCCCATTTTTTAAGAAACAAAATTGTGACCCTTGTTTTAGGCTCGCAATTGAATCATATTATA
47934 AAACGTGACTTCATTAAATATTAAAAGAATAAATGCTCCTTTAATCTTTCAAAGTTATAGTTCTT
131 AAACGTGACTTCATTAAATATTAAAAGAATAAATGCTCCTTTAATCTTTCAAAGTTATAGTTCTT
47999 AAAAAA
196 AAAAAA
48005 ATTCCCTAGAGAGACTATCTTGTTCGAAAATATTTTCCTACTTTTGTTTTTCAAAATGTGAAACA
1 ATTCCCTAGAGAGACTATCTTGTTCGAAAATATTTTCCTACTTTTGTTTTTCAAAATGTGAAACA
48070 TTTCCCATTTTTTAAGAAACAAAATTGTGACCCTTGTTTTAGGCTCGCAATTGAATCATATTATA
66 TTTCCCATTTTTTAAGAAACAAAATTGTGACCCTTGTTTTAGGCTCGCAATTGAATCATATTATA
48135 AAACGTGACTTCATTAAATATTAAAAGAATAAATGCTCCTTTAATCTTTCAAAGTTATAGTTCTT
131 AAACGTGACTTCATTAAATATTAAAAGAATAAATGCTCCTTTAATCTTTCAAAGTTATAGTTCTT
*
48200 TAAAAA
196 AAAAAA
48206 AT
1 AT
48208 GTCAAGACTA
Statistics
Matches: 202, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 202 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (201 bp):
ATTCCCTAGAGAGACTATCTTGTTCGAAAATATTTTCCTACTTTTGTTTTTCAAAATGTGAAACA
TTTCCCATTTTTTAAGAAACAAAATTGTGACCCTTGTTTTAGGCTCGCAATTGAATCATATTATA
AAACGTGACTTCATTAAATATTAAAAGAATAAATGCTCCTTTAATCTTTCAAAGTTATAGTTCTT
AAAAAA
Found at i:52922 original size:20 final size:20
Alignment explanation
Indices: 52877--52980 Score: 81
Period size: 20 Copynumber: 5.1 Consensus size: 20
52867 CAACGCAAAC
**
52877 TCCAAATTCGCAAC-AAAGTT
1 TCCAAATTCGCAACGTGA-TT
*
52897 TACAAATTCGCAACGTGATT
1 TCCAAATTCGCAACGTGATT
52917 TCCAAATTCGCAACACG-GAATT
1 TCCAAATTCGC-A-ACGTG-ATT
52939 T-CAAATTCGCAAC-TGGATT
1 TCCAAATTCGCAACGT-GATT
**
52958 TCTGAATTCGCAACGTGAATT
1 TCCAAATTCGCAACGTG-ATT
52979 TC
1 TC
52981 TTTTTCGCAA
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
19 6 0.09
20 38 0.55
21 18 0.26
22 7 0.10
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (20 bp):
TCCAAATTCGCAACGTGATT
Found at i:52958 original size:41 final size:40
Alignment explanation
Indices: 52858--52971 Score: 117
Period size: 40 Copynumber: 2.8 Consensus size: 40
52848 AAAACGACCA
** **
52858 ACAAATTCGCAACGCAAACTCCAAATTCGCAACAAAGTTT
1 ACAAATTCGCAACGTGATTTCCAAATTCGCAACAAAGTTT
52898 ACAAATTCGCAACGTGATTTCCAAATTCGCAACACGGAA-TTT
1 ACAAATTCGCAACGTGATTTCCAAATTCGCAACA---AAGTTT
**
52940 -CAAATTCGCAAC-TGGATTTCTGAATTCGCAAC
1 ACAAATTCGCAACGT-GATTTCCAAATTCGCAAC
52972 GTGAATTTCT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
40 31 0.48
41 28 0.44
42 3 0.05
43 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (40 bp):
ACAAATTCGCAACGTGATTTCCAAATTCGCAACAAAGTTT
Found at i:52981 original size:21 final size:21
Alignment explanation
Indices: 52900--52981 Score: 91
Period size: 20 Copynumber: 4.0 Consensus size: 21
52890 CAAAGTTTAC
*
52900 AAATTCGCAACGTG-ATTTCC
1 AAATTCGCAACGTGAATTTCT
52920 AAATTCGCAACACG-GAATTTC-
1 AAATTCGC-A-ACGTGAATTTCT
*
52941 AAATTCGCAAC-TGGATTTCT
1 AAATTCGCAACGTGAATTTCT
*
52961 GAATTCGCAACGTGAATTTCT
1 AAATTCGCAACGTGAATTTCT
52982 TTTTCGCAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
19 8 0.15
20 19 0.36
21 18 0.34
22 8 0.15
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (21 bp):
AAATTCGCAACGTGAATTTCT
Found at i:53057 original size:39 final size:39
Alignment explanation
Indices: 52985--53091 Score: 126
Period size: 39 Copynumber: 2.7 Consensus size: 39
52975 AATTTCTTTT
* *
52985 TCGCAACAC-AAGTTTCCTTTTCGCAACAAGATTTTTTAAA
1 TCGCAACACGAA-TTT-TTTTTCGCAACAAGATTTTTGAAA
** *
53025 TCGCAACACGAATTTTTTTTCGCAACTTGATTTTTGAAT
1 TCGCAACACGAATTTTTTTTCGCAACAAGATTTTTGAAA
*
53064 TCGCAACACGAATTTTAATTTCGCAACA
1 TCGCAACACGAATTTT-TTTTCGCAACA
53092 GCTTTTATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 35 0.60
40 21 0.36
41 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (39 bp):
TCGCAACACGAATTTTTTTTCGCAACAAGATTTTTGAAA
Found at i:53079 original size:20 final size:19
Alignment explanation
Indices: 52921--53091 Score: 78
Period size: 20 Copynumber: 8.6 Consensus size: 19
52911 GTGATTTCCA
*
52921 AATTCGCAACACGGAATTTCA
1 AATTCGCAACAC-GAATTT-T
* *
52942 AATTCGCAAC-TGGATTTCT
1 AATTCGCAACACGAATTT-T
**
52961 GAATTCGCAACGTGAATTTCT
1 -AATTCGCAACACGAATTT-T
**
52982 TTTTCGCAACAC-AAGTTTCCT
1 AATTCGCAACACGAA-TTT--T
* * *
53003 -TTTCGCAACAAGATTTTTT
1 AATTCGCAACACGA-ATTTT
*
53022 AAATCGCAACACGAATTTT
1 AATTCGCAACACGAATTTT
** ** *
53041 TTTTCGCAACTTGATTTTT
1 AATTCGCAACACGAATTTT
53060 GAATTCGCAACACGAATTTT
1 -AATTCGCAACACGAATTTT
53080 AATTTCGCAACA
1 AA-TTCGCAACA
53092 GCTTTTATTT
Statistics
Matches: 116, Mismatches: 25, Indels: 19
0.73 0.16 0.12
Matches are distributed among these distances:
19 28 0.24
20 64 0.55
21 24 0.21
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (19 bp):
AATTCGCAACACGAATTTT
Found at i:53107 original size:18 final size:18
Alignment explanation
Indices: 53076--53110 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53066 GCAACACGAA
53076 TTTTAATTTCGCAACAGC
1 TTTTAATTTCGCAACAGC
* *
53094 TTTTATTTTTGCAACAG
1 TTTTAATTTCGCAACAG
53111 AAATGTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (18 bp):
TTTTAATTTCGCAACAGC
Found at i:53267 original size:14 final size:15
Alignment explanation
Indices: 53248--53286 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
53238 TCCTCATCTC
53248 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
53262 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
53278 TAATTTTTT
1 TAATTTTTT
53287 AATGATATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
16 10 0.45
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:53914 original size:11 final size:12
Alignment explanation
Indices: 53879--53913 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
53869 ACCACATTTC
*
53879 CAATACCAAAAA
1 CAATATCAAAAA
53891 CAATATCAAAAA
1 CAATATCAAAAA
*
53903 CAATCTCAAAA
1 CAATATCAAAA
53914 CCTACAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.14
Consensus pattern (12 bp):
CAATATCAAAAA
Found at i:54069 original size:24 final size:23
Alignment explanation
Indices: 54036--54087 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
54026 AGTACTCAAA
54036 ATTTGATCTTGATCAATACCCAG
1 ATTTGATCTTGATCAATACCCAG
* *
54059 ACTTTGATCTTGGTCAATACTCAG
1 A-TTTGATCTTGATCAATACCCAG
54083 ATTTG
1 ATTTG
54088 GATGATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (23 bp):
ATTTGATCTTGATCAATACCCAG
Found at i:56374 original size:18 final size:18
Alignment explanation
Indices: 56351--56389 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
56341 AAGCAAAAGG
*
56351 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
56369 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
56387 AAA
1 AAA
56390 CCAGCTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.23, G:0.03, T:0.15
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:56743 original size:20 final size:20
Alignment explanation
Indices: 56720--56758 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56710 ATCGCAACGT
56720 GAATTTGACTTTCGCGTTGC
1 GAATTTGACTTTCGCGTTGC
*
56740 GAATTTGATTTTCGCGTTG
1 GAATTTGACTTTCGCGTTG
56759 TGAAAGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.44
Consensus pattern (20 bp):
GAATTTGACTTTCGCGTTGC
Found at i:57669 original size:21 final size:20
Alignment explanation
Indices: 57624--57696 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
57614 ACTAACCTTA
*
57624 TGAACGATGA-GAGGGACCTCA
1 TGAACGATGAGGA-GG-CCTCT
57645 TGAACGATGAGTGAGGCCTCT
1 TGAACGATGAG-GAGGCCTCT
*
57666 TGAATGAT-AGGAGGGGCCTCT
1 TGAACGATGAGGA--GGCCTCT
*
57687 TAAACGATGA
1 TGAACGATGA
57697 CATGTGAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 34 0.79
22 3 0.07
23 2 0.05
ACGTcount: A:0.30, C:0.16, G:0.33, T:0.21
Consensus pattern (20 bp):
TGAACGATGAGGAGGCCTCT
Found at i:57858 original size:12 final size:12
Alignment explanation
Indices: 57839--57880 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
57829 GGGCTGCTAA
57839 AAATAAATTAAT
1 AAATAAATTAAT
*
57851 ACATAAATCT-AT
1 AAATAAAT-TAAT
*
57863 AAATAAATAAAT
1 AAATAAATTAAT
57875 AAATAA
1 AAATAA
57881 TGTCAAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 24 0.96
13 1 0.04
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATAAATTAAT
Found at i:58090 original size:21 final size:21
Alignment explanation
Indices: 58066--58106 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
58056 GTCGTCACCT
*
58066 AAAGTACTGACCTCATCACGC
1 AAAGCACTGACCTCATCACGC
58087 AAAGCACTGACCTCATCACG
1 AAAGCACTGACCTCATCACG
58107 TAACTCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.34, G:0.15, T:0.17
Consensus pattern (21 bp):
AAAGCACTGACCTCATCACGC
Found at i:58303 original size:42 final size:42
Alignment explanation
Indices: 58224--58321 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
58214 GTGAAGGAAT
* * * *
58224 AGGTGATGGCTCTCATTGTGGAGATGTATAATTGGCTCGATC
1 AGGTGATGGCTCTCAGTGTCGAGATGTAGAATCGGCTCGATC
** *
58266 AGGTGATGGCTCTGGGTGTCGAGCTGTAGAATCGGCTCGATC
1 AGGTGATGGCTCTCAGTGTCGAGATGTAGAATCGGCTCGATC
58308 AGGTGATGGCTCTC
1 AGGTGATGGCTCTC
58322 GAAGTGGGGG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.30
Consensus pattern (42 bp):
AGGTGATGGCTCTCAGTGTCGAGATGTAGAATCGGCTCGATC
Found at i:59843 original size:13 final size:13
Alignment explanation
Indices: 59825--59892 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 13
59815 TTAAATTCGC
59825 AACACGAAAATGA
1 AACACGAAAATGA
59838 AACACGAAAATGA
1 AACACGAAAATGA
* *
59851 AA-ATCGCAACACGA
1 AACA-CG-AAAATGA
* *
59865 AA-ATGAAAATCGC
1 AACACGAAAAT-GA
59878 AACACGAAAATGA
1 AACACGAAAATGA
59891 AA
1 AA
59893 AACGTAACGT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
12 4 0.09
13 24 0.56
14 15 0.35
ACGTcount: A:0.59, C:0.18, G:0.15, T:0.09
Consensus pattern (13 bp):
AACACGAAAATGA
Found at i:59863 original size:20 final size:20
Alignment explanation
Indices: 59838--59893 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
59828 ACGAAAATGA
59838 AACACGAAAATGAAAATCGC
1 AACACGAAAATGAAAATCGC
59858 AACACGAAAATGAAAATCGC
1 AACACGAAAATGAAAATCGC
59878 AACACGAAAATGAAAA
1 AACACGAAAATGAAAA
59894 ACGTAACGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.59, C:0.18, G:0.14, T:0.09
Consensus pattern (20 bp):
AACACGAAAATGAAAATCGC
Found at i:59908 original size:40 final size:40
Alignment explanation
Indices: 59829--59913 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
59819 ATTCGCAACA
* *
59829 CGAAAATGAAACACGAAAATGAAAATCGCAACACGAAAAT
1 CGAAAATGAAACACGAAAATGAAAAACGCAACACAAAAAT
* * **
59869 -GAAAATCGCAACACGAAAATGAAAAACGTAACGTAAAAAT
1 CGAAAAT-GAAACACGAAAATGAAAAACGCAACACAAAAAT
59909 CGAAA
1 CGAAA
59914 CGCGAAAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
39 6 0.16
40 27 0.73
41 4 0.11
ACGTcount: A:0.58, C:0.16, G:0.15, T:0.11
Consensus pattern (40 bp):
CGAAAATGAAACACGAAAATGAAAAACGCAACACAAAAAT
Found at i:59927 original size:54 final size:53
Alignment explanation
Indices: 59821--59940 Score: 168
Period size: 54 Copynumber: 2.2 Consensus size: 53
59811 AAACTTAAAT
* * *
59821 TCGCAACACGAAAATGAAACACGAAAATGAAAATCGCAACACGAAAATGAAAA
1 TCGCAACACGAAAATGAAAAACGAAAATAAAAATCGAAACACGAAAATGAAAA
** *
59874 TCGCAACACGAAAATGAAAAACGTAACGTAAAAATCGAAACGCGAAAATGAAAA
1 TCGCAACACGAAAATGAAAAACG-AAAATAAAAATCGAAACACGAAAATGAAAA
*
59928 TCGCAACGCGAAA
1 TCGCAACACGAAA
59941 CTAAAATTGC
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
53 22 0.37
54 37 0.63
ACGTcount: A:0.54, C:0.19, G:0.17, T:0.10
Consensus pattern (53 bp):
TCGCAACACGAAAATGAAAAACGAAAATAAAAATCGAAACACGAAAATGAAAA
Found at i:59946 original size:40 final size:38
Alignment explanation
Indices: 59831--59946 Score: 116
Period size: 34 Copynumber: 3.1 Consensus size: 38
59821 TCGCAACACG
*
59831 AAAAT-GAAACACGAAAATGAAAATCGCAACACGAAAATG
1 AAAATCGAAACACGAAAATGAAAATCGCAAC-CG-AAATA
* * *
59870 AAAATCGCAACACGAAAATGAAAAACGTAA-CG---TA
1 AAAATCGAAACACGAAAATGAAAATCGCAACCGAAATA
*
59904 AAAATCGAAACGCGAAAATGAAAATCGCAACGCGAAACTA
1 AAAATCGAAACACGAAAATGAAAATCGCAAC-CGAAA-TA
59944 AAA
1 AAA
59947 TTGCGTTGCG
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
34 27 0.44
36 2 0.03
38 2 0.03
39 5 0.08
40 26 0.42
ACGTcount: A:0.57, C:0.17, G:0.16, T:0.10
Consensus pattern (38 bp):
AAAATCGAAACACGAAAATGAAAATCGCAACCGAAATA
Found at i:60362 original size:22 final size:22
Alignment explanation
Indices: 60337--60394 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
60327 TATGGAGATT
60337 GATGTCATCGGAGATGGGGACG
1 GATGTCATCGGAGATGGGGACG
60359 GATGTCATCGGAGATGGGGACG
1 GATGTCATCGGAGATGGGGACG
*
60381 GATGTCACCGGAGA
1 GATGTCATCGGAGA
60395 GAGTGAGAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.24, C:0.16, G:0.43, T:0.17
Consensus pattern (22 bp):
GATGTCATCGGAGATGGGGACG
Found at i:60580 original size:20 final size:20
Alignment explanation
Indices: 60557--60611 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
60547 TGACTTCTGT
60557 GTTGCGAATTACAAATTCGC
1 GTTGCGAATTACAAATTCGC
*
60577 GTTGCGATTTACAAATTCGC
1 GTTGCGAATTACAAATTCGC
* *
60597 GTTGTGAATTTCAAA
1 GTTGCGAATTACAAA
60612 ACTGAGTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (20 bp):
GTTGCGAATTACAAATTCGC
Found at i:60655 original size:19 final size:19
Alignment explanation
Indices: 60617--60665 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
60607 TCAAAACTGA
* *
60617 GTTGCGAAATTGGAGTTCGC
1 GTTGC-AAATTCGAGATCGC
60637 GTTGCAAATTCGAGATCGC
1 GTTGCAAATTCGAGATCGC
*
60656 GTTGCGAATT
1 GTTGCAAATT
60666 TGTTGGTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (19 bp):
GTTGCAAATTCGAGATCGC
Found at i:61617 original size:131 final size:130
Alignment explanation
Indices: 61378--61716 Score: 362
Period size: 131 Copynumber: 2.6 Consensus size: 130
61368 TTTAAGAGAT
* * * * * ** *
61378 AAAACGATAATAACTAATTATTTCCAATTGAGAATAAATGACCTT-TCATGCCTTAAAACAGTCA
1 AAAATGATAATATCTAATTATTTTCAATCGAAAATAAATGA-CTTCTCATATCTTAAAGCAGTCA
* * * *
61442 TTTATTACCCCACTTGAAATGAAGATATATTACTATTTCGTCTTAAAATTCAATATCGATTCAAG
65 TTTATTACTCCAATTGAAATGAAGATATATCACTATTTCGTCTTAAAAATCAATATCGATTCAAG
61507 TA
130 -A
* * *
61509 AAAATGATAATATCTAATGATTTTCAATCGAAAATAAATGATTTCTCATATCTTAAAGCAGTAAT
1 AAAATGATAATATCTAATTATTTTCAATCGAAAATAAATGACTTCTCATATCTTAAAGCAGTCAT
* * * *
61574 TTATTGCTCCAATTGAAATGAAGATATATCATTA-TTCTGTCTTAAAAATCAATATTGATTCGAG
66 TTATTACTCCAATTGAAATGAAGATATATCACTATTTC-GTCTTAAAAATCAATATCGATTCAAG
61638 A
130 A
* * * * * * *
61639 GAAATCAGTAATATCGAATTA-TTTCTAATCGATAATAAATGACCTCTTA-ATCCTTAAAGCAAT
1 AAAATGA-TAATATCTAATTATTTTC-AATCGAAAATAAATGACTTCTCATAT-CTTAAAGCAGT
61702 CATTTATTACTCCAA
63 CATTTATTACTCCAA
61717 CCAAAATAAA
Statistics
Matches: 173, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
130 17 0.10
131 156 0.90
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (130 bp):
AAAATGATAATATCTAATTATTTTCAATCGAAAATAAATGACTTCTCATATCTTAAAGCAGTCAT
TTATTACTCCAATTGAAATGAAGATATATCACTATTTCGTCTTAAAAATCAATATCGATTCAAGA
Found at i:64996 original size:233 final size:233
Alignment explanation
Indices: 64564--65565 Score: 1188
Period size: 233 Copynumber: 4.3 Consensus size: 233
64554 TTGGAAATTG
* * ** *
64564 TTTTCTCATTTTTC-AGAAAATCATGTGAAAACATCCTGCCCGAAGAACTTATGGATGACCC-AA
1 TTTTCTCATTTTTCGAG-AGA-CATGTGAAAACATCCTGCCCAAAGGTCTTATGGATGGCCCGAA
* * * * * *
64627 AGAACTTATCATCTTGCTCGAAAGGCTTATAGATGACCTGAAGGAATT-AGACATCATGATTGAA
64 AG-ACTTATCATCTTGCTCAAAAGACTTACAGATGACC-GAAGGATTTAAG-CATCATGCTAGAA
* *
64691 AGACTTACTGATGGCCCGAAGGACTTACGAATTTTGGAAATAGTTTACTAGGTAAGAAA-TTTTT
126 AGACTTACTGATGGCCCGAAGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTCT
*
64755 CTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAAG
191 CTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAAC
* * * *
64798 TTTTCTCATTTTTCGAGAGACATATGAAAACATCCTGCCCAAAGGTCTTGTGGGTGGTCCGAAAG
1 TTTTCTCATTTTTCGAGAGACATGTGAAAACATCCTGCCCAAAGGTCTTATGGATGGCCCGAAAG
64863 ACTTATCATCTTGCTTC-AAAGACTTACAGATGACCTGAAGGATTTAAGCATCATGCTAGAAAGA
66 ACTTATCATCTTGC-TCAAAAGACTTACAGATGACC-GAAGGATTTAAGCATCATGCTAGAAAGA
* * *
64927 CTTACTGATGGCCCGAGGGACTTACTAATTTTTGAAATAGCTTACTAGGTAAGAAACTTTCT-TT
129 CTTACTGATGGCCCGAAGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTCTCTT
* *
64991 ACTTTTCAACAATTTCAATTTTCATATTTAAATGAGAAAC
194 ACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAAC
* * *
65031 TTTTCTCATTTTTCGAGAGATATGTGAAAACATCCTGCCCAAAGGTCTTTTGGATGGCCCGAAGG
1 TTTTCTCATTTTTCGAGAGACATGTGAAAACATCCTGCCCAAAGGTCTTATGGATGGCCCGAAAG
* * *
65096 ACTTATCATCTTGCTCAAAAGACTTACAGATGAACCGATGGATTTAAGCATCATGCTCGAAAG-T
66 ACTTATCATCTTGCTCAAAAGACTTACAGATG-ACCGAAGGATTTAAGCATCATGCTAGAAAGAC
* * * * * *
65160 TTCACTGATGGCCTGAAGGACATT-CCAGTTTCGGAAATAGTTTACT-CGCAAGAAACTTT-TCT
130 TT-ACTGATGGCCCGAAGGAC-TTACTAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTCTCT
*
65222 TACTTTTCAAAAATTTCAAATTTCAGATTTAAATGAGAAAC
193 TACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAAC
* * * * * *
65263 TTTTCT-ATTTTTTAGATAGACATGTGAAAATATCCT-CCCTGAAGGTCTTATGAATAGCCCGAA
1 TTTTCTCA-TTTTTCGAGAGACATGTGAAAACATCCTGCCC-AAAGGTCTTATGGATGGCCCGAA
* ** * * **
65326 AGACTTATCATCTTGATTGAAAGACTTACAGATGAGCCGAAGGTTTTAAGAATCACCCTCA-AAA
64 AGACTTATCATCTTGCTCAAAAGACTTACAGATGA-CCGAAGGATTTAAGCATCATGCT-AGAAA
* * * *
65390 GAATTATTGATGGCCTGAGGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTC-C
127 GACTTACTGATGGCCCGAAGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTCTC
* * *
65454 TTACTTTTTAACAATTTCAATTTTCAGATTTAAATGAGAAAA
192 TTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAAC
* * * * * * * *
65496 TTTTCTTATTTTTCTAGAAATATGTGAAAACATCGTGCCCGAAA-GACTTATGGATGACCCGAAG
1 TTTTCTCATTTTTCGAGAGACATGTGAAAACATCCTGCCC-AAAGGTCTTATGGATGGCCCGAAA
65560 GACTTA
65 GACTTA
65566 CCAAATTTGG
Statistics
Matches: 661, Mismatches: 87, Indels: 41
0.84 0.11 0.05
Matches are distributed among these distances:
231 8 0.01
232 190 0.29
233 422 0.64
234 39 0.06
235 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (233 bp):
TTTTCTCATTTTTCGAGAGACATGTGAAAACATCCTGCCCAAAGGTCTTATGGATGGCCCGAAAG
ACTTATCATCTTGCTCAAAAGACTTACAGATGACCGAAGGATTTAAGCATCATGCTAGAAAGACT
TACTGATGGCCCGAAGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTCTCTTAC
TTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAAC
Found at i:65460 original size:465 final size:465
Alignment explanation
Indices: 64564--65565 Score: 1349
Period size: 465 Copynumber: 2.1 Consensus size: 465
64554 TTGGAAATTG
* * *
64564 TTTTCTCATTTTTCAGAAAATCATGTGAAAACATCCTGCCCGAAGAACTTATGGATGACCCAAAG
1 TTTTCTCATTTTTCAG-AAAT-ATGTGAAAACATCCTGCCCAAAGGACTTATGGATGACCCGAAG
* * * * *
64629 AACTTATCATCTTGCTCGAAAGGCTTATAGATGACCTGAAGGAATTAGACATCATGATTGAAAGA
64 GACTTATCATCTTGCTCAAAAGACTTACAGATGACCTGAAGGAATTAGACATCATGATCGAAAGA
* * * * *
64694 CTTACTGATGGCCCGAAGGACTTACGAATTTTGGAAATAGTTTACTAGGTAAGAAATTTTTCTTA
129 CTTACTGATGGCCCGAAGGACTTACCAATTTCGGAAATAGTTTACTACGCAAGAAACTTTTCTTA
* * *
64759 CTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAAGTTTTCTCATTTTTCGAGAGACATATG
194 CTTTTCAAAAATTTCAAATTTCAGATTTAAATGAGAAACTTTTCTCATTTTTAGAGAGACATATG
* ** * * *
64824 AAAACATCCTGCCCAAAGGTCTTGTGGGTGGTCCGAAAGACTTATCATCTTGCTTCAAAGACTTA
259 AAAACATCCTGCCCAAAGGTCTTATGAATAGCCCGAAAGACTTATCATCTTGATTCAAAGACTTA
* ** *
64889 CAGATGACCTGAAGGATTTAAGCATCATGCTAGAAAGACTTACTGATGGCCCGAGGGACTTACTA
324 CAGATGACCTGAAGGATTTAAGAATCACCCTAGAAAGAATTACTGATGGCCCGAGGGACTTACTA
* * *
64954 ATTTTTGAAATAGCTTACTAGGTAAGAAACTTTCTTTACTTTTCAACAATTTCAATTTTCATATT
389 ATTTTGGAAATAGCTTACTAGGTAAGAAACTTTCCTTACTTTTCAACAATTTCAATTTTCAGATT
*
65019 TAAATGAGAAAC
454 TAAATGAGAAAA
* * * *
65031 TTTTCTCATTTTTCGAGAGATATGTGAAAACATCCTGCCCAAAGGTCTTTTGGATGGCCCGAAGG
1 TTTTCTCATTTTTC-AGAAATATGTGAAAACATCCTGCCCAAAGGACTTATGGATGACCCGAAGG
* * *
65096 ACTTATCATCTTGCTCAAAAGACTTACAGATGAACC-GATGGATTTA-AGCATCATGCTCGAAAG
65 ACTTATCATCTTGCTCAAAAGACTTACAGATG-ACCTGAAGGAATTAGA-CATCATGATCGAAAG
* * *
65159 -TTTCACTGATGGCCTGAAGGACATT-CCAGTTTCGGAAATAGTTTACT-CGCAAGAAACTTTTC
128 ACTT-ACTGATGGCCCGAAGGAC-TTACCAATTTCGGAAATAGTTTACTACGCAAGAAACTTTTC
*
65221 TTACTTTTCAAAAATTTCAAATTTCAGATTTAAATGAGAAACTTTTCT-ATTTTTTAGATAGACA
191 TTACTTTTCAAAAATTTCAAATTTCAGATTTAAATGAGAAACTTTTCTCA-TTTTTAGAGAGACA
* * * *
65285 TGTGAAAATATCCT-CCCTGAAGGTCTTATGAATAGCCCGAAAGACTTATCATCTTGATTGAAAG
255 TATGAAAACATCCTGCCC-AAAGGTCTTATGAATAGCCCGAAAGACTTATCATCTTGATTCAAAG
* * *
65349 ACTTACAGATGAGCC-GAAGGTTTTAAGAATCACCCTCA-AAAGAATTATTGATGGCCTGAGGGA
319 ACTTACAGATGA-CCTGAAGGATTTAAGAATCACCCT-AGAAAGAATTACTGATGGCCCGAGGGA
* *
65412 CTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTCCTTACTTTTTAACAATTTCAATTT
382 CTTACTAATTTTGGAAATAGCTTACTAGGTAAGAAACTTTCCTTACTTTTCAACAATTTCAATTT
65477 TCAGATTTAAATGAGAAAA
447 TCAGATTTAAATGAGAAAA
* *
65496 TTTTCTTATTTTTCTAGAAATATGTGAAAACATCGTGCCCGAAA-GACTTATGGATGACCCGAAG
1 TTTTCTCATTTTTC-AGAAATATGTGAAAACATCCTGCCC-AAAGGACTTATGGATGACCCGAAG
65560 GACTTA
64 GACTTA
65566 CCAAATTTGG
Statistics
Matches: 468, Mismatches: 57, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
464 4 0.01
465 311 0.66
466 129 0.28
467 22 0.05
468 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (465 bp):
TTTTCTCATTTTTCAGAAATATGTGAAAACATCCTGCCCAAAGGACTTATGGATGACCCGAAGGA
CTTATCATCTTGCTCAAAAGACTTACAGATGACCTGAAGGAATTAGACATCATGATCGAAAGACT
TACTGATGGCCCGAAGGACTTACCAATTTCGGAAATAGTTTACTACGCAAGAAACTTTTCTTACT
TTTCAAAAATTTCAAATTTCAGATTTAAATGAGAAACTTTTCTCATTTTTAGAGAGACATATGAA
AACATCCTGCCCAAAGGTCTTATGAATAGCCCGAAAGACTTATCATCTTGATTCAAAGACTTACA
GATGACCTGAAGGATTTAAGAATCACCCTAGAAAGAATTACTGATGGCCCGAGGGACTTACTAAT
TTTGGAAATAGCTTACTAGGTAAGAAACTTTCCTTACTTTTCAACAATTTCAATTTTCAGATTTA
AATGAGAAAA
Found at i:65826 original size:151 final size:150
Alignment explanation
Indices: 65393--65843 Score: 552
Period size: 149 Copynumber: 3.0 Consensus size: 150
65383 CTCAAAAGAA
* * * *
65393 TTATTGATGGCCTGAGGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTCCTTAC
1 TTATTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTAC
* * * * *
65458 TTTTTAACAATTTCAATTTTCAGATTTAAATGAGAAA-ATTTTCTTATTTTTCT-AGAA-ATATG
66 TTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAATA-TTTCTCATTTTT-TGA-AAGACAAG
* * * * *
65520 TGAAAACATCGTGCCCGAAAGAC
128 TGAAAACACCATGCCTGAAGGTC
* * * * * *
65543 TTATGGATGACCCGAAGGACTTACCAAATTTGGAAATAATTTACTAAGTAAGAAACCTTTCTT-C
1 TTATTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTAC
* * *
65607 TTTTCAAAAATTTCAATTTTCAAATTTAAATGAGAAACT-TTTCTCATTTTTCGAAAGACAAGTA
66 TTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAA-TATTTCTCATTTTTTGAAAGACAAGTG
*
65671 AAAACACCCTGCCTGAAGGTC
130 AAAACACCATGCCTGAAGGTC
* *
65692 TTGTTGATGGCCCGAAGGACTTACCAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTTCTTAC
1 TTATTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTAC
* * * *
65757 TTTTCCAAAAAGTTCAAATTTCAGATTTAAATGAGAAATATTTCTCGTTTTTTGAAAGACACGTG
66 TTTT-CAAAAATTTCAATTTTCAGATTTAAATGAGAAATATTTCTCATTTTTTGAAAGACAAGTG
65822 AAAACACCATGCCTGAAGGTC
130 AAAACACCATGCCTGAAGGTC
65843 T
1 T
65844 AATAGATGAC
Statistics
Matches: 255, Mismatches: 39, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
148 2 0.01
149 122 0.48
150 59 0.23
151 72 0.28
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (150 bp):
TTATTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTAC
TTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAATATTTCTCATTTTTTGAAAGACAAGTGA
AAACACCATGCCTGAAGGTC
Found at i:78110 original size:131 final size:130
Alignment explanation
Indices: 77857--78224 Score: 457
Period size: 131 Copynumber: 2.8 Consensus size: 130
77847 ATAATTTTAA
* *
77857 GAGATAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCATGCCTTAAAACA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACA
* * * * * * *
77922 ACCATTTATTACCCCACTTGAAATGAAGAGATATTACTATTTCTTCTTAAAATTCAATATTGATT
66 ATCATTTATTACACCA-ATGAAATGAAAAGATATTACTATTTCGTCTGAAAAATCAATATTGATT
77987 C
130 C
* * * * ** *
77988 GAGTGAAAACGATAATATATAGTGATTTCCAATCGAGAATAAATGACCTCTCATGATTTAAAATA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACA
* *
78053 GTCATTTATTGCACCAATAGAAATGAAAAGATATTACTATTTCGTCTGAAAAATCAATATTGATT
66 ATCATTTATTACACCAAT-GAAATGAAAAGATATTACTATTTCGTCTGAAAAATCAATATTGATT
78118 C
130 C
* * * * * *
78119 GAGAGAAATCGGTAATATCGAATTATTTTCAATAGAGAATAAATGACATCTCATGCCTTAAAACA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACA
* * * *
78184 ATCATTTATTACTCTAACTGAACTCAAAAGATATTACTATT
66 ATCATTTATTACACCAA-TGAAATGAAAAGATATTACTATT
78225 CTCAGTATCG
Statistics
Matches: 198, Mismatches: 37, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
130 1 0.01
131 196 0.99
132 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (130 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACA
ATCATTTATTACACCAATGAAATGAAAAGATATTACTATTTCGTCTGAAAAATCAATATTGATTC
Found at i:79800 original size:27 final size:27
Alignment explanation
Indices: 79767--79843 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
79757 GTTGGGCATT
* * *
79767 TAATTTGGGTCTGGGTCTATTGATTTG
1 TAATTTGGGCCCGGGTATATTGATTTG
* *
79794 TAATTTGAGCCCGGGTATGTTGATTTG
1 TAATTTGGGCCCGGGTATATTGATTTG
* *
79821 TAATTTGGGCCCAGGTATGTTGA
1 TAATTTGGGCCCGGGTATATTGA
79844 GGCGGTTGGG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.18, C:0.10, G:0.30, T:0.42
Consensus pattern (27 bp):
TAATTTGGGCCCGGGTATATTGATTTG
Found at i:80512 original size:2 final size:2
Alignment explanation
Indices: 80467--80493 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
80457 TATATTGTGC
80467 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
80494 CTATGTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:80657 original size:46 final size:47
Alignment explanation
Indices: 80545--80639 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 47
80535 TTTAAAAAAT
* * * * *
80545 TATATTATATATTATATATATAACATTTATTTTTTAAAACTATACTA
1 TATAATATATATTACATATATAATATTTAGTTTTCAAAACTATACTA
*
80592 TATAATATATATTATATATATAATATTT-GTTTTCAAAACTATACTA
1 TATAATATATATTACATATATAATATTTAGTTTTCAAAACTATACTA
80638 TA
1 TA
80640 CTTTAAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 18 0.41
47 26 0.59
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.49
Consensus pattern (47 bp):
TATAATATATATTACATATATAATATTTAGTTTTCAAAACTATACTA
Found at i:80690 original size:15 final size:16
Alignment explanation
Indices: 80648--80711 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 16
80638 TACTTTAAAA
80648 TATACATATACATATATT
1 TATACATATA-ATATA-T
*
80666 TACTATATATAATATAT
1 TA-TACATATAATATAT
*
80683 TATA-ATATAACATAT
1 TATACATATAATATAT
* *
80698 GATA-TTATAATATA
1 TATACATATAATATA
80712 AAAGTATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
15 21 0.52
16 2 0.05
17 3 0.08
18 7 0.17
19 7 0.17
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (16 bp):
TATACATATAATATAT
Found at i:82340 original size:16 final size:16
Alignment explanation
Indices: 82319--82349 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82309 AAAAGTCAAA
82319 AAAATAAATTAAATTT
1 AAAATAAATTAAATTT
*
82335 AAAATATATTAAATT
1 AAAATAAATTAAATT
82350 AGAAAAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATAAATTAAATTT
Found at i:84003 original size:20 final size:20
Alignment explanation
Indices: 83978--84060 Score: 139
Period size: 20 Copynumber: 4.2 Consensus size: 20
83968 TTGTAAATCT
83978 CAACACAGAAGTCAAATTCG
1 CAACACAGAAGTCAAATTCG
*
83998 CAACACAAAAGTCAAATTCG
1 CAACACAGAAGTCAAATTCG
*
84018 CAACATAGAAGTCAAATTCG
1 CAACACAGAAGTCAAATTCG
*
84038 CAACACATAAGTCAAATTCG
1 CAACACAGAAGTCAAATTCG
84058 CAA
1 CAA
84061 AGCGCGTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.17
Consensus pattern (20 bp):
CAACACAGAAGTCAAATTCG
Found at i:86168 original size:42 final size:42
Alignment explanation
Indices: 86109--86209 Score: 193
Period size: 42 Copynumber: 2.4 Consensus size: 42
86099 CCCACTTCGA
*
86109 GAGCCATCACCTGATCGGGCCGATTCTACATCTCGACACCCG
1 GAGCCATCACATGATCGGGCCGATTCTACATCTCGACACCCG
86151 GAGCCATCACATGATCGGGCCGATTCTACATCTCGACACCCG
1 GAGCCATCACATGATCGGGCCGATTCTACATCTCGACACCCG
86193 GAGCCATCACATGATCG
1 GAGCCATCACATGATCG
86210 AGCCTCTTCT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.24, C:0.36, G:0.22, T:0.19
Consensus pattern (42 bp):
GAGCCATCACATGATCGGGCCGATTCTACATCTCGACACCCG
Found at i:86376 original size:21 final size:21
Alignment explanation
Indices: 86352--86401 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
86342 GTTAGGGGAG
* *
86352 TTACGTGATGAGGTCGGTGCT
1 TTACGTGATGAGGTCAGTACT
* *
86373 TTACATCATGAGGTCAGTACT
1 TTACGTGATGAGGTCAGTACT
86394 TTACGTGA
1 TTACGTGA
86402 AGACTATGGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:86856 original size:21 final size:21
Alignment explanation
Indices: 86832--86907 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
86822 GGCGTCTTCT
*
86832 ATCGTTTAAGAGTCCCCTCTC
1 ATCGTTTAAGAGGCCCCTCTC
*
86853 ATCGTTTAAGAGGCCCCTCCC
1 ATCGTTTAAGAGGCCCCTCTC
* * * *
86874 ACCATTCAAGAGGCCCCTGTC
1 ATCGTTTAAGAGGCCCCTCTC
* *
86895 ATCATTCAAGAGG
1 ATCGTTTAAGAGG
86908 TTCCTCCCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (21 bp):
ATCGTTTAAGAGGCCCCTCTC
Found at i:86885 original size:42 final size:42
Alignment explanation
Indices: 86839--86927 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
86829 TCTATCGTTT
* * *
86839 AAGAGTCCCCTCTCATCGTTTAAGAGGCCCCTCCCACCATTC
1 AAGAGGCCCCTCTCATCATTCAAGAGGCCCCTCCCACCATTC
* ** *
86881 AAGAGGCCCCTGTCATCATTCAAGAGGTTCCTCCCACCGTTC
1 AAGAGGCCCCTCTCATCATTCAAGAGGCCCCTCCCACCATTC
86923 AAGAG
1 AAGAG
86928 CCCGATTCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.22
Consensus pattern (42 bp):
AAGAGGCCCCTCTCATCATTCAAGAGGCCCCTCCCACCATTC
Found at i:88389 original size:64 final size:64
Alignment explanation
Indices: 88276--88433 Score: 262
Period size: 64 Copynumber: 2.5 Consensus size: 64
88266 TTAATTGAAT
* *
88276 TTTACATTGATTTGTAAAAGTTGATTTGTATAATTGATGAGGAATTAAGAATTATTTTTTGCTTG
1 TTTA-ATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
* *
88341 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTGCTTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
*
88405 TTTAATTGATTTGTAAAAGTTAATTTGTT
1 TTTAATTGATTTGTAAAAGTTGATTTGTT
88434 GTTTTAAATT
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
64 84 0.95
65 4 0.05
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.51
Consensus pattern (64 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
Found at i:88615 original size:20 final size:20
Alignment explanation
Indices: 88592--88643 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
88582 GTTTTACGAT
88592 AGTCAAATTCGCAACGCAAA
1 AGTCAAATTCGCAACGCAAA
* * * *
88612 AGTCAAATTAGAAATGCGAA
1 AGTCAAATTCGCAACGCAAA
88632 AGTCAAATTCGC
1 AGTCAAATTCGC
88644 GTTGCGATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.19
Consensus pattern (20 bp):
AGTCAAATTCGCAACGCAAA
Found at i:88630 original size:54 final size:54
Alignment explanation
Indices: 88491--88620 Score: 192
Period size: 54 Copynumber: 2.4 Consensus size: 54
88481 AAGGTACACT
*
88491 TTCGCAACGCGAAAGTCAAATTCGCGTTGCGATTTTCTCGTTGTGATAGTCAAA
1 TTCGCAACGCGAAAGTCAAATTCGCATTGCGATTTTCTCGTTGTGATAGTCAAA
* *
88545 TTCACAACGCGAAAGTCAAATTCGCATTGCGA-TTT-TCGTTTTACGATAGTCAAA
1 TTCGCAACGCGAAAGTCAAATTCGCATTGCGATTTTCTCGTTGT--GATAGTCAAA
*
88599 TTCGCAACGCAAAAGTCAAATT
1 TTCGCAACGCGAAAGTCAAATT
88621 AGAAATGCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
52 6 0.09
53 3 0.04
54 60 0.87
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (54 bp):
TTCGCAACGCGAAAGTCAAATTCGCATTGCGATTTTCTCGTTGTGATAGTCAAA
Found at i:89812 original size:6 final size:6
Alignment explanation
Indices: 89801--89839 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
89791 ATTTATATTG
* * *
89801 AAATTC AAATTC AAACTC AAATTG AAATTT AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAATTC AAATTC AAA
89840 CTCCAATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (6 bp):
AAATTC
Found at i:89820 original size:12 final size:12
Alignment explanation
Indices: 89805--89847 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
89795 ATATTGAAAT
89805 TCAAATTCAAAC
1 TCAAATTCAAAC
* *
89817 TCAAATTGAAAT
1 TCAAATTCAAAC
*
89829 TTAAATTCAAAC
1 TCAAATTCAAAC
*
89841 TCCAATT
1 TCAAATT
89848 ATATATGAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (12 bp):
TCAAATTCAAAC
Found at i:89825 original size:24 final size:24
Alignment explanation
Indices: 89797--89847 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
89787 CAAAATTTAT
89797 ATTGAAATTCAAATTCAAACTCAA
1 ATTGAAATTCAAATTCAAACTCAA
* *
89821 ATTGAAATTTAAATTCAAACTCCA
1 ATTGAAATTCAAATTCAAACTCAA
89845 ATT
1 ATT
89848 ATATATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (24 bp):
ATTGAAATTCAAATTCAAACTCAA
Found at i:90253 original size:25 final size:25
Alignment explanation
Indices: 90225--90274 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
90215 CATTATTTTC
*
90225 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
*
90250 CAAATAATGTACCCACAATAATGTT
1 CAAATAATGTACCCACAACAATGTT
90275 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:90269 original size:14 final size:13
Alignment explanation
Indices: 90224--90273 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
90214 ACATTATTTT
90224 CCAAATAATGTAC
1 CCAAATAATGTAC
*
90237 CCATAACAATGT--
1 CCA-AATAATGTAC
*
90249 TCAAATAATGTAC
1 CCAAATAATGTAC
90262 CCACAATAATGT
1 CCA-AATAATGT
90274 TTAATTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 7 0.24
12 2 0.07
13 5 0.17
14 15 0.52
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (13 bp):
CCAAATAATGTAC
Found at i:90672 original size:18 final size:18
Alignment explanation
Indices: 90649--90684 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
90639 AAGCCGGTTA
90649 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
90667 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
90685 CCTTTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:92912 original size:24 final size:24
Alignment explanation
Indices: 92878--92931 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
92868 CTGAAACATC
92878 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
92902 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
92926 ATCAAA
1 ATCAAA
92932 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:92945 original size:24 final size:24
Alignment explanation
Indices: 92878--92945 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
92868 CTGAAACATC
* * *
92878 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
92902 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
92926 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
92946 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:95884 original size:24 final size:24
Alignment explanation
Indices: 95850--95903 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
95840 CTGAAACATC
95850 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
95874 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
95898 ATCAAA
1 ATCAAA
95904 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:95917 original size:24 final size:24
Alignment explanation
Indices: 95850--95917 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
95840 CTGAAACATC
* * *
95850 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
95874 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
95898 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
95918 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:99665 original size:14 final size:15
Alignment explanation
Indices: 99628--99666 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
99618 AGAAATCATT
99628 AAAAAATTATATAGA
1 AAAAAATTATATAGA
*
99643 AATAAAATTATGTA-A
1 AA-AAAATTATATAGA
99658 AAAAAATTA
1 AAAAAATTA
99667 GAGATGGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
16 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAAATTATATAGA
Found at i:99945 original size:21 final size:21
Alignment explanation
Indices: 99822--100012 Score: 183
Period size: 19 Copynumber: 9.6 Consensus size: 21
99812 AACTAAAACC
*
99822 TGTTGCGAAATT-AAATTC-G
1 TGTTGCGAATTTGAAATTCAG
* * *
99841 TGTTACGAATTCGAAAATC-G
1 TGTTGCGAATTTGAAATTCAG
99861 AT-TTGCGAATTTGAAATTCA-
1 -TGTTGCGAATTTGAAATTCAG
99881 -GTTGCGAATTTGAAATTCA-
1 TGTTGCGAATTTGAAATTCAG
*
99900 -GTTGCAAATTTGAAATTCA-
1 TGTTGCGAATTTGAAATTCAG
99919 -GTTGCGAATTTGAAATTCAG
1 TGTTGCGAATTTGAAATTCAG
99939 TGTTGCGAATTTGAAATTCAG
1 TGTTGCGAATTTGAAATTCAG
* *
99960 TGTTGCGAATTTG-ACTTCTG
1 TGTTGCGAATTTGAAATTCAG
* *
99980 TGTTGTG-ATTTACAAATTC-G
1 TGTTGCGAATTT-GAAATTCAG
*
100000 CGTTGCGAATTTG
1 TGTTGCGAATTTG
100013 GAAACTGGTT
Statistics
Matches: 146, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
19 67 0.46
20 37 0.25
21 42 0.29
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (21 bp):
TGTTGCGAATTTGAAATTCAG
Found at i:99997 original size:41 final size:41
Alignment explanation
Indices: 99822--100012 Score: 161
Period size: 40 Copynumber: 4.8 Consensus size: 41
99812 AACTAAAACC
* * * *
99822 TGTTGCGAAATT-AAATTC-GTGTTACGAATTCGAAAATC-G
1 TGTTGCGAATTTCAAATTCAG-GTTGCGAATTTGAAATTCAG
*
99861 AT-TTGCGAATTTGAAATTCA-GTTGCGAATTTGAAATTCA-
1 -TGTTGCGAATTTCAAATTCAGGTTGCGAATTTGAAATTCAG
* *
99900 -GTTGCAAATTTGAAATTCA-GTTGCGAATTTGAAATTCAG
1 TGTTGCGAATTTCAAATTCAGGTTGCGAATTTGAAATTCAG
* * *
99939 TGTTGCGAATTTGAAATTCAGTGTTGCGAATTTG-ACTTCTG
1 TGTTGCGAATTTCAAATTCAG-GTTGCGAATTTGAAATTCAG
*
99980 TGTTGTG-ATTTACAAATTC-GCGTTGCGAATTTG
1 TGTTGCGAATTT-CAAATTCAG-GTTGCGAATTTG
100013 GAAACTGGTT
Statistics
Matches: 131, Mismatches: 11, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
38 36 0.27
39 24 0.18
40 42 0.32
41 17 0.13
42 12 0.09
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (41 bp):
TGTTGCGAATTTCAAATTCAGGTTGCGAATTTGAAATTCAG
Found at i:106758 original size:250 final size:250
Alignment explanation
Indices: 106317--106818 Score: 1004
Period size: 250 Copynumber: 2.0 Consensus size: 250
106307 GACCGACAAT
106317 AAAATCCATGGAAAGACTTTCCCATGGTCTCTCAGGGATTGGCAAAGGCTGCAACAATCCAGTTG
1 AAAATCCATGGAAAGACTTTCCCATGGTCTCTCAGGGATTGGCAAAGGCTGCAACAATCCAGTTG
106382 GTTTCTTCTGCTCTATCTTGTCTTGTTGGCATACAAGACATGTCTTCACATAGGCCTCAACATCA
66 GTTTCTTCTGCTCTATCTTGTCTTGTTGGCATACAAGACATGTCTTCACATAGGCCTCAACATCA
106447 TCGCCCATGTGCGGCCAGTAATAGTGATCTGCTATTAAGGCCAAAGTCCGGTGAATCCCCGGATG
131 TCGCCCATGTGCGGCCAGTAATAGTGATCTGCTATTAAGGCCAAAGTCCGGTGAATCCCCGGATG
106512 TCCTGCCCATTTGGAATCGTGACATTCCTTCATGAGCTCCTTTCGCAATCCTTCA
196 TCCTGCCCATTTGGAATCGTGACATTCCTTCATGAGCTCCTTTCGCAATCCTTCA
106567 AAAATCCATGGAAAGACTTTCCCATGGTCTCTCAGGGATTGGCAAAGGCTGCAACAATCCAGTTG
1 AAAATCCATGGAAAGACTTTCCCATGGTCTCTCAGGGATTGGCAAAGGCTGCAACAATCCAGTTG
106632 GTTTCTTCTGCTCTATCTTGTCTTGTTGGCATACAAGACATGTCTTCACATAGGCCTCAACATCA
66 GTTTCTTCTGCTCTATCTTGTCTTGTTGGCATACAAGACATGTCTTCACATAGGCCTCAACATCA
106697 TCGCCCATGTGCGGCCAGTAATAGTGATCTGCTATTAAGGCCAAAGTCCGGTGAATCCCCGGATG
131 TCGCCCATGTGCGGCCAGTAATAGTGATCTGCTATTAAGGCCAAAGTCCGGTGAATCCCCGGATG
106762 TCCTGCCCATTTGGAATCGTGACATTCCTTCATGAGCTCCTTTCGCAATCCTTCA
196 TCCTGCCCATTTGGAATCGTGACATTCCTTCATGAGCTCCTTTCGCAATCCTTCA
106817 AA
1 AA
106819 TTGCGGTACG
Statistics
Matches: 252, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
250 252 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (250 bp):
AAAATCCATGGAAAGACTTTCCCATGGTCTCTCAGGGATTGGCAAAGGCTGCAACAATCCAGTTG
GTTTCTTCTGCTCTATCTTGTCTTGTTGGCATACAAGACATGTCTTCACATAGGCCTCAACATCA
TCGCCCATGTGCGGCCAGTAATAGTGATCTGCTATTAAGGCCAAAGTCCGGTGAATCCCCGGATG
TCCTGCCCATTTGGAATCGTGACATTCCTTCATGAGCTCCTTTCGCAATCCTTCA
Found at i:116684 original size:16 final size:16
Alignment explanation
Indices: 116665--116699 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
116655 TATCTTTTTT
116665 TCCGTC-AACATTTTCC
1 TCCGTCAAAC-TTTTCC
116681 TCCGTCAAACTTTTCC
1 TCCGTCAAACTTTTCC
116697 TCC
1 TCC
116700 ACGGTATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.17, C:0.40, G:0.06, T:0.37
Consensus pattern (16 bp):
TCCGTCAAACTTTTCC
Found at i:118891 original size:22 final size:23
Alignment explanation
Indices: 118850--118894 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
118840 ATAATCATGC
*
118850 ATACATACAATTTATGTATTCAT
1 ATACATACAATTTATATATTCAT
*
118873 ATACATATAA-TTATATATTCAT
1 ATACATACAATTTATATATTCAT
118895 GCATTCTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.44
Consensus pattern (23 bp):
ATACATACAATTTATATATTCAT
Found at i:135641 original size:21 final size:21
Alignment explanation
Indices: 135625--135794 Score: 122
Period size: 21 Copynumber: 8.4 Consensus size: 21
135615 ATTCCCGAAT
135625 GACCACATATATGTCCCAAAG
1 GACCACATATATGTCCCAAAG
135646 GACCACATATATGTCCCAAAG
1 GACCACATATATGTCCCAAAG
* *
135667 GACCACATATATATCCCGAAG
1 GACCACATATATGTCCCAAAG
**
135688 GACCAC-------TCCTTAAG
1 GACCACATATATGTCCCAAAG
* * * *
135702 GATCACATATATATTCCAAAT
1 GACCACATATATGTCCCAAAG
* * *
135723 GACCAAATATGTGTCCCGAAG
1 GACCACATATATGTCCCAAAG
* * *
135744 AACCGCATATATGTTCCAAAG
1 GACCACATATATGTCCCAAAG
** *
135765 GATTACATATATATCCCGAAA-
1 GACCACATATATGTCCC-AAAG
135786 GACCACATA
1 GACCACATA
135795 GAACCCTCGA
Statistics
Matches: 111, Mismatches: 30, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
14 11 0.10
21 97 0.87
22 3 0.03
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (21 bp):
GACCACATATATGTCCCAAAG
Found at i:136666 original size:35 final size:36
Alignment explanation
Indices: 136599--136673 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 36
136589 TATCGCAAGA
**
136599 ATGATACCGATACTTCCATATTGGTATCGATA-CCC
1 ATGATACCGATACTTCCATATCAGTATCGATACCCC
* *
136634 ATGATACCGATACTATCCCT-TCAGTATTGATACCCC
1 ATGATACCGATACT-TCCATATCAGTATCGATACCCC
136670 ATGA
1 ATGA
136674 AGATTTATCC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 23 0.68
36 11 0.32
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (36 bp):
ATGATACCGATACTTCCATATCAGTATCGATACCCC
Found at i:140949 original size:55 final size:55
Alignment explanation
Indices: 140551--141480 Score: 958
Period size: 55 Copynumber: 16.9 Consensus size: 55
140541 AAACGGGTTC
* * * ** * *
140551 GCTCCCTATTCTTTTCAGGGAGTAT-AGAACTCGAACAATCTACTGCAAACGGGT-T
1 GCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCT
* * * ** * *
140606 CGCTCCTTATTCCTTTCAGGGAGTAT-AGAACTCGAACAATCTTCTGCAAACGGGT-T
1 -GCTCCCTATTTC-TTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCT
* * * * *** * * *
140662 CGCTCCCTATTCTTTTCAGGGAATAT-AGAACACGAACAATCTTTTGCAAACGGGTTT
1 -GCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCT
* * *
140719 GCTCCCTATTCTTTTCAGGGAGTAT-AGAACTCGAACAATCTTTCGAA-AA-CGGGT-T
1 GCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATC-TTC-AACAATCGTGTCT
* * * *
140774 CGCTCCCTATTCCTTTCAGGGAGTATAAAACTCGAACAATCTTCAACGAAT-GGGT-T
1 -GCTCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAAC-AATCGTGTCT
* * * *
140830 CGCTCACTATTCTTTTCA-AGGAGTAT-AGAACTCGAACAA---TCAACAATCGTATGT
1 -GCTCCCTATT-TCTTCAGA-GAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCT
* *
140884 GCTCCCTATTTCTTCAGAGAGTATAAGGCTCGAACAATCTTCAACAATCGTGTAT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * *
140939 ACTTCCTATTTCTTCAGAGAATATAAGACTCGAACAATCTTCAACAATCGTGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* *
140994 GCTCCCTATTTCTTCAGAGACTATAAGACTCGAATAATCTTCAACAATCGTGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * *
141049 GCTCCCTATTCCTTCAGAGAGTATAAGACTCAAACAATCTTCAACAATTGTGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
*
141104 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGTGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * *
141159 GTTCCCTATTTCTTCAGAGAGTATAAGACTCGAATAATCTTCAACAATCGTGTCC
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * * *
141214 GCTCCCTATTCCATCAGAGAGTATAAGAATCGAACAATCTGCAATAATCGTGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * * *
141269 GCTCCCTA-TTCTTTTAGAGAGTATAATACTCAAACAATCTTCAACAATCATGTAT
1 GCTCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* *
141324 GCTCCCTATTTCTTCAGACAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
*
141379 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCATGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * * *
141434 GCTCCCTATTTATTAAGAGAGTATAAGACTCGGACGATCTTCTACAA
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
141481 ATGGGTTCGC
Statistics
Matches: 770, Mismatches: 81, Indels: 47
0.86 0.09 0.05
Matches are distributed among these distances:
52 23 0.03
53 19 0.02
54 5 0.01
55 502 0.65
56 215 0.28
57 6 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (55 bp):
GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
Found at i:141493 original size:55 final size:55
Alignment explanation
Indices: 140545--141750 Score: 794
Period size: 55 Copynumber: 21.9 Consensus size: 55
140535 TTCTGAAAAC
* * * ** *
140545 GGGTTCGCTCCCTATTCTTTTCAGGGAGTAT-AGAACTCGAACAATCTACTGCAAAC
1 GGGTTCGCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAAT
* * * ** *
140601 GGGTTCGCTCCTTATTCCTTTCAGGGAGTAT-AGAACTCGAACAATCTTCTGCAAAC
1 GGGTTCGCTCCCTATTTC-TTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAAT
* * * * *** *
140657 GGGTTCGCTCCCTATTCTTTTCAGGGAATAT-AGAACACGAACAATCTTTTGCAAAC
1 GGGTTCGCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAAT
* * * * *
140713 GGGTTTGCTCCCTATTCTTTTCAGGGAGTAT-AGAACTCGAACAATCTTTCGA-AAAC
1 GGGTTCGCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATC-TTCAACAAAT
* * * *
140769 GGGTTCGCTCCCTATTCCTTTCAGGGAGTATAAAACTCGAACAATCTTCAACGAAT
1 GGGTTCGCTCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* *
140825 GGGTTCGCTCACTATTCTTTTCA-AGGAGTAT-AGAACTCGAACAA---TCAAC-AAT
1 GGGTTCGCTCCCTATT-TCTTCAGA-GAGTATAAG-ACTCGAACAATCTTCAACAAAT
* * *
140877 -CGTATGTGCTCCCTATTTCTTCAGAGAGTATAAGGCTCGAACAATCTTCAAC-AAT
1 GGGT-T-CGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * * *
140932 CGTGTAT-ACTTCCTATTTCTTCAGAGAATATAAGACTCGAACAATCTTCAAC-AAT
1 -GGGT-TCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * *
140987 -CGTGTCTGCTCCCTATTTCTTCAGAGACTATAAGACTCGAATAATCTTCAAC-AAT
1 GGGT-TC-GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * * *
141042 -CGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCAAACAATCTTCAACAATT
1 GGGT-TC-GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* *
141098 GTG-TCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATT
1 GGGTTC-GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * *
141153 GTG-TCTGTTCCCTATTTCTTCAGAGAGTATAAGACTCGAATAATCTTCAAC-AAT
1 GGGTTC-GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * * * * * *
141207 CGTGTCCGCTCCCTATTCCATCAGAGAGTATAAGAATCGAACAATCTGCAA-TAAT
1 -GGGTTCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * * *
141262 -CGTGTCTGCTCCCTA-TTCTTTTAGAGAGTATAATACTCAAACAATCTTCAACAATCAT
1 GGGT-TC-GCTCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAA--AT
*
141320 --GTAT-GCTCCCTATTTCTTCAGACAGTATAAGACTCGAACAATCTTCAAC-AAT
1 GGGT-TCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
*
141372 CGTGTAT-GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCAT
1 -GGGT-TCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA--AT
* * * * *
141430 --G-TCTGCTCCCTATTTATTAAGAGAGTATAAGACTCGGACGATCTTCTACAAAT
1 GGGTTC-GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * * * * *
141483 GGGTTCGCTCCCTCTTTCTTTCAG-GAAGTAT-AGAACTTGAATAATCTTCTATAAAC
1 GGGTTCGCTCCCTATTTC-TTCAGAG-AGTATAAG-ACTCGAACAATCTTCAACAAAT
* * ** * ** * *
141539 GGGTTCGCTCCCTCTTTCTTTTAG-GAAGTAT-AGAACTATAATAATCTTCTTCATAC
1 GGGTTCGCTCCCTATTTC-TTCAGAG-AGTATAAG-ACTCGAACAATCTTCAACAAAT
* *
141595 GGGTTCGCTCCCTCA-TTCGTCAGGGAGTAT-AGAACTCGAA-AATCTT---CAAAT
1 GGGTTCGCTCCCT-ATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAAT
* ** * * ** *
141646 GGGCTCAATCCCTCTTTCTTTCAG-GAAGTAT-AGAACTCGAATAATCTTTTGA-AAAC
1 GGGTTCGCTCCCTATTTC-TTCAGAG-AGTATAAG-ACTCGAACAATC-TTCAACAAAT
* * *
141702 GGGTTCGCTCCCTCTTTCTTTAGAGAGTAT-GGAACTCGAACAATCTTCA
1 GGGTTCGCTCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCA
141751 TTTTTCTCAC
Statistics
Matches: 974, Mismatches: 119, Indels: 116
0.81 0.10 0.10
Matches are distributed among these distances:
51 19 0.02
52 45 0.05
53 29 0.03
54 16 0.02
55 506 0.52
56 344 0.35
57 11 0.01
58 4 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (55 bp):
GGGTTCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
Found at i:141693 original size:107 final size:108
Alignment explanation
Indices: 141483--141750 Score: 324
Period size: 107 Copynumber: 2.5 Consensus size: 108
141473 TTCTACAAAT
* * * * **
141483 GGGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTTGAATAATCTTCTATAAACGGGTTCGCT
1 GGGTTCGCTCCCTCTTTC-TTCAGGGAGTATAGAACTCGAACAATCTTC---AAACGGGCTCAAT
* * * *
141548 CCCTCTTTCTTTTAGGAAGTATAGAACTATAATAATCTTCTT-CATAC
62 CCCTCTTTCTTTCAGGAAGTATAGAACTAGAATAATCTT-TTGAAAAC
* * *
141595 GGGTTCGCTCCCTCATTCGTCAGGGAGTATAGAACTCGAA-AATCTTCAAATGGGCTCAATCCCT
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCAAACGGGCTCAATCCCT
*
141659 CTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTTTGAAAAC
66 CTTTCTTTCAGGAAGTATAGAACTAGAATAATCTTTTGAAAAC
* * *
141702 GGGTTCGCTCCCTCTTTCTTTAGAGAGTATGGAACTCGAACAATCTTCA
1 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCA
141751 TTTTTCTCAC
Statistics
Matches: 136, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
106 2 0.01
107 83 0.61
108 8 0.06
110 7 0.05
111 19 0.14
112 17 0.12
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (108 bp):
GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCAAACGGGCTCAATCCCT
CTTTCTTTCAGGAAGTATAGAACTAGAATAATCTTTTGAAAAC
Found at i:142225 original size:73 final size:73
Alignment explanation
Indices: 142144--142280 Score: 211
Period size: 73 Copynumber: 1.9 Consensus size: 73
142134 AAATGGATTT
* *
142144 GCTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTGCTTTACTACTATTCGGTGAAGGCTTAG
1 GCTTCACTACTCTTCAGTGAAGGCTTAAGATAGATTTGATTTACTACTATTCGGTGAAGGCTTAG
142209 GATAGATC
66 GATAGATC
* * * * *
142217 GCTTCACTACTCTTCGGTGATGGCTTAAGATAGATTTGATTTACTATTCTTTGGTGAAGGCTTA
1 GCTTCACTACTCTTCAGTGAAGGCTTAAGATAGATTTGATTTACTACTATTCGGTGAAGGCTTA
142281 AGATTGACTT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 57 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (73 bp):
GCTTCACTACTCTTCAGTGAAGGCTTAAGATAGATTTGATTTACTACTATTCGGTGAAGGCTTAG
GATAGATC
Found at i:142233 original size:36 final size:37
Alignment explanation
Indices: 142115--142293 Score: 189
Period size: 37 Copynumber: 4.8 Consensus size: 37
142105 TTGCTCCAAC
* * * * *
142115 ACTCTTCCGAGAATGCTTAAAATGGATTTGCTTCACT
1 ACTCTTCGGTGAAGGCTTAAGATAGATTTGCTTCACT
* * *
142152 ACTCTTCAGTGAAGGCTTAAGATGGATTTGCTTTACT
1 ACTCTTCGGTGAAGGCTTAAGATAGATTTGCTTCACT
* * *
142189 ACTATTCGGTGAAGGCTTAGGATAGA-TCGCTTCACT
1 ACTCTTCGGTGAAGGCTTAAGATAGATTTGCTTCACT
* * *
142225 ACTCTTCGGTGATGGCTTAAGATAGATTTGATTTACT
1 ACTCTTCGGTGAAGGCTTAAGATAGATTTGCTTCACT
* * *
142262 ATTCTTTGGTGAAGGCTTAAGATTGACTTTGC
1 ACTCTTCGGTGAAGGCTTAAGATAGA-TTTGC
142294 CCTAATCTCC
Statistics
Matches: 118, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
36 31 0.26
37 83 0.70
38 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (37 bp):
ACTCTTCGGTGAAGGCTTAAGATAGATTTGCTTCACT
Found at i:147569 original size:6 final size:6
Alignment explanation
Indices: 147551--147584 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
147541 AAACAAATAC
*
147551 ATGC-A ATGCAA ATGAAA ATGCAA ATGCAA ATGCA
1 ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA ATGCA
147585 CGAGGTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
ATGCAA
Found at i:147855 original size:21 final size:21
Alignment explanation
Indices: 147844--147924 Score: 144
Period size: 21 Copynumber: 3.9 Consensus size: 21
147834 TCTTCATGTT
*
147844 TTTATGAATGGTCTTCTCGTC
1 TTTATGAATGGTCTTCTCATC
147865 TTTATGAATGGTCTTCTCATC
1 TTTATGAATGGTCTTCTCATC
*
147886 TTTATGAATGGTCTTCTCATT
1 TTTATGAATGGTCTTCTCATC
147907 TTTATGAATGGTCTTCTC
1 TTTATGAATGGTCTTCTC
147925 GTCCTTGGTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.49
Consensus pattern (21 bp):
TTTATGAATGGTCTTCTCATC
Found at i:151676 original size:55 final size:55
Alignment explanation
Indices: 151278--152207 Score: 908
Period size: 55 Copynumber: 16.9 Consensus size: 55
151268 AAACGGGTTC
* * * * * * *
151278 GCTCCCTATTCTTTTCAGGGAGTAT-AGAACTAGAACAATCTACTACAAACGGGT-T
1 GCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCT
* * * * *
151333 CGCTCCCTATTCTTTTCAGGGAGTAT-AGAACTCGAACAATCTTCTACAAACGGGT-T
1 -GCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCT
* * * * * ** * *
151389 CGCTCCTTATTCTTTTCAGGGAATAT-AGAACACGAACAATCTTCTGCAAACGGGT-T
1 -GCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCT
* * *
151445 CGCTCCCTATTCTTTTCAGGGAGTAT-AGAACTCGAACAATCTTCTGAA-AA-CGGGT-T
1 -GCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTC--AACAATCGTGTCT
* * * *
151501 CGCTCCCTATTCCTTTCAGGGAGTAT-AGAACTCGAACAATCTTCAGCGAAT-GGGT-T
1 -GCTCCCTATTTC-TTCAGAGAGTATAAG-ACTCGAACAATCTTCAAC-AATCGTGTCT
* * * *
151557 CGCTCACTATTCTTTTCA-AGGAGTAT-AGAACTCGAACAA---TCAACAATCGTATGT
1 -GCTCCCTATT-TCTTCAGA-GAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCT
*
151611 GCTCCCTATTTCTTCAGAGAGTATAAGGCTCGAACAATCTTCAACAATCGTGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * *
151666 GCTTCCTATTTCTTCAGAGAATATAAGACTCAAACAATCTTCAACAATCGTGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * *
151721 TCTCCCTATTTCTTCAGAGAGTATAAGACTCGAATAATCTTTAACAATCGTGTCC
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * *
151776 GCTCCCTATTCCTTCAGAGGGTATAAGACTCAAACAATCTTCAACAATTGTGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* *
151831 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGTGTTT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * *
151886 GTTCCCTATTTCTTCAGAGAGTATAAGACTCGAATAATCTTCAACAATCGTGTCC
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * *
151941 GCTCCCTATTCCTTCAGAGAGTATAAGAATCGAACAATCTTCAATAATCGTGTCC
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * ** *
151996 GCTCCCTA-TTCTTTTAGAGAGTATAAGACTCGAATAATCTTCAACAATTATGTAT
1 GCTCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * * *
152051 GCTCCTTATTTCTTCAGACAGTATAAGACTCGAAAAATCTTCAACAATTGTGTAT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
*
152106 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCATGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * * *
152161 GCTCCCTATTTATTCAGAGAGTATATGACTCGGACGATCTTCTACAA
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
152208 ATGGGTTCGC
Statistics
Matches: 773, Mismatches: 84, Indels: 35
0.87 0.09 0.04
Matches are distributed among these distances:
52 23 0.03
53 18 0.02
54 4 0.01
55 490 0.63
56 236 0.31
57 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (55 bp):
GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
Found at i:152220 original size:55 final size:55
Alignment explanation
Indices: 151272--152477 Score: 811
Period size: 55 Copynumber: 21.9 Consensus size: 55
151262 TTCTGAAAAC
* * * * * *
151272 GGGTTCGCTCCCTATTCTTTTCAGGGAGTAT-AGAACTAGAACAATCTACTACAAAC
1 GGGTTCGCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAAT
* * * *
151328 GGGTTCGCTCCCTATTCTTTTCAGGGAGTAT-AGAACTCGAACAATCTTCTACAAAC
1 GGGTTCGCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAAT
* * * * * ** *
151384 GGGTTCGCTCCTTATTCTTTTCAGGGAATAT-AGAACACGAACAATCTTCTGCAAAC
1 GGGTTCGCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAAT
* * * *
151440 GGGTTCGCTCCCTATTCTTTTCAGGGAGTAT-AGAACTCGAACAATCTTCTGA-AAAC
1 GGGTTCGCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTC-AACAAAT
* * * *
151496 GGGTTCGCTCCCTATTCCTTTCAGGGAGTAT-AGAACTCGAACAATCTTCAGCGAAT
1 GGGTTCGCTCCCTATTTC-TTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAAT
* *
151552 GGGTTCGCTCACTATTCTTTTCA-AGGAGTAT-AGAACTCGAACAA---TCAAC-AAT
1 GGGTTCGCTCCCTATT-TCTTCAGA-GAGTATAAG-ACTCGAACAATCTTCAACAAAT
* * *
151604 -CGTATGTGCTCCCTATTTCTTCAGAGAGTATAAGGCTCGAACAATCTTCAAC-AAT
1 GGGT-T-CGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * * *
151659 -CGTGTCTGCTTCCTATTTCTTCAGAGAATATAAGACTCAAACAATCTTCAAC-AAT
1 GGGT-TC-GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * * *
151714 -CGTGTCTTCTCCCTATTTCTTCAGAGAGTATAAGACTCGAATAATCTTTAAC-AAT
1 GGGT-TC-GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * * * * *
151769 CGTGTCCGCTCCCTATTCCTTCAGAGGGTATAAGACTCAAACAATCTTCAACAATT
1 -GGGTTCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* *
151825 GTG-TCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATT
1 GGGTTC-GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * * *
151880 GTGTTTGTTCCCTATTTCTTCAGAGAGTATAAGACTCGAATAATCTTCAAC-AAT
1 GGGTTCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * * * *
151934 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGAATCGAACAATCTTCAA-TAAT
1 -GGGTTCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * * * *
151989 CGTGTCCGCTCCCTA-TTCTTTTAGAGAGTATAAGACTCGAATAATCTTCAACAATT
1 -GGGTTCGCTCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
** * * * *
152045 ATGTAT-GCTCCTTATTTCTTCAGACAGTATAAGACTCGAAAAATCTTCAACAATT
1 GGGT-TCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
*
152100 GTGTAT-GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCAT
1 GGGT-TCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA--AT
* * * * *
152157 --G-TCTGCTCCCTATTTATTCAGAGAGTATATGACTCGGACGATCTTCTACAAAT
1 GGGTTC-GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
* * * *** *
152210 GGGTTCGCTCCCTCTTTCTTTCAG-GAAGTAT-AGAACTTGAATAATCTTCTGTAAAC
1 GGGTTCGCTCCCTATTTC-TTCAGAG-AGTATAAG-ACTCGAACAATCTTCAACAAAT
* * * * ** * *
152266 GGGTTCGCTCCCTCTTTCTTTTAG-GAAGTAT-AGAACTAGAATAATCTTCTTCATAC
1 GGGTTCGCTCCCTATTTC-TTCAGAG-AGTATAAG-ACTCGAACAATCTTCAACAAAT
* * *
152322 GGGTTCGCTCCCTCA-TTCGTCAGGGAGTAT-AGAACTC-AAAAATCTT---CAAAT
1 GGGTTCGCTCCCT-ATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAAT
* * * * * * * *
152373 AGGCTCGATCCCTCTTTCTTTCA-AGAAGTAT-AGAACTCAAATAATCTTCTGA-AAAC
1 GGGTTCGCTCCCTATTTC-TTCAGAG-AGTATAAG-ACTCGAACAATCTTC-AACAAAT
* * * *
152429 GGGTTCGCTCCCTCTTTCTTTAGGGAGTAT-GGAACTCGAACAATCTTCA
1 GGGTTCGCTCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCA
152478 TTTTTCTCAC
Statistics
Matches: 982, Mismatches: 123, Indels: 92
0.82 0.10 0.08
Matches are distributed among these distances:
51 19 0.02
52 39 0.04
53 27 0.03
54 13 0.01
55 516 0.53
56 365 0.37
57 3 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (55 bp):
GGGTTCGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAT
Found at i:152220 original size:110 final size:110
Alignment explanation
Indices: 151278--152477 Score: 894
Period size: 110 Copynumber: 10.9 Consensus size: 110
151268 AAACGGGTTC
* * * * *
151278 GCTCCCTATTCTTTTCAGGGAGTAT-AGAACTAGAACAATCTACTACAAACGGGTTCGCTCCCTA
1 GCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCTACAAATGGGTTCGCTCCCTA
* * * * *
151342 TTCTTTTCAGGGAGTAT-AGAACTCGAACAATCTTCTACAAACGGGT-T
64 TT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCT
* * * * * * *
151389 CGCTCCTTATTCTTTTCAGGGAATAT-AGAACACGAACAATCTTCTGCAAACGGGTTCGCTCCCT
1 -GCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTCTACAAATGGGTTCGCTCCCT
* * *
151453 ATTCTTTTCAGGGAGTAT-AGAACTCGAACAATCTTCTGAA-AA-CGGGT-T
63 ATT-TCTTCAGAGAGTATAAG-ACTCGAACAATCTTC--AACAATCGTGTCT
* * * *
151501 CGCTCCCTATTCCTTTCAGGGAGTAT-AGAACTCGAACAATCTTC-AGCGAATGGGTTCGCTCAC
1 -GCTCCCTATTTC-TTCAGAGAGTATAAG-ACTCGAACAATCTTCTA-CAAATGGGTTCGCTCCC
* * *
151564 TATTCTTTTCA-AGGAGTAT-AGAACTCGAACAA---TCAACAATCGTATGT
62 TATT-TCTTCAGA-GAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCT
* * * *
151611 GCTCCCTATTTCTTCAGAGAGTATAAGGCTCGAACAATCTTCAAC-AAT-CGTGTCTGCTTCCTA
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCTACAAATGGGT-TC-GCTCCCTA
* *
151674 TTTCTTCAGAGAATATAAGACTCAAACAATCTTCAACAATCGTGTCT
64 TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * *
151721 TCTCCCTATTTCTTCAGAGAGTATAAGACTCGAATAATCTT-TA-ACAATCGTGTCCGCTCCCTA
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCTACA-AAT-GGGTTCGCTCCCTA
* * * *
151784 TTCCTTCAGAGGGTATAAGACTCAAACAATCTTCAACAATTGTGTCT
64 TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * * *
151831 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGTGTTTGTTCCCTATT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCTACAAATGGGTTCGCTCCCTATT
* *
151896 TCTTCAGAGAGTATAAGACTCGAATAATCTTCAACAATCGTGTCC
66 TCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * *
151941 GCTCCCTATTCCTTCAGAGAGTATAAGAATCGAACAATCTTC-A-ATAATCGTGTCCGCTCCCTA
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCTACA-AAT-GGGTTCGCTCCCTA
* * ** *
152004 -TTCTTTTAGAGAGTATAAGACTCGAATAATCTTCAACAATTATGTAT
64 TTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * * * *
152051 GCTCCTTATTTCTTCAGACAGTATAAGACTCGAAAAATCTTCAACAATTGTGTAT-GCTCCCTAT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCTACAAATGGGT-TCGCTCCCTAT
*
152115 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCATGTCT
65 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
* * * * *
152161 GCTCCCTATTTATTCAGAGAGTATATGACTCGGACGATCTTCTACAAATGGGTTCGCTCCCTCTT
1 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCTACAAATGGGTTCGCTCCCTATT
* * *** * *
152226 TCTTTCAG-GAAGTAT-AGAACTTGAATAATCTTCTGTAAACGGGT-T
66 TC-TTCAGAG-AGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCT
* * * * * * *
152271 CGCTCCCTCTTTCTTTTAG-GAAGTAT-AGAACTAGAATAATCTTCTTCATACGGGTTCGCTCCC
1 -GCTCCCTATTTC-TTCAGAG-AGTATAAG-ACTCGAACAATCTTCTACAAATGGGTTCGCTCCC
* * * *
152334 TCA-TTCGTCAGGGAGTAT-AGAACTC-AAAAATCTTC-A-AATAG-G-CT
62 T-ATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCT
* * * * *
152378 CGATCCCTCTTTCTTTCA-AGAAGTAT-AGAACTCAAATAATCTTCTGA-AAACGGGTTCGCTCC
1 -GCTCCCTATTTC-TTCAGAG-AGTATAAG-ACTCGAACAATCTTCT-ACAAATGGGTTCGCTCC
* * * *
152440 CTCTTTCTTTAGGGAGTAT-GGAACTCGAACAATCTTCA
61 CTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCA
152478 TTTTTCTCAC
Statistics
Matches: 918, Mismatches: 124, Indels: 95
0.81 0.11 0.08
Matches are distributed among these distances:
106 2 0.00
107 103 0.11
108 52 0.06
109 27 0.03
110 440 0.48
111 65 0.07
112 226 0.25
113 2 0.00
114 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (110 bp):
GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCTACAAATGGGTTCGCTCCCTATT
TCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
Found at i:152420 original size:107 final size:107
Alignment explanation
Indices: 152197--152477 Score: 314
Period size: 107 Copynumber: 2.6 Consensus size: 107
152187 GACTCGGACG
* * * *
152197 ATCTTCT-ACAAATGGGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTTGAATAATCTTCTG
1 ATCTTCTGA-AAACGGGTTCGCTCCCTCTTTC-TTCAGGGAGTATAGAAC-TCAAAAATCTTC--
* * * * *
152261 TAAACGGGTTCGCTCCCTCTTTCTTTTAGGAAGTATAGAACTAGAATA
61 -AAACAGGCTCGATCCCTCTTTCTTTCAAGAAGTATAGAACTAGAATA
** * * * *
152309 ATCTTCTTCATACGGGTTCGCTCCCTCATTCGTCAGGGAGTATAGAACTCAAAAATCTTCAAATA
1 ATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCAAACA
152374 GGCTCGATCCCTCTTTCTTTCAAGAAGTATAGAACTCA-AATA
66 GGCTCGATCCCTCTTTCTTTCAAGAAGTATAGAACT-AGAATA
* * *
152416 ATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAACAATCTTCA
1 ATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTC-AAAAATCTTCA
152478 TTTTTCTCAC
Statistics
Matches: 144, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
107 82 0.57
108 11 0.08
110 10 0.07
111 15 0.10
112 26 0.18
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (107 bp):
ATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCAAACA
GGCTCGATCCCTCTTTCTTTCAAGAAGTATAGAACTAGAATA
Found at i:152942 original size:73 final size:73
Alignment explanation
Indices: 152864--153000 Score: 238
Period size: 73 Copynumber: 1.9 Consensus size: 73
152854 AAATGGATTT
*
152864 GCTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAG
1 GCTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTGATTCACTACTCTTCGGTGAAGGCTTAG
152929 GATAGATC
66 GATAGATC
* * *
152937 GCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTGATTTACTATTCTTCGGTGAAGGCTTA
1 GCTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTGATTCACTACTCTTCGGTGAAGGCTTA
153001 AGATTGACTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (73 bp):
GCTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTTGATTCACTACTCTTCGGTGAAGGCTTAG
GATAGATC
Found at i:152948 original size:36 final size:37
Alignment explanation
Indices: 152846--153013 Score: 239
Period size: 37 Copynumber: 4.5 Consensus size: 37
152836 TCTCTTCCGA
* *
152846 AAGGCTTAAAATGGATTTGCTTCACTACTCTTCAGTG
1 AAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTG
152883 AAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTG
1 AAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTG
* * *
152920 AAGGCTTAGGATAGA-TCGCTTCACTACTCTTCGGTG
1 AAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTG
* * *
152956 AAGGCTTAAGATGGATTTGATTTACTATTCTTCGGTG
1 AAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTG
*
152993 AAGGCTTAAGATTGACTTTGC
1 AAGGCTTAAGATGGA-TTTGC
153014 CCTAATCTCC
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
36 33 0.28
37 79 0.68
38 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (37 bp):
AAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTG
Found at i:158078 original size:21 final size:21
Alignment explanation
Indices: 158067--158147 Score: 153
Period size: 21 Copynumber: 3.9 Consensus size: 21
158057 TCTTCATGTT
*
158067 TTTATGAATGGTCTTCTCGTC
1 TTTATGAATGGTCTTCTCATC
158088 TTTATGAATGGTCTTCTCATC
1 TTTATGAATGGTCTTCTCATC
158109 TTTATGAATGGTCTTCTCATC
1 TTTATGAATGGTCTTCTCATC
158130 TTTATGAATGGTCTTCTC
1 TTTATGAATGGTCTTCTC
158148 CTCCTTGGTA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (21 bp):
TTTATGAATGGTCTTCTCATC
Found at i:164906 original size:145 final size:146
Alignment explanation
Indices: 164658--164949 Score: 331
Period size: 145 Copynumber: 2.0 Consensus size: 146
164648 AGGAAACGAC
* * * *
164658 AAGAAGAAAGGAGAATGACACAATCTTGATTGAAGAGAAAAGATCAAGATAAAATGAGTAAAAAT
1 AAGAAGAAAGAAGAATGACACAATCTTGATTGAAGAGAAAAGATCAAGACAAAAGGAGTAAAAAC
* * * * * * *
164723 AAGTAATAAATTAATAGAAAATGAAGGAGAAAAGTTTAG-GCCA-TGGAAGAGCTTTTGAAAGAA
66 AAGCAACAAATGAATAGAAAATAAAGCAGAAAACTTTAGAG-CATTGG-AGAGATTTTGAAAGAA
164786 TTTTAAAGAGAATTGCAA
129 TTTTAAAGAGAATTGCAA
** * * *
164804 AAGAAGAAA-AAGAATGATGCAATGTTGATTGAAGAGAAAAGATCAAGACGAAAGGAGTACAAAC
1 AAGAAGAAAGAAGAATGACACAATCTTGATTGAAGAGAAAAGATCAAGACAAAAGGAGTA-AAAA
* * *
164868 CAA-CAACAAATGAATAGAAAATAAAGCAGGAGACTTTAGAGCATTGGAGTGATTTTGAAAGAAT
65 CAAGCAACAAATGAATAGAAAATAAAGCAGAAAACTTTAGAGCATTGGAGAGATTTTGAAAGAAT
***
164932 TTTGTGGAGAATTGCAA
130 TTTAAAGAGAATTGCAA
164949 A
1 A
164950 TGTGTTTGAA
Statistics
Matches: 121, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
145 103 0.85
146 18 0.15
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.21
Consensus pattern (146 bp):
AAGAAGAAAGAAGAATGACACAATCTTGATTGAAGAGAAAAGATCAAGACAAAAGGAGTAAAAAC
AAGCAACAAATGAATAGAAAATAAAGCAGAAAACTTTAGAGCATTGGAGAGATTTTGAAAGAATT
TTAAAGAGAATTGCAA
Found at i:170213 original size:24 final size:25
Alignment explanation
Indices: 170167--170214 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
170157 CACCATGATC
* * *
170167 TGCATTTTCTTCAGTTTCTTCATCT
1 TGCATTGTCTTCAGGTTCCTCATCT
170192 TGCATTGT-TTCAGGTTCCTCATC
1 TGCATTGTCTTCAGGTTCCTCATC
170215 AACAATATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.12, C:0.25, G:0.12, T:0.50
Consensus pattern (25 bp):
TGCATTGTCTTCAGGTTCCTCATCT
Found at i:171763 original size:28 final size:26
Alignment explanation
Indices: 171710--171766 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
171700 CTTTGCTTTT
* *
171710 TTTCTTCTTTTGAGTGCTGGATTTTC
1 TTTCTTCTTTTGAGTGCTGCAATTTC
*
171736 TTTCTTTCTTTTGGAGTGCTTCAATTTC
1 TTTC-TTCTTTT-GAGTGCTGCAATTTC
171764 TTT
1 TTT
171767 GCTGGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.15
27 7 0.27
28 15 0.58
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.60
Consensus pattern (26 bp):
TTTCTTCTTTTGAGTGCTGCAATTTC
Found at i:173558 original size:13 final size:13
Alignment explanation
Indices: 173540--173566 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
173530 ATAAATTGAA
173540 AATAAAGAAAATC
1 AATAAAGAAAATC
173553 AATAAAGAAAATC
1 AATAAAGAAAATC
173566 A
1 A
173567 CAAACAGTAA
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:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (13 bp):
AATAAAGAAAATC
Found at i:173645 original size:14 final size:16
Alignment explanation
Indices: 173616--173649 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
173606 AATTTAATCT
173616 AAATTTAATAATTAAA
1 AAATTTAATAATTAAA
173632 AAATTT-ATAA-TAAA
1 AAATTTAATAATTAAA
173646 AAAT
1 AAAT
173650 AAACTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 4 0.22
16 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTTAATAATTAAA
Found at i:173647 original size:15 final size:16
Alignment explanation
Indices: 173616--173648 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
173606 AATTTAATCT
*
173616 AAATTTAATAATTAAA
1 AAATTTAATAATAAAA
173632 AAATTT-ATAATAAAA
1 AAATTTAATAATAAAA
173647 AA
1 AA
173649 TAAACTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATTTAATAATAAAA
Found at i:174061 original size:2 final size:2
Alignment explanation
Indices: 174054--174084 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
174044 TAGCCCTCAA
174054 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
174085 AACTTCTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:174958 original size:11 final size:11
Alignment explanation
Indices: 174944--174970 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
174934 ATATATAAAT
174944 TAATTATAGTA
1 TAATTATAGTA
174955 TAATTATAGTA
1 TAATTATAGTA
174966 TAATT
1 TAATT
174971 CAACTTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (11 bp):
TAATTATAGTA
Found at i:175189 original size:19 final size:19
Alignment explanation
Indices: 175165--175271 Score: 124
Period size: 19 Copynumber: 5.5 Consensus size: 19
175155 TCTACAGTTG
175165 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
175184 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
175203 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * * * **
175222 TCTTTTCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
*
175243 GTCGTTGCAATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
175263 TCGTTGCGA
1 TCGTTGCGA
175272 AAATTCGTTG
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
19 54 0.76
20 5 0.07
21 5 0.07
22 7 0.10
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.42
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:175423 original size:5 final size:5
Alignment explanation
Indices: 175386--175422 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
175376 GACCACGACC
*
175386 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGGGA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
175423 GCGGCGGCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.35, C:0.22, G:0.43, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:176076 original size:22 final size:22
Alignment explanation
Indices: 176051--176162 Score: 101
Period size: 22 Copynumber: 5.4 Consensus size: 22
176041 AATTTGGAAA
176051 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
176073 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
176095 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
* * **
176114 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
176133 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
176155 ATCGCAAC
1 ATCGCAAC
176163 ACGATTTTCA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 32 0.42
20 2 0.03
21 2 0.03
22 41 0.53
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:176117 original size:19 final size:19
Alignment explanation
Indices: 176095--176142 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
176085 ACTGTAGACT
176095 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
176114 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
176133 ATCGCAACGA
1 ATCGCAACGA
176143 CAACTGTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:176195 original size:21 final size:21
Alignment explanation
Indices: 176152--176195 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
176142 ACAACTGTAG
** *
176152 ACTATCGCAACACGATTTTCA
1 ACTATCGCAACACGAAATGCA
*
176173 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACACGAAATGCA
176194 AC
1 AC
176196 GCGAATTTGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.30, G:0.14, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACACGAAATGCA
Found at i:176457 original size:18 final size:18
Alignment explanation
Indices: 176434--176478 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
176424 AATATTCTCA
176434 GTAATCTTATTCCCGCCG
1 GTAATCTTATTCCCGCCG
* *
176452 GTAATCCTATTCCCGCTG
1 GTAATCTTATTCCCGCCG
176470 GTAATCTTA
1 GTAATCTTA
176479 CATTTCGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.36
Consensus pattern (18 bp):
GTAATCTTATTCCCGCCG
Found at i:177849 original size:139 final size:138
Alignment explanation
Indices: 177341--177847 Score: 665
Period size: 139 Copynumber: 3.7 Consensus size: 138
177331 ATTGGCAACT
* *** *
177341 GACCAGATCTCCTCAACATGTAGAAGCAGCACCATCCTCAGGCAATCAGACTTCCTCATCACGTA
1 GACCAGATCTCCTCAACATGTAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTA
* * * * * *
177406 GAAACCGTGTTGTCTCCAAAGTATCCCTAAAGAGGGCTAGACTTCCTCATCACATAGGAACAATT
66 GGAACCGTGTTGTCTCCAAATTATCCCTAAAGA-AGCTAGACGTCCTCATCACGTAGGAACAATG
*
177471 TTGTCTACC
130 TTGTCCACC
* * * *
177480 GACCAGATCTCCTCAACACGTAGGAGAAGTGTCATCCTCAGATAACCAGACTTCCTCATCACGTA
1 GACCAGATCTCCTCAACATGTAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTA
* * * *
177545 GGAATCGTGTTGTCTCCAAATTATCCCTAAAGATGACTATACGTCCTCATAACGTAGGAACAATG
66 GGAACCGTGTTGTCTCCAAATTATCCCTAAAGAAG-CTAGACGTCCTCATCACGTAGGAACAATG
*
177610 TTGTCGACC
130 TTGTCCACC
* * *
177619 GACCAGATCTCCTTAAC-TCGTAGGAGCAGTGTCATTCTCAGATAATCAGACTTCCTCATCACGT
1 GACCAGATCTCCTCAACAT-GTAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGT
* *
177683 AGGAACCGTATTGTCTCCAAATTATCTCTAAAGACAGCTAGACGTCCTCATCACGTAGGAACAAT
65 AGGAACCGTGTTGTCTCCAAATTATCCCTAAAGA-AGCTAGACGTCCTCATCACGTAGGAACAAT
* *
177748 GTCGTCCACT
129 GTTGTCCACC
* * * * *
177758 GACCAGGTCTCCTCAACGTGTAGGAGTAGTGTCATCCTTAGACAATCATACTTCCTCATCACGTA
1 GACCAGATCTCCTCAACATGTAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTA
*
177823 GGAACCGTGTTGTCACCAAATTATC
66 GGAACCGTGTTGTCTCCAAATTATC
177848 TCCAGATTGA
Statistics
Matches: 322, Mismatches: 42, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
138 1 0.00
139 319 0.99
140 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (138 bp):
GACCAGATCTCCTCAACATGTAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTA
GGAACCGTGTTGTCTCCAAATTATCCCTAAAGAAGCTAGACGTCCTCATCACGTAGGAACAATGT
TGTCCACC
Found at i:178103 original size:3 final size:3
Alignment explanation
Indices: 178095--178126 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
178085 TAATTTATCC
178095 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
178127 TTACATTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:179135 original size:2 final size:2
Alignment explanation
Indices: 179090--179120 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
179080 TAAAATCATA
179090 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
179121 AAGGTCAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:180090 original size:14 final size:14
Alignment explanation
Indices: 180071--180100 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
180061 AAATTTATTT
180071 TTTAATTATAGTTA
1 TTTAATTATAGTTA
*
180085 TTTAATTATATTTA
1 TTTAATTATAGTTA
180099 TT
1 TT
180101 ATTTAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTAATTATAGTTA
Found at i:180807 original size:2 final size:2
Alignment explanation
Indices: 180802--180842 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
180792 TATTGACCTT
180802 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
180843 GATTTTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:185583 original size:60 final size:60
Alignment explanation
Indices: 185471--185583 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
185461 TATAATATGA
* * * * *
185471 TATTTTATTGAGTCTTTTAACTATCAAAAAGTATAAAATAGTCTCTCTATTATAGAGAGT
1 TATTTTATTGACTCTATAAAATATCAAAAAGTATAAAATAGTCTCTCGATTATAGAGAGT
* * *
185531 TATTTTATTGACTCTATAAAATATTAAAAATTATAAAATGGTCAT-TCGATTAT
1 TATTTTATTGACTCTATAAAATATCAAAAAGTATAAAATAGTC-TCTCGATTAT
185584 TCATTATGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
60 43 0.98
61 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (60 bp):
TATTTTATTGACTCTATAAAATATCAAAAAGTATAAAATAGTCTCTCGATTATAGAGAGT
Found at i:186053 original size:11 final size:11
Alignment explanation
Indices: 186037--186061 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
186027 AACTCAATCG
186037 AATTTATCAAA
1 AATTTATCAAA
186048 AATTTATCAAA
1 AATTTATCAAA
186059 AAT
1 AAT
186062 AATTCAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTTATCAAA
Found at i:186340 original size:21 final size:20
Alignment explanation
Indices: 186278--186352 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 20
186268 AATATGTTTG
* *
186278 GGATCGATCCCTCAAGGAAAA
1 GGATCAATCCCTC-ATGAAAA
*
186299 GGATCAATTCCTTCACT-AAAA
1 GGATCAA-TCCCTCA-TGAAAA
186320 GGATCAATCCCTCGATGAAAA
1 GGATCAATCCCTC-ATGAAAA
*
186341 GGATCGATCCCT
1 GGATCAATCCCT
186353 TCCCTTAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
20 6 0.13
21 34 0.76
22 5 0.11
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (20 bp):
GGATCAATCCCTCATGAAAA
Found at i:188060 original size:76 final size:77
Alignment explanation
Indices: 187909--188115 Score: 285
Period size: 76 Copynumber: 2.7 Consensus size: 77
187899 AAAAGCCAAA
* * * **
187909 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATT-CCCCCTAAATTGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
187973 TTTGGCCCCGAG
66 TTTGGCCCCGAG
*
187985 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
*
188050 TTT-GCTCCGAG
66 TTTGGCCCCGAG
* * * * *
188061 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACTGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCC
188116 TTGTACAACG
Statistics
Matches: 117, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
75 16 0.14
76 87 0.74
77 14 0.12
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
TTTGGCCCCGAG
Found at i:193936 original size:21 final size:21
Alignment explanation
Indices: 193898--193937 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
193888 CCCCCTTTGA
**
193898 AGGGGAACCGATTTCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
193919 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
193938 TGGGGTTCTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:195913 original size:17 final size:17
Alignment explanation
Indices: 195882--195915 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
195872 TTTGATATTT
*
195882 TGGATTGTTTAATTTTG
1 TGGATTGTTGAATTTTG
*
195899 TGGATTGTTGGATTTTG
1 TGGATTGTTGAATTTTG
195916 GATTTATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (17 bp):
TGGATTGTTGAATTTTG
Found at i:196663 original size:76 final size:77
Alignment explanation
Indices: 196504--196713 Score: 282
Period size: 77 Copynumber: 2.7 Consensus size: 77
196494 AAAAGCTAAA
* * * *
196504 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATT-CCCCCTAAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAATAG
*
196568 TTTTGGTCCCGAG
65 TTTTGCTCCCGAG
*
196581 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAATAGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAATAGT
196646 TTTGCT-CCGAG
66 TTTGCTCCCGAG
* * * *
196657 AATTCCAGTATGCTCGGAGGGAACTGATCCTCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGAT--TCCCCCCATAGGAGGAACCGATTCCCCC
196714 TTGTACAACG
Statistics
Matches: 119, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
76 52 0.44
77 59 0.50
78 8 0.07
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.21
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAATAGT
TTTGCTCCCGAG
Found at i:196714 original size:76 final size:77
Alignment explanation
Indices: 196504--196714 Score: 277
Period size: 76 Copynumber: 2.8 Consensus size: 77
196494 AAAAGCTAAA
* * * *
196504 AATTACAGATTGCTCAGAGGGAACCGAT-TCCCCCCCATAGGAGGAACCGATTCCCCCTAAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATCT-CCCCCCATAGGAGGAACCGATTCCCCCTAAATAG
*
196568 TTTTGGTCCCGAG
65 TTTTGCTCCCGAG
*
196581 ATTTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCCATAGGAGGAACCGATTCCCCCCTAAATAG
1 AATTCCAGAATGCTCGGAGGGAACCGATCTCCCCCCATAGGAGGAACCGATT-CCCCCTAAATAG
196645 TTTTGCT-CCGAG
65 TTTTGCTCCCGAG
* * * *
196657 AATTCCAGTATGCTCGGAGGGAACTGATCCTCCCCCCA-AGGGGGTACCGATTCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGAT-CTCCCCCCATAGGAGGAACCGATTCCCCCT
196715 TGTACAACGG
Statistics
Matches: 120, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
76 58 0.48
77 54 0.45
78 8 0.07
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATCTCCCCCCATAGGAGGAACCGATTCCCCCTAAATAGT
TTTGCTCCCGAG
Found at i:197973 original size:65 final size:63
Alignment explanation
Indices: 197778--197981 Score: 193
Period size: 65 Copynumber: 3.2 Consensus size: 63
197768 AAGAGTGCCG
* * * * *
197778 CGATTCATCAAGTGCATTCGATGTTTCA-AAACAGC-CAGAGTGCATCGATGCATTGCTGGTGCA
1 CGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTTGGTGCA
197841 T
63 T
*
197842 CGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGATGCATGGTAT-GTTCA
1 CGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-TGGTGCA
197906 T
63 T
* **
197907 CGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGATTGGTGC
1 CGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-TTGGTGC
197970 AT
62 AT
*
197972 CGGTGCATCA
1 CGATGCATCA
197982 CTCTGAAAAA
Statistics
Matches: 118, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 43 0.36
65 63 0.53
66 5 0.04
67 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (63 bp):
CGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTGGTGCAT
Found at i:198442 original size:2 final size:2
Alignment explanation
Indices: 198435--198504 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
198425 GCCAATTGAT
198435 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
198477 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
198505 GCTTAAGCTG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.