Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 22 of 113
Found at i:7634433 original size:46 final size:48
Alignment explanation
Indices: 7634365--7634474 Score: 152
Period size: 46 Copynumber: 2.3 Consensus size: 48
7634355 TTATTTTCTT
* *
7634365 TTAAAAAACAAGAATTTCTAAATAGGCCTAAATGGTGAAAA-TTTAAAAA
1 TTAAAAAACAA-AA-TTCTAAATACGCCAAAATGGTGAAAATTTTAAAAA
*
7634414 TTAAAAAA-AAAATTCTAAATACGCCAAAATGGTGAAAATTTTACAAA
1 TTAAAAAACAAAATTCTAAATACGCCAAAATGGTGAAAATTTTAAAAA
*
7634461 TTAAAAAATAAAAT
1 TTAAAAAACAAAAT
7634475 ATTTATAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
46 24 0.43
47 17 0.30
48 7 0.12
49 8 0.14
ACGTcount: A:0.56, C:0.08, G:0.09, T:0.26
Consensus pattern (48 bp):
TTAAAAAACAAAATTCTAAATACGCCAAAATGGTGAAAATTTTAAAAA
Found at i:7638526 original size:21 final size:21
Alignment explanation
Indices: 7638502--7638549 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7638492 AATGGATGAG
*
7638502 AAAAGATAAA-AAATGAAAAAA
1 AAAAGAGAAAGAAA-GAAAAAA
*
7638523 AAAAGAGAAAGAAAGAAAAGA
1 AAAAGAGAAAGAAAGAAAAAA
7638544 AAAAGA
1 AAAAGA
7638550 AACAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (21 bp):
AAAAGAGAAAGAAAGAAAAAA
Found at i:7638543 original size:15 final size:15
Alignment explanation
Indices: 7638523--7638570 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
7638513 AATGAAAAAA
*
7638523 AAAAGAGAAAGAAAG
1 AAAAGAAAAAGAAAG
*
7638538 AAAAGAAAAAGAAAC
1 AAAAGAAAAAGAAAG
7638553 AATAA-AAAAATGAAAG
1 AA-AAGAAAAA-GAAAG
7638569 AA
1 AA
7638571 TGGAAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (15 bp):
AAAAGAAAAAGAAAG
Found at i:7640083 original size:28 final size:28
Alignment explanation
Indices: 7639983--7640085 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 28
7639973 AAAAGTTTTG
* *
7639983 AACTTTTGGATGTGAATCTTCAAAGTTTA
1 AACTTTTGGATGTGAATC-ACAAACTTTA
* *
7640012 AACTTTTTGGATGTGAATCACAAAC-GTG
1 AAC-TTTTGGATGTGAATCACAAACTTTA
* * * *
7640040 AACCTTTGAACT-TGAATGAGAAACTTTA
1 AACTTTTGGA-TGTGAATCACAAACTTTA
7640068 AACTTTTGGATGTGAATC
1 AACTTTTGGATGTGAATC
7640086 TCCAAAATTC
Statistics
Matches: 57, Mismatches: 13, Indels: 9
0.72 0.16 0.11
Matches are distributed among these distances:
27 16 0.28
28 19 0.33
29 7 0.12
30 15 0.26
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (28 bp):
AACTTTTGGATGTGAATCACAAACTTTA
Found at i:7640394 original size:41 final size:42
Alignment explanation
Indices: 7640301--7640448 Score: 207
Period size: 41 Copynumber: 3.6 Consensus size: 42
7640291 ATCTATGACT
*
7640301 CCTCTATTTAGAGGAGCAATTTATTTTTTCAAAATTGTGGTG
1 CCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGTG
* *
7640343 CCTTTATTTAGAGGAGCAATTTATTTTTTTTAAAGTTGT-G-G
1 CCTCTATTTAGAGGAGCAATTTA-TTTTTTCAAAGTTGTGGTG
* *
7640384 CCTCTGTTTAGAGGAGTAATTTA-TTTTTCAAAGTTGTGGTG
1 CCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGTG
7640425 CCTCTATTTAGAGGAGC--TTTATTT
1 CCTCTATTTAGAGGAGCAATTTATTT
7640449 AATTTTTTTT
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
39 17 0.18
40 3 0.03
41 37 0.40
42 23 0.25
43 13 0.14
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (42 bp):
CCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGTG
Found at i:7641539 original size:13 final size:13
Alignment explanation
Indices: 7641521--7641565 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
7641511 ATTTTTTTGA
7641521 TATTTTTATTTAG
1 TATTTTTATTTAG
7641534 TA-TTTTATTTATG
1 TATTTTTATTTA-G
*
7641547 TGTTTTT-TTTAG
1 TATTTTTATTTAG
7641559 TATTTTT
1 TATTTTT
7641566 TGCATGATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 16 0.57
13 8 0.29
14 4 0.14
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (13 bp):
TATTTTTATTTAG
Found at i:7641566 original size:12 final size:12
Alignment explanation
Indices: 7641510--7641566 Score: 62
Period size: 13 Copynumber: 4.7 Consensus size: 12
7641500 GAGCCATTTC
*
7641510 TATTTTTTTGA-
1 TATTTTTTTTAG
7641521 TATTTTTATTTAG
1 TATTTTT-TTTAG
*
7641534 TATTTTATTTATG
1 TATTTTTTTTA-G
*
7641547 TGTTTTTTTTAG
1 TATTTTTTTTAG
7641559 TATTTTTT
1 TATTTTTT
7641567 GCATGATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
11 7 0.18
12 15 0.39
13 16 0.42
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (12 bp):
TATTTTTTTTAG
Found at i:7641789 original size:18 final size:18
Alignment explanation
Indices: 7641766--7641801 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7641756 ATTTATTTTC
7641766 AAACATAAAAAAATAAAA
1 AAACATAAAAAAATAAAA
*
7641784 AAACATAAAAATATAAAA
1 AAACATAAAAAAATAAAA
7641802 GATTTTAAAT
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:0.81, C:0.06, G:0.00, T:0.14
Consensus pattern (18 bp):
AAACATAAAAAAATAAAA
Found at i:7643720 original size:9 final size:8
Alignment explanation
Indices: 7643689--7643718 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
7643679 ATATTTTTTT
7643689 AAAAAATA
1 AAAAAATA
7643697 AAAAAATA
1 AAAAAATA
7643705 AAAAAATA
1 AAAAAATA
7643713 AAAAAA
1 AAAAAA
7643719 ATCAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:7645180 original size:19 final size:21
Alignment explanation
Indices: 7645158--7645198 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
7645148 AGACGCTAAC
*
7645158 ATTTATTAAAT-T-TATTTAT
1 ATTTAGTAAATATCTATTTAT
7645177 ATTTAGTAAATATCTATTTAT
1 ATTTAGTAAATATCTATTTAT
7645198 A
1 A
7645199 CTATCTCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 1 0.05
21 8 0.42
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTAGTAAATATCTATTTAT
Found at i:7649737 original size:11 final size:11
Alignment explanation
Indices: 7649721--7649745 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7649711 GTAAGTTTTT
7649721 GGATTGAATTG
1 GGATTGAATTG
7649732 GGATTGAATTG
1 GGATTGAATTG
7649743 GGA
1 GGA
7649746 CAGTTTTTTT
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:0.28, C:0.00, G:0.40, T:0.32
Consensus pattern (11 bp):
GGATTGAATTG
Found at i:7655415 original size:27 final size:28
Alignment explanation
Indices: 7655361--7655420 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
7655351 TTAAATTACA
*
7655361 ATAAAATATTTAATATAATATTTAAATT
1 ATAAAATATTTAATATAATAATTAAATT
* *
7655389 TTAAAATATTT-ATGTAATACATT-AATT
1 ATAAAATATTTAATATAATA-ATTAAATT
7655416 ATAAA
1 ATAAA
7655421 TTTATTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
ATAAAATATTTAATATAATAATTAAATT
Found at i:7655515 original size:32 final size:30
Alignment explanation
Indices: 7655477--7655547 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
7655467 ATAACTTTTA
*
7655477 AAATATTATATTAATCAATAAATATATAATTC
1 AAATATTATATTAA--AAAAAATATATAATTC
* * * *
7655509 ACATATTACATTAAAAAAAATTTATAATTT
1 AAATATTATATTAAAAAAAATATATAATTC
7655539 AAATATTAT
1 AAATATTAT
7655548 GTTTCGTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
30 20 0.62
32 12 0.38
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (30 bp):
AAATATTATATTAAAAAAAATATATAATTC
Found at i:7655812 original size:17 final size:19
Alignment explanation
Indices: 7655779--7655814 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
7655769 TGTTTCGTTG
7655779 GAAAGATAAAAAGAAATTT
1 GAAAGATAAAAAGAAATTT
7655798 GAAAGA-AAAAA-AAATTT
1 GAAAGATAAAAAGAAATTT
7655815 ATCCATTGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (19 bp):
GAAAGATAAAAAGAAATTT
Found at i:7664283 original size:29 final size:28
Alignment explanation
Indices: 7664237--7664320 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 28
7664227 CCAGCATTAA
7664237 GAAACTATCATAGATTGTTAAAAGAATTT
1 GAAACTATCATAGATTGTTAAAA-AATTT
* *
7664266 GAAAGTATCATAGCTTG-T-AAAAATTT
1 GAAACTATCATAGATTGTTAAAAAATTT
* *
7664292 AAAACTATCATAGATTGTGAAAAATATTT
1 GAAACTATCATAGATTGTTAAAAA-ATTT
7664321 TAAAAGTGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
26 19 0.41
27 3 0.07
28 5 0.11
29 19 0.41
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (28 bp):
GAAACTATCATAGATTGTTAAAAAATTT
Found at i:7668137 original size:27 final size:28
Alignment explanation
Indices: 7668083--7668142 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
7668073 TTAAATTACA
*
7668083 ATAAAATATTTAATATAATATTTAAATT
1 ATAAAATATTTAATATAATATATAAATT
* * * *
7668111 TTAAAATGTTT-ATGTAATATATGAATT
1 ATAAAATATTTAATATAATATATAAATT
7668138 ATAAA
1 ATAAA
7668143 TTTATTAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (28 bp):
ATAAAATATTTAATATAATATATAAATT
Found at i:7669277 original size:28 final size:28
Alignment explanation
Indices: 7669237--7669296 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
7669227 TAAAATTTAT
*
7669237 TATAATAAATTTAAAATTAATTA-ATTAA
1 TATAATAAATTTAAAAAT-ATTATATTAA
* *
7669265 TATAATTATTTTAAAAATATTATATTAA
1 TATAATAAATTTAAAAATATTATATTAA
7669293 TATA
1 TATA
7669297 TTTGAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TATAATAAATTTAAAAATATTATATTAA
Found at i:7672991 original size:19 final size:18
Alignment explanation
Indices: 7672963--7673001 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
7672953 TAAAATAATC
7672963 AATTAACAAAAATAACAT
1 AATTAACAAAAATAACAT
* *
7672981 AATTAAACAAATATAGCAT
1 AATT-AACAAAAATAACAT
7673000 AA
1 AA
7673002 AATTGAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (18 bp):
AATTAACAAAAATAACAT
Found at i:7674184 original size:16 final size:16
Alignment explanation
Indices: 7674163--7674215 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
7674153 GGGTTCATGG
7674163 AAATTCATGAATGGCT
1 AAATTCATGAATGGCT
7674179 AAATTC----ATGG--
1 AAATTCATGAATGGCT
7674189 AAATTCATGAATGGCT
1 AAATTCATGAATGGCT
7674205 AAATTCATGAA
1 AAATTCATGAA
7674216 AAGTTTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
10 6 0.19
12 4 0.13
14 4 0.13
16 17 0.55
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (16 bp):
AAATTCATGAATGGCT
Found at i:7674185 original size:26 final size:26
Alignment explanation
Indices: 7674156--7674213 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
7674146 ATTAATTGGG
7674156 TTCATGGAAATTCATGAATGGCTAAA
1 TTCATGGAAATTCATGAATGGCTAAA
7674182 TTCATGGAAATTCATGAATGGCTAAA
1 TTCATGGAAATTCATGAATGGCTAAA
7674208 TTCATG
1 TTCATG
7674214 AAAAGTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (26 bp):
TTCATGGAAATTCATGAATGGCTAAA
Found at i:7677079 original size:29 final size:28
Alignment explanation
Indices: 7677033--7677111 Score: 99
Period size: 26 Copynumber: 2.9 Consensus size: 28
7677023 CCAGCATTAA
7677033 GAAACTATCATAGATTGTTAAAAGAATTT
1 GAAACTATCATAGATTGTTAAAA-AATTT
* *
7677062 GAAAGTATCATAGCTTG-T-AAAAATTT
1 GAAACTATCATAGATTGTTAAAAAATTT
* *
7677088 AAAACTATCATAGATTGTGAAAAA
1 GAAACTATCATAGATTGTTAAAAA
7677112 TATTCTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
26 19 0.45
27 3 0.07
28 5 0.12
29 15 0.36
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.32
Consensus pattern (28 bp):
GAAACTATCATAGATTGTTAAAAAATTT
Found at i:7677096 original size:26 final size:27
Alignment explanation
Indices: 7677034--7677121 Score: 97
Period size: 26 Copynumber: 3.1 Consensus size: 27
7677024 CAGCATTAAG
*
7677034 AAACTATCATAGATTGTTAAAAGAATTTG
1 AAACTATCATAGATTG-TAAAA-AATTTA
* *
7677063 AAAGTATCATAGCTTGT-AAAAATTTA
1 AAACTATCATAGATTGTAAAAAATTTA
7677089 AAACTATCATAGATTGTGAAAAATATTCTA
1 AAACTATCATAGATTGT-AAAAA-ATT-TA
7677119 AAA
1 AAA
7677122 GTGTCTATGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
26 20 0.40
27 3 0.06
28 5 0.10
29 17 0.34
30 5 0.10
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.33
Consensus pattern (27 bp):
AAACTATCATAGATTGTAAAAAATTTA
Found at i:7693222 original size:23 final size:20
Alignment explanation
Indices: 7693180--7693221 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
7693170 TGGTAAGCAT
*
7693180 TATTAAAATATTGAATAAAA
1 TATTAAAAAATTGAATAAAA
7693200 TATTAACAAAATTGAAATAAAA
1 TATTAA-AAAATTG-AATAAAA
7693222 AATAATGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (20 bp):
TATTAAAAAATTGAATAAAA
Found at i:7696551 original size:42 final size:42
Alignment explanation
Indices: 7696492--7696615 Score: 178
Period size: 42 Copynumber: 3.0 Consensus size: 42
7696482 CTTTGTCCTT
*
7696492 CCCATTCTTCAGTCAAGTTTCCAAATGAGAAGTCTCGTAATG
1 CCCATTCTTCAGTCAAGTTTCCAAATGAGAAGTCTCGAAATG
*
7696534 CCCATTCTTCAGTCAAGTTTCCAAATGAGAAGTCTGGAAATG
1 CCCATTCTTCAGTCAAGTTTCCAAATGAGAAGTCTCGAAATG
* * * *
7696576 TCCATTCTTTAGTCAA-TTTCCCAAATGAGAGGTCTGGAAA
1 CCCATTCTTCAGTCAAGTTT-CCAAATGAGAAGTCTCGAAA
7696616 CTGTGTATCT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
41 3 0.04
42 73 0.96
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (42 bp):
CCCATTCTTCAGTCAAGTTTCCAAATGAGAAGTCTCGAAATG
Found at i:7700862 original size:2 final size:2
Alignment explanation
Indices: 7700851--7700890 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
7700841 ATAGGGGATG
7700851 AT AT AT -T AT 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 AT AT AT AT AT A
7700891 CTTTCTATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7703023 original size:29 final size:31
Alignment explanation
Indices: 7702967--7703033 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
7702957 TTTTAAATAT
*
7702967 TTTATAATTTTTAAAAAATATTTTTATTA-A
1 TTTATAATTTTTAAAAAATATTTATATTATA
7702997 TTTAT-ATTTTT-AAAAATATTTGATATTATA
1 TTTATAATTTTTAAAAAATATTT-ATATTATA
7703027 TTT-TAAT
1 TTTATAAT
7703034 AAAAATCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 10 0.30
29 12 0.36
30 11 0.33
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (31 bp):
TTTATAATTTTTAAAAAATATTTATATTATA
Found at i:7704393 original size:16 final size:17
Alignment explanation
Indices: 7704372--7704410 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
7704362 TTTATTTGAT
7704372 AAAAAATT-GACTAATA
1 AAAAAATTAGACTAATA
*
7704388 AAAAAATTAAGATTAATA
1 AAAAAATT-AGACTAATA
7704406 AAAAA
1 AAAAA
7704411 TAAGATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
18 12 0.60
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAAAATTAGACTAATA
Found at i:7704414 original size:16 final size:16
Alignment explanation
Indices: 7704370--7704416 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
7704360 TATTTATTTG
* *
7704370 ATAAAAAAT-TGACTA
1 ATAAAAAATAAGATTA
7704385 ATAAAAAAATTAAGATTA
1 AT-AAAAAA-TAAGATTA
7704403 ATAAAAAATAAGAT
1 ATAAAAAATAAGAT
7704417 AAATTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.07
16 12 0.44
17 7 0.26
18 6 0.22
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (16 bp):
ATAAAAAATAAGATTA
Found at i:7704720 original size:26 final size:25
Alignment explanation
Indices: 7704687--7704745 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 25
7704677 TTCTTAAATA
7704687 TTAATAATAAATAA-TTTCAATATTAT
1 TTAATAATAAATAATTTTCAATA-T-T
*
7704713 TTAATAATAAATAATTTTTAATATT
1 TTAATAATAAATAATTTTCAATATT
7704738 TTAATAAT
1 TTAATAAT
7704746 TATATTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 9 0.29
26 15 0.48
27 7 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAATAATAAATAATTTTCAATATT
Found at i:7704857 original size:19 final size:18
Alignment explanation
Indices: 7704830--7704868 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7704820 TCATTCAAAT
*
7704830 AATAAAAATTATTTTTTAA
1 AATAAAAA-TATTTTCTAA
*
7704849 AATATAAATATTTTCTAA
1 AATAAAAATATTTTCTAA
7704867 AA
1 AA
7704869 ATCAATTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAAAAATATTTTCTAA
Found at i:7706501 original size:15 final size:15
Alignment explanation
Indices: 7706481--7706520 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
7706471 AAGTGATCTA
7706481 GATGATGATGAGGAT
1 GATGATGATGAGGAT
*
7706496 GATGATTATGAGGAT
1 GATGATGATGAGGAT
**
7706511 TTTGATGATG
1 GATGATGATG
7706521 GAGCTGTGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (15 bp):
GATGATGATGAGGAT
Found at i:7711881 original size:28 final size:29
Alignment explanation
Indices: 7711850--7711935 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
7711840 TTTGTAGAAT
*
7711850 ATTAAAATTT-TTAT-TTTAATGATAAAAA
1 ATTAAAATTTATTATCTTAAAT-ATAAAAA
7711878 ATTAAAATTTAGTTATCTTAAATATAAAAA
1 ATTAAAATTTA-TTATCTTAAATATAAAAA
* *
7711908 ATATGAAAAGTTATTATATTACAATATA
1 AT-T-AAAATTTATTATCTTA-AATATA
7711936 TATATTTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
28 10 0.20
30 13 0.27
31 13 0.27
32 13 0.27
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (29 bp):
ATTAAAATTTATTATCTTAAATATAAAAA
Found at i:7713804 original size:59 final size:58
Alignment explanation
Indices: 7713628--7713974 Score: 395
Period size: 59 Copynumber: 5.9 Consensus size: 58
7713618 TTTTGTGTAG
* * *
7713628 GAAAAATTGATA-TTTCAACTTTTCCCCAAAAA-TATTTTTTGGAAATTTA-TTTCTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTATTTTC-AA
* *
7713684 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTATTTTTTTTGAAACTTTGATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAA-A---T-TTTTTTTTGAAAATTT-ATTTTCAA
*
7713749 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTGAAAATTTATTTTCAA
* *
7713808 -AGAAAATTGATACTTTCAACTTTTTCCT--AAAA-TTTTTTTTGAAACTTTGATTTCCAA
1 GA-AAAATTGATACTTTCAAC-TTTTCCTCAAAAATTTTTTTTTGAAAATTT-ATTTTCAA
* *
7713865 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTGAAAATTTATTTTCAA
* *
7713924 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTGGAAATTT
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAAT-TTTTTTTTGAAAATTT
7713975 TGATTTTTAT
Statistics
Matches: 254, Mismatches: 18, Indels: 35
0.83 0.06 0.11
Matches are distributed among these distances:
56 33 0.13
57 38 0.15
58 14 0.06
59 79 0.31
60 38 0.15
63 1 0.00
64 17 0.07
65 30 0.12
66 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTATTTTCAA
Found at i:7713871 original size:116 final size:118
Alignment explanation
Indices: 7713628--7713980 Score: 500
Period size: 116 Copynumber: 3.0 Consensus size: 118
7713618 TTTTGTGTAG
* * * * *
7713628 GAAAAATTGATA-TTTCAACTTTTCCCCAAAAA--TATTTTTTGGAAATTTATTTCTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAAGAAAA
* *
7713690 TTGATACTTTCAACTTTTCCTCAAAAATATTTTATTTTTTTTGAAACTTTGATTTTCAA
66 TTGATACTTTCAACTTTTCC-C-TAAA-A---TATTTTTTTTGAAACTTTGATTTCCAA
7713749 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAAGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAAGAAAA
*
7713814 TTGATACTTTCAACTTTTTCCT-AAA-ATTTTTTTTGAAACTTTGATTTCCAA
66 TTGATACTTTCAACTTTTCCCTAAAATATTTTTTTTGAAACTTTGATTTCCAA
* *
7713865 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAAGAAAA
*
7713930 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTGATTT
66 TTGATACTTTCAACTTTTCCCT-AAAATATTTTTTTT-GAAACTTTGATTT
7713981 TTATTTAAAA
Statistics
Matches: 213, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
116 109 0.51
118 3 0.01
119 9 0.04
120 13 0.06
121 14 0.07
122 19 0.09
123 1 0.00
124 45 0.21
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (118 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAAGAAAA
TTGATACTTTCAACTTTTCCCTAAAATATTTTTTTTGAAACTTTGATTTCCAA
Found at i:7714008 original size:13 final size:11
Alignment explanation
Indices: 7713988--7714059 Score: 65
Period size: 11 Copynumber: 6.3 Consensus size: 11
7713978 TTTTTATTTA
7713988 AAAAAAAAGAAT
1 AAAAAAAA-AAT
7714000 AATAAAAAAAAT
1 AA-AAAAAAAAT
7714012 AAAAATAAAAA-
1 AAAAA-AAAAAT
* *
7714023 ATAAAGAAAAGT
1 A-AAAAAAAAAT
*
7714035 AAAACAAAAAT
1 AAAAAAAAAAT
*
7714046 AAAAATAAAAT
1 AAAAAAAAAAT
7714057 AAA
1 AAA
7714060 GATAAAAAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
11 28 0.56
12 16 0.32
13 6 0.12
ACGTcount: A:0.82, C:0.01, G:0.04, T:0.12
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:7714008 original size:15 final size:15
Alignment explanation
Indices: 7713988--7714066 Score: 68
Period size: 17 Copynumber: 4.9 Consensus size: 15
7713978 TTTTTATTTA
*
7713988 AAAAAAAAGAATAAT
1 AAAAAAAAGAAAAAT
*
7714003 AAAAAAAATAAAAAT
1 AAAAAAAAGAAAAAT
*
7714018 AAAAAATAAAGAAAAGT
1 -AAAAA-AAAGAAAAAT
*
7714035 AAAACAAAAATAAAAAT
1 -AAA-AAAAAGAAAAAT
*
7714052 AAAATAAAGATAAAA
1 AAAAAAAAGA-AAAA
7714067 AGAATATTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
15 18 0.35
16 12 0.23
17 20 0.38
18 2 0.04
ACGTcount: A:0.81, C:0.01, G:0.05, T:0.13
Consensus pattern (15 bp):
AAAAAAAAGAAAAAT
Found at i:7714009 original size:17 final size:16
Alignment explanation
Indices: 7713987--7714055 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 16
7713977 ATTTTTATTT
7713987 AAAAAAAAAGAATAATA
1 AAAAAAAAAGAA-AATA
*
7714004 AAAAAAATA-AAAATA
1 AAAAAAAAAGAAAATA
*
7714019 AAAAATAAAGAAAAGTA
1 AAAAAAAAAGAAAA-TA
7714036 AAACAAAAATA-AAAATA
1 AAA-AAAAA-AGAAAATA
7714053 AAA
1 AAA
7714056 TAAAGATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
15 11 0.25
16 6 0.14
17 18 0.41
18 8 0.18
19 1 0.02
ACGTcount: A:0.83, C:0.01, G:0.04, T:0.12
Consensus pattern (16 bp):
AAAAAAAAAGAAAATA
Found at i:7714017 original size:6 final size:6
Alignment explanation
Indices: 7713986--7714067 Score: 64
Period size: 6 Copynumber: 14.0 Consensus size: 6
7713976 GATTTTTATT
* * * *
7713986 TAAAAA AAAAGAA TAATAAA -AAAAA TAAAAA TAAAAA -ATAAA GAAAAG
1 TAAAAA TAAA-AA TAA-AAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
* *
7714034 T-AAAA CAAAAA TAAAAA T-AAAA TAAAGA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
7714068 GAATATTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 15 0.25
6 37 0.63
7 6 0.10
8 1 0.02
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.13
Consensus pattern (6 bp):
TAAAAA
Found at i:7714021 original size:5 final size:5
Alignment explanation
Indices: 7713986--7714124 Score: 54
Period size: 5 Copynumber: 26.8 Consensus size: 5
7713976 GATTTTTATT
* * * *
7713986 TAAAA AAAAA GAATAA TAAAA -AAAA TAAAAA TAAAA AATAAA GAAAA
1 TAAAA TAAAA TAA-AA TAAAA TAAAA T-AAAA TAAAA TA-AAA TAAAA
* *
7714033 GTAAAA CAAAAA TAAAAA TAAAA TAAAGA TAAAA -AGAATA TTAAA TAAAA
1 -TAAAA -TAAAA T-AAAA TAAAA TAAA-A TAAAA TA-AA-A TAAAA TAAAA
*** **
7714083 CCTAA TTTAA TAAATA TAAAA T-AAA TAAAA T-AAA T-AAA TAAA
1 TAAAA TAAAA TAAA-A TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
7714125 GAAATTTCGA
Statistics
Matches: 103, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
4 17 0.17
5 47 0.46
6 39 0.38
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:7714021 original size:11 final size:11
Alignment explanation
Indices: 7713986--7714066 Score: 64
Period size: 11 Copynumber: 7.5 Consensus size: 11
7713976 GATTTTTATT
7713986 TAAAA-AAAAA
1 TAAAATAAAAA
*
7713996 GAATAAT-AAAA
1 TAA-AATAAAAA
7714007 -AAAATAAAAA
1 TAAAATAAAAA
7714017 TAAAA-AATAAA
1 TAAAATAA-AAA
*
7714028 GAAAAGTAAAACA
1 TAAAA-TAAAA-A
7714041 -AAAATAAAAA
1 TAAAATAAAAA
*
7714051 TAAAATAAAGA
1 TAAAATAAAAA
7714062 TAAAA
1 TAAAA
7714067 AGAATATTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 17
0.75 0.04 0.22
Matches are distributed among these distances:
9 3 0.05
10 11 0.19
11 36 0.61
12 6 0.10
13 3 0.05
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.14
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:7714049 original size:34 final size:31
Alignment explanation
Indices: 7713986--7714055 Score: 97
Period size: 34 Copynumber: 2.2 Consensus size: 31
7713976 GATTTTTATT
7713986 TAAAAAAAAAGAATAATAAAAAAAATAAAAA
1 TAAAAAAAAAGAATAATAAAAAAAATAAAAA
7714017 TAAAAAATAAAGAA-AAGTAAAACAAAAATAAAAA
1 TAAAAAA-AAAGAATAA-T-AAA-AAAAATAAAAA
7714051 TAAAA
1 TAAAA
7714056 TAAAGATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 9 0.26
32 7 0.20
33 3 0.09
34 16 0.46
ACGTcount: A:0.81, C:0.01, G:0.04, T:0.13
Consensus pattern (31 bp):
TAAAAAAAAAGAATAATAAAAAAAATAAAAA
Found at i:7715146 original size:14 final size:14
Alignment explanation
Indices: 7715127--7715178 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
7715117 AAATCTATTC
7715127 TAAATAAAAATAAA
1 TAAATAAAAATAAA
* *
7715141 TAAATACAAATATA
1 TAAATAAAAATAAA
* * *
7715155 CAAAAAAAAATACA
1 TAAATAAAAATAAA
7715169 -AAATAAAAAT
1 TAAATAAAAAT
7715179 TCAATTGAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAATAAAAATAAA
Found at i:7715169 original size:12 final size:13
Alignment explanation
Indices: 7715128--7715178 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
7715118 AATCTATTCT
*
7715128 AAATAAAAATAAA
1 AAATAAAAATACA
7715141 TAAATACAAATATACA
1 -AAATA-AAA-ATACA
7715157 AAA-AAAAATACA
1 AAATAAAAATACA
7715169 AAATAAAAAT
1 AAATAAAAAT
7715179 TCAATTGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
12 8 0.24
13 9 0.27
14 6 0.18
15 6 0.18
16 4 0.12
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (13 bp):
AAATAAAAATACA
Found at i:7715224 original size:20 final size:21
Alignment explanation
Indices: 7715199--7715237 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7715189 CCTACCCAAT
7715199 TGGGCCAGG-CCCAATTGATC
1 TGGGCCAGGACCCAATTGATC
*
7715219 TGGGCCTGGACCCAATTGA
1 TGGGCCAGGACCCAATTGA
7715238 GTTTCTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (21 bp):
TGGGCCAGGACCCAATTGATC
Found at i:7720758 original size:6 final size:6
Alignment explanation
Indices: 7720724--7720750 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7720714 AGAAATAAAT
7720724 AAATTA AAATTA AAATTA AAATTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAA
7720751 AATTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTA
Found at i:7723471 original size:29 final size:29
Alignment explanation
Indices: 7723416--7723473 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
7723406 CAAATTAAAT
* * *
7723416 CAACAACCAGTAAATCAATAAATAATTAG
1 CAACAACCAATAAATCAACAAACAATTAG
**
7723445 CAACAACCAATAAATCAACATGCAATTAG
1 CAACAACCAATAAATCAACAAACAATTAG
7723474 ACAAAACTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.53, C:0.21, G:0.07, T:0.19
Consensus pattern (29 bp):
CAACAACCAATAAATCAACAAACAATTAG
Found at i:7734353 original size:4 final size:4
Alignment explanation
Indices: 7734344--7734368 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7734334 GTTCAAAATG
7734344 TGTT TGTT TGTT TGTT TGTT TGTT T
1 TGTT TGTT TGTT TGTT TGTT TGTT T
7734369 TAAAGTTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TGTT
Found at i:7735015 original size:18 final size:17
Alignment explanation
Indices: 7734989--7735022 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7734979 TTGGATAGAG
7734989 ATAAGATTAAAAATAATA
1 ATAAGATT-AAAATAATA
*
7735007 ATAATATTAAAATAAT
1 ATAAGATTAAAATAAT
7735023 TGTAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
ATAAGATTAAAATAATA
Found at i:7735059 original size:14 final size:14
Alignment explanation
Indices: 7735010--7735082 Score: 59
Period size: 12 Copynumber: 5.4 Consensus size: 14
7735000 AATAATAATA
7735010 ATATTAAAATAATTGT
1 ATATTAAAA-AATT-T
*
7735026 A-ATTAAAAAAAATT
1 ATATT-AAAAAATTT
7735040 A-A-TAAAAAATTT
1 ATATTAAAAAATTT
7735052 ATATTAAATAAATTT
1 ATATTAAA-AAATTT
7735067 -TATT--AAAATTT
1 ATATTAAAAAATTT
7735078 ATATT
1 ATATT
7735083 TAAATTTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
11 6 0.12
12 14 0.28
13 2 0.04
14 11 0.22
15 12 0.24
16 5 0.10
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (14 bp):
ATATTAAAAAATTT
Found at i:7735075 original size:15 final size:15
Alignment explanation
Indices: 7735042--7735073 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7735032 AAAAAATTAA
7735042 TAAA-AAATTTATAT
1 TAAATAAATTTATAT
7735056 TAAATAAATTT-TAT
1 TAAATAAATTTATAT
7735070 TAAA
1 TAAA
7735074 ATTTATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAATAAATTTATAT
Found at i:7737180 original size:36 final size:36
Alignment explanation
Indices: 7737115--7737185 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
7737105 TAATCAAATT
* *
7737115 AAATCAACAACCAGTAAATCAATAAGTAATTAGACC
1 AAATCAACAACCAATAAATCAACAAGTAATTAGACC
**
7737151 AAATCAACAACCAATAAATCAACGTGTAATTAGAC
1 AAATCAACAACCAATAAATCAACAAGTAATTAGAC
7737186 AAAACTCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (36 bp):
AAATCAACAACCAATAAATCAACAAGTAATTAGACC
Found at i:7740314 original size:144 final size:145
Alignment explanation
Indices: 7739809--7740286 Score: 767
Period size: 144 Copynumber: 3.4 Consensus size: 145
7739799 CAAATTTATG
7739809 GATTTGTCAGAGAACAAATTGATAGG---AAT-CCG-AAGT-CTTGGTAATTTAA-CAACGCTGA
1 GATTTGTCAGAGAACAAATTGATAGGAACAATACCGAAAGTGCTTGGTAATTTAAGCAACGCTGA
* *
7739867 TCGTACTCGATTTGAGGCGGAATTATCTCACAGGTGACATCCCTCAGAGTGTGGGCAATTTACTG
66 TCGAACTCAATTTGAGGCGGAATTATCTCACAGGTGACATCCCTCAGAGTGTGGGCAATTTACTG
*
7739932 TATTTACAGTACCTC
131 AATTTACAGTACCTC
*
7739947 GATTTGTCAGAGAACAAATTGATAGGAACAATACCGAAAGTGCTTGGTAATTTAAG-AACGGTGA
1 GATTTGTCAGAGAACAAATTGATAGGAACAATACCGAAAGTGCTTGGTAATTTAAGCAACGCTGA
* *
7740011 TCGAACTCAATTTGAGGCGAAATTATCTCTCAGGTGACATCCCTCAGAGTGTGGGCAATTTACTG
66 TCGAACTCAATTTGAGGCGGAATTATCTCACAGGTGACATCCCTCAGAGTGTGGGCAATTTACTG
* *
7740076 AGTTTACGGTACCTC
131 AATTTACAGTACCTC
*
7740091 GATTTGTCAGAGAACAAATTGATAGGAACAACACCGAAAGTGCTTGGTAATTTAAGC-ACGCTGA
1 GATTTGTCAGAGAACAAATTGATAGGAACAATACCGAAAGTGCTTGGTAATTTAAGCAACGCTGA
* *
7740155 TCAAACTCAATTTGAGGCGGAATTATCTCACAGGTGACCTCCCTCAGAGTGTGGGCAATTTACTG
66 TCGAACTCAATTTGAGGCGGAATTATCTCACAGGTGACATCCCTCAGAGTGTGGGCAATTTACTG
7740220 AATTTACAGTACCTC
131 AATTTACAGTACCTC
* * *
7740235 GATTTGTCAGAGAACAAATTGATAGGAACAATACCGCAAGAGCTTGGCAATT
1 GATTTGTCAGAGAACAAATTGATAGGAACAATACCGAAAGTGCTTGGTAATT
7740287 GTGGCAACTT
Statistics
Matches: 312, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
138 26 0.08
141 3 0.01
142 3 0.01
143 4 0.01
144 276 0.88
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (145 bp):
GATTTGTCAGAGAACAAATTGATAGGAACAATACCGAAAGTGCTTGGTAATTTAAGCAACGCTGA
TCGAACTCAATTTGAGGCGGAATTATCTCACAGGTGACATCCCTCAGAGTGTGGGCAATTTACTG
AATTTACAGTACCTC
Found at i:7744849 original size:18 final size:19
Alignment explanation
Indices: 7744815--7744851 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
7744805 ATAAATAACT
7744815 TATATGATTCGACAAAATA
1 TATATGATTCGACAAAATA
7744834 TATAT-ATTC-ACGAAAATA
1 TATATGATTCGAC-AAAATA
7744852 GATAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.12
18 10 0.59
19 5 0.29
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (19 bp):
TATATGATTCGACAAAATA
Found at i:7745039 original size:22 final size:23
Alignment explanation
Indices: 7745005--7745049 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
7744995 CTTTTAGAAG
**
7745005 AAATTTTTGATAAATTAAATATT
1 AAATTTTTGATAAAAAAAATATT
7745028 AAATTTTT-ATAAAAAAAATATT
1 AAATTTTTGATAAAAAAAATATT
7745050 TTAAAAGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AAATTTTTGATAAAAAAAATATT
Found at i:7747258 original size:3 final size:3
Alignment explanation
Indices: 7747250--7747293 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7747240 ACTTGAAAAT
7747250 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7747294 TTGATATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7749110 original size:16 final size:16
Alignment explanation
Indices: 7749089--7749128 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
7749079 ATCATTAAAA
*
7749089 ATCATCGTAAATCATC
1 ATCATCATAAATCATC
7749105 ATCATCATAAATCATC
1 ATCATCATAAATCATC
*
7749121 ATTATCAT
1 ATCATCAT
7749129 TAGTTTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:7751193 original size:18 final size:18
Alignment explanation
Indices: 7751167--7751201 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7751157 TCACCCAATT
*
7751167 CAATTTCACACAATTTGC
1 CAATCTCACACAATTTGC
*
7751185 CAATCTCACACACTTTG
1 CAATCTCACACAATTTG
7751202 ATGTCAAGAA
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:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (18 bp):
CAATCTCACACAATTTGC
Found at i:7755660 original size:21 final size:20
Alignment explanation
Indices: 7755628--7755669 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
7755618 AAATTTTTTT
*
7755628 ATTAGAAATAAATAAATTAAA
1 ATTAGAAATAAA-AAATAAAA
7755649 ATTA-AAATTAAAAAATAAAA
1 ATTAGAAA-TAAAAAATAAAA
7755669 A
1 A
7755670 ATTTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
ATTAGAAATAAAAAATAAAA
Found at i:7755745 original size:15 final size:15
Alignment explanation
Indices: 7755725--7755767 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7755715 AAATTTTGAT
7755725 ATATTTATTAAATAA
1 ATATTTATTAAATAA
*
7755740 ATATTT-TTAATAAAA
1 ATATTTATTAA-ATAA
*
7755755 ATATTTATAAAAT
1 ATATTTATTAAAT
7755768 TTTTATCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 4 0.17
15 16 0.70
16 3 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATTTATTAAATAA
Found at i:7757937 original size:26 final size:26
Alignment explanation
Indices: 7757889--7757938 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
7757879 TGAGATAAAG
** * *
7757889 TAAATATATTTTTAATGAGAAATTAT
1 TAAATATATTAATAATAAAAAATTAT
7757915 TAAATATATTAATAATAAAAAATT
1 TAAATATATTAATAATAAAAAATT
7757939 TAAATTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
TAAATATATTAATAATAAAAAATTAT
Found at i:7758187 original size:20 final size:21
Alignment explanation
Indices: 7758148--7758201 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
7758138 GTATGATTAG
*
7758148 AAATTATAATCATAATAAAAT
1 AAATTATAATCATAATAAAAA
7758169 AAATTA-AAT-ATATATAAAAA
1 AAATTATAATCATA-ATAAAAA
*
7758189 AAATCAATAATCA
1 AAAT-TATAATCA
7758202 AATTAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.11
20 13 0.48
21 7 0.26
22 3 0.11
23 1 0.04
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATTATAATCATAATAAAAA
Found at i:7758234 original size:36 final size:36
Alignment explanation
Indices: 7758194--7758263 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
7758184 AAAAAAAATC
** *
7758194 AATAATCAAATTAAATCAACAACCAGTAAATCAAAA
1 AATAATCAAACCAAATCAACAACCAATAAATCAAAA
* *
7758230 AATAATTAGACCAAATCAACAACCAATAAATCAA
1 AATAATCAAACCAAATCAACAACCAATAAATCAA
7758264 CGTGCAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.60, C:0.19, G:0.03, T:0.19
Consensus pattern (36 bp):
AATAATCAAACCAAATCAACAACCAATAAATCAAAA
Found at i:7761122 original size:146 final size:145
Alignment explanation
Indices: 7760878--7761281 Score: 477
Period size: 144 Copynumber: 2.8 Consensus size: 145
7760868 GCTCGACGAC
* * * *
7760878 ACTCAATTTGAAGCGGAATTATCTTACAGGTGACATCCCTAAGAGTGTGGGCAATTTACTAAATT
1 ACTCAATTTGAGGCGGAATTATCTCACAGGTGACAT-CCTCAGAGTGTGGGCAATTTACTGAA-T
* ****
7760943 TATACCGCCTCGATTTGTCAGAGAACAAATTGATAGGAACAATACCGAAAGTG-CTTGGTAATTT
64 TACAGTAACTCGATTTGTCAGAGAACAAATTGATAGGAACAATACCGAAAGTGCCTTGGTAATTT
**
7761007 AA-CAAC-GCTG-ATCGT
129 AAGC-ACGGCTGAATCAA
*
7761022 ACTCGATTTGAGGCGGAATTATCTCACA-GTGAACATCCGCTCAGAGTGTGGGGACAA-TTACTG
1 ACTCAATTTGAGGCGGAATTATCTCACAGGTG-ACAT-C-CTCAGAGTGT-GGG-CAATTTACTG
* *
7761085 TATTTACAGTAACTCTGA-TTGTCAGAGAACAAATTGATTA-G-AGAATA-CGAAAGTGCCCTTG
61 -AATTACAGTAACTC-GATTTGTCAGAGAACAAATTGA-TAGGAACAATACCGAAAGTG-CCTTG
7761146 GTAATTTAAGCACGGCTGAATCAA
122 GTAATTTAAGCACGGCTGAATCAA
7761170 ACTCAATTTGAGGCGGAATTATCTCACAGGTGACATCCTCAGAGTGTGGGCAATTTACTGAATTA
1 ACTCAATTTGAGGCGGAATTATCTCACAGGTGACATCCTCAGAGTGTGGGCAATTTACTGAATTA
*
7761235 CAGTACCTCGATTTGTCAGAGAACCAAATGTGATAGGAACAATACCG
66 CAGTAACTCGATTTGTCAGAGAA-CAAAT-TGATAGGAACAATACCG
7761282 CAAGAAGCTT
Statistics
Matches: 222, Mismatches: 18, Indels: 36
0.80 0.07 0.13
Matches are distributed among these distances:
143 5 0.02
144 65 0.29
145 30 0.14
146 64 0.29
147 19 0.09
148 36 0.16
149 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (145 bp):
ACTCAATTTGAGGCGGAATTATCTCACAGGTGACATCCTCAGAGTGTGGGCAATTTACTGAATTA
CAGTAACTCGATTTGTCAGAGAACAAATTGATAGGAACAATACCGAAAGTGCCTTGGTAATTTAA
GCACGGCTGAATCAA
Found at i:7786151 original size:4 final size:4
Alignment explanation
Indices: 7786142--7786190 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
7786132 AGCTCCTTCA
* * * * *
7786142 ATAC ATAC ATAC ATAA ATAA ATAA ATAA ATAC ATAC ACAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7786190 A
1 A
7786191 GACAGACAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.22
Consensus pattern (4 bp):
ATAC
Found at i:7792146 original size:25 final size:23
Alignment explanation
Indices: 7792093--7792147 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
7792083 AAGATATCTT
*
7792093 ATCTTAATTTAAATTTATACGTA
1 ATCTTAATTTAAATTTATAAGTA
*
7792116 ACTCTTAATTTAAAATTTCATAATTA
1 A-TCTTAATTT-AAATTT-ATAAGTA
7792142 ATCTTA
1 ATCTTA
7792148 GTAATTATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.04
24 9 0.33
25 11 0.41
26 6 0.22
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (23 bp):
ATCTTAATTTAAATTTATAAGTA
Found at i:7797186 original size:2 final size:2
Alignment explanation
Indices: 7797179--7797203 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7797169 TAAAGACATG
7797179 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
7797204 CCCACCCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:7802268 original size:72 final size:72
Alignment explanation
Indices: 7802167--7802310 Score: 225
Period size: 72 Copynumber: 2.0 Consensus size: 72
7802157 TGCTTCCCTT
* * * * * *
7802167 TATTCCTACCACTATGGTGGGGTGAAACAGGACCAGGAGAGGTAGGCTGAGGTGAAACAGTACCA
1 TATTCCTACCACCATGATGGGGTGAAACAGGACAACGAGAGGCAGGCTGAGGCGAAACAGTACCA
7802232 GGTGAAG
66 GGTGAAG
*
7802239 TATTCCTACCACCATGATGGGGTGAAACAGGACAACGAGAGGCAGGCTGGGGCGAAACAGTACCA
1 TATTCCTACCACCATGATGGGGTGAAACAGGACAACGAGAGGCAGGCTGAGGCGAAACAGTACCA
7802304 GGTGAAG
66 GGTGAAG
7802311 CAGGCAGGAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.31, C:0.19, G:0.34, T:0.16
Consensus pattern (72 bp):
TATTCCTACCACCATGATGGGGTGAAACAGGACAACGAGAGGCAGGCTGAGGCGAAACAGTACCA
GGTGAAG
Found at i:7804763 original size:64 final size:63
Alignment explanation
Indices: 7804670--7804803 Score: 150
Period size: 64 Copynumber: 2.1 Consensus size: 63
7804660 TATTTGTATA
* *
7804670 AAAAAAAGGTCTTAAATGATTTTCGTTAAAAAATATTA-AATGATTA-TTTAA-TACTTTTTTTT
1 AAAAAAAGGTCTTAAATAATTTTC-TTAAAAAATATTATAAT-ATTAGTTAAAGTA-TTTTTTTT
7804732 AC
63 -C
* *
7804734 AAAAAAATGTCTTAAATAATGTCTT-TTAAAAAATTTTATAATATTAGTTAAAGTATTTTTTTTC
1 AAAAAAAGGTCTTAAATAAT-T-TTCTTAAAAAATATTATAATATTAGTTAAAGTATTTTTTTTC
7804798 AAAAAA
1 AAAAAA
7804804 TGTTGATATT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
64 41 0.67
65 16 0.26
66 4 0.07
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (63 bp):
AAAAAAAGGTCTTAAATAATTTTCTTAAAAAATATTATAATATTAGTTAAAGTATTTTTTTTC
Found at i:7805130 original size:61 final size:61
Alignment explanation
Indices: 7805018--7805148 Score: 165
Period size: 61 Copynumber: 2.1 Consensus size: 61
7805008 CCCGATACCT
* * *
7805018 TAAAATATAAAATAATTATTTAAGATTTTTTTGTACAAAAATATCTGAAATAATC-TATTTA
1 TAAAATATAAAATAATTATTTAAGATATTTTTATACAAAAACATCTGAAATAATCAT-TTTA
* * * * *
7805079 TAAAATATAAAATGATTATTTAATATATTTTTATACAAAAGCGTCTTAAATAATCATTTTA
1 TAAAATATAAAATAATTATTTAAGATATTTTTATACAAAAACATCTGAAATAATCATTTTA
7805140 TAATAATAT
1 TAA-AATAT
7805149 TAACCCTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
61 54 0.90
62 6 0.10
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (61 bp):
TAAAATATAAAATAATTATTTAAGATATTTTTATACAAAAACATCTGAAATAATCATTTTA
Found at i:7805369 original size:24 final size:24
Alignment explanation
Indices: 7805342--7805391 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
7805332 TTATTTTCAT
*
7805342 AATTTTTTATTCATATCAAATTTA
1 AATTTTTTATTCAGATCAAATTTA
*
7805366 AATTTTTTATTTAGATCAAATTTA
1 AATTTTTTATTCAGATCAAATTTA
7805390 AA
1 AA
7805392 AATAAGGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (24 bp):
AATTTTTTATTCAGATCAAATTTA
Found at i:7806204 original size:79 final size:82
Alignment explanation
Indices: 7806054--7806205 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 82
7806044 TAACCCACAA
* * *
7806054 ATTTTTATGATCATTTAATTAAAAAAACTAAAAAGATTATTTAAGGTATTTTTATACAGAAAATG
1 ATTTTTATGATCATTCAATTAAAAAAACTAAAAAGATTATTTAAGGTATTATTATACAGAAAATC
*
7806119 ATTTAAATACTCTTTTT
66 ACTTAAATACTCTTTTT
* * *
7806136 ATTTTT-T-ATCATTCAATTAAAAAAA-TAAAAGGATTATTTAATGTATTATTGTACAGAAAA-C
1 ATTTTTATGATCATTCAATTAAAAAAACTAAAAAGATTATTTAAGGTATTATTATACAGAAAATC
7806197 ACCTTAAAT
66 A-CTTAAAT
7806206 GATCCTATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.02
79 37 0.60
80 17 0.27
81 1 0.02
82 6 0.10
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (82 bp):
ATTTTTATGATCATTCAATTAAAAAAACTAAAAAGATTATTTAAGGTATTATTATACAGAAAATC
ACTTAAATACTCTTTTT
Found at i:7806219 original size:79 final size:81
Alignment explanation
Indices: 7806053--7806221 Score: 193
Period size: 79 Copynumber: 2.1 Consensus size: 81
7806043 ATAACCCACA
* *
7806053 AATTTTTATGATCATTTAATTAAAAAAACTAAAAAGATTATTTAAGGTATTTTTATACAGAAAAT
1 AATTTTT-TGATCATTCAATTAAAAAAACTAAAAAGATTATTTAAGGTATTATTATACAGAAAAT
* * * *
7806118 GATTTAAATACTCTTTT
65 CACTTAAATACTCCTAT
* * * *
7806135 TATTTTTT-ATCATTCAATTAAAAAAA-TAAAAGGATTATTTAATGTATTATTGTACAGAAAA-C
1 AATTTTTTGATCATTCAATTAAAAAAACTAAAAAGATTATTTAAGGTATTATTATACAGAAAATC
7806197 ACCTTAAATGA-TCCTAT
66 A-CTTAAAT-ACTCCTAT
7806214 AATTTTTT
1 AATTTTTT
7806222 TATAAATAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
78 1 0.01
79 48 0.65
80 18 0.24
81 1 0.01
82 6 0.08
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.43
Consensus pattern (81 bp):
AATTTTTTGATCATTCAATTAAAAAAACTAAAAAGATTATTTAAGGTATTATTATACAGAAAATC
ACTTAAATACTCCTAT
Found at i:7808592 original size:16 final size:16
Alignment explanation
Indices: 7808571--7808633 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
7808561 ATTATTATGA
7808571 ATATAAATATAAAATT
1 ATATAAATATAAAATT
* *
7808587 ATATAAATAAAAAAGT
1 ATATAAATATAAAATT
* *
7808603 ATTAAAAATATATAATT
1 A-TATAAATATAAAATT
*
7808620 AAATAAATAATAAA
1 ATATAAAT-ATAAA
7808634 CAAAATTTAT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
ATATAAATATAAAATT
Found at i:7808633 original size:25 final size:25
Alignment explanation
Indices: 7808573--7808633 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
7808563 TATTATGAAT
*
7808573 ATAAAT-ATAAAATTATATAAATAA
1 ATAAATAATAAAAATATATAAATAA
* *
7808597 A-AAAGTATTAAAAATATATAATTAA
1 ATAAA-TAATAAAAATATATAAATAA
7808622 ATAAATAATAAA
1 ATAAATAATAAA
7808634 CAAAATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 22 0.73
26 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
ATAAATAATAAAAATATATAAATAA
Found at i:7816664 original size:21 final size:20
Alignment explanation
Indices: 7816608--7816680 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
7816598 AAAATTTTAA
7816608 AAATTAATTTAAATTTAAATT
1 AAATTAA-TTAAATTTAAATT
* * *
7816629 AAATTTTATTTAATTTGAATT
1 AAA-TTAATTAAATTTAAATT
*
7816650 AAATTGAATTAAATTT-TATT
1 AAATT-AATTAAATTTAAATT
*
7816670 AATTTAATTAA
1 AAATTAATTAA
7816681 TTAATTTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 6 0.14
20 9 0.21
21 25 0.58
22 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
AAATTAATTAAATTTAAATT
Found at i:7816676 original size:5 final size:5
Alignment explanation
Indices: 7816611--7816687 Score: 52
Period size: 5 Copynumber: 15.4 Consensus size: 5
7816601 ATTTTAAAAA
* * * *
7816611 TTAAT TTAAAT TTAAAT TAAAT TTTAT TTAAT TTGAAT TAAAT TGAAT
1 TTAAT TT-AAT TT-AAT TTAAT TTAAT TTAAT TT-AAT TTAAT TTAAT
* *
7816659 TAAAT TTTA- TTAAT TTAA- TTAA- TTAAT TT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TT
7816688 TTTATATATT
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
4 11 0.19
5 33 0.57
6 14 0.24
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (5 bp):
TTAAT
Found at i:7827538 original size:6 final size:6
Alignment explanation
Indices: 7827527--7827572 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
7827517 CCGCCCACTA
*
7827527 CACAGG CACAGG CACAGG CACAGG CACAGG CACAGG CACTGG CACA
1 CACAGG CACAGG CACAGG CACAGG CACAGG CACAGG CACAGG CACA
7827573 ACCATGGACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.33, C:0.35, G:0.30, T:0.02
Consensus pattern (6 bp):
CACAGG
Found at i:7829758 original size:15 final size:15
Alignment explanation
Indices: 7829740--7829775 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7829730 TATTGTGAGT
7829740 TTTTTCTTGTTTTTG
1 TTTTTCTTGTTTTTG
* *
7829755 TTTTTGTTTTTTTTG
1 TTTTTCTTGTTTTTG
7829770 TTTTTC
1 TTTTTC
7829776 GAATTTTAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (15 bp):
TTTTTCTTGTTTTTG
Found at i:7830587 original size:33 final size:33
Alignment explanation
Indices: 7830550--7830614 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
7830540 CGGTAAAGTT
*
7830550 AATTTAGATTAAATTTTATGAAAATT-TAATTTG
1 AATTTAGATTAAATTTTA-AAAAATTATAATTTG
*
7830583 AATTTAGATTATATTTTAAAAAATTATAATTT
1 AATTTAGATTAAATTTTAAAAAATTATAATTT
7830615 TATGTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 6 0.21
33 23 0.79
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (33 bp):
AATTTAGATTAAATTTTAAAAAATTATAATTTG
Found at i:7847570 original size:196 final size:195
Alignment explanation
Indices: 7847237--7847626 Score: 717
Period size: 196 Copynumber: 2.0 Consensus size: 195
7847227 CGATTTATTT
*
7847237 ACACTTTGGTTTGTTGATGAAAATGACTAAATGCTCAATTAAGGATATAACATTTAGGCGTTTTC
1 ACACTTTGGTTTGTTGATGAAAATGACTAAATGCTCAATTAAGGATATAACATTTAGGCATTTTC
* * *
7847302 TCAGTTAAGGATATCAACTTTAATATGAAGTTGTAAGACTAATCGTTTTCGGATTGATTCAAATA
66 TCAATTAAGGATATCAACTTTAATATGAAGATGTAAGACTAATCGTATTCGGATTGATTCAAATA
*
7847367 AGGATTCAGTTATGGTAGGTGTTTTCTCAATTAAGGATGTCAACTTTAATTTGGATCAATGTAAG
131 AGGATTCAGTTAGGGTAGGTGTTTTCTCAATTAAGGATGTCAACTTTAATTTGGATCAATGTAAG
*
7847432 ACACTTTGGTTTGTTGATGAAAAATGGCTAAATGCTCAATTAAGGATATAACATTTAGGCATTTT
1 ACACTTTGGTTTGTTGATG-AAAATGACTAAATGCTCAATTAAGGATATAACATTTAGGCATTTT
7847497 CTCAATTAAGGATATCAACTTTAATATGAAGATGTAAGACTAATCGTATTCGGATTGATTCAAAT
65 CTCAATTAAGGATATCAACTTTAATATGAAGATGTAAGACTAATCGTATTCGGATTGATTCAAAT
7847562 AAGGATTCAGTTAGGGTAGGTGTTTTCTCAATTAAGGATGTCAACTTTAATTTGGATCAATGTAA
130 AAGGATTCAGTTAGGGTAGGTGTTTTCTCAATTAAGGATGTCAACTTTAATTTGGATCAATGTAA
7847627 AACTAAATGT
Statistics
Matches: 188, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
195 19 0.10
196 169 0.90
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (195 bp):
ACACTTTGGTTTGTTGATGAAAATGACTAAATGCTCAATTAAGGATATAACATTTAGGCATTTTC
TCAATTAAGGATATCAACTTTAATATGAAGATGTAAGACTAATCGTATTCGGATTGATTCAAATA
AGGATTCAGTTAGGGTAGGTGTTTTCTCAATTAAGGATGTCAACTTTAATTTGGATCAATGTAAG
Found at i:7847600 original size:91 final size:92
Alignment explanation
Indices: 7847493--7847667 Score: 257
Period size: 93 Copynumber: 1.9 Consensus size: 92
7847483 CATTTAGGCA
*
7847493 TTTTCTCAATTAAGGATATCAACTTTAATAT-GA-AGATGTAAGACT-AATCGTATTCGGATTGA
1 TTTTCTCAATTAAGGATATCAACTTTAATATGGACA-ATGTAAAACTAAAT-GTATTCGGATTGA
7847555 TTCAAATAAGGATTCAGTTAGGGTAGGTG
64 TTCAAATAAGGATTCAGTTAGGGTAGGTG
* * * *
7847584 TTTTCTCAATTAAGGATGTCAACTTTAATTTGGATCAATGTAAAACTAAATGTTTTCGGATTGGT
1 TTTTCTCAATTAAGGATATCAACTTTAATATGGA-CAATGTAAAACTAAATGTATTCGGATTGAT
7847649 TCAAATAAGGATTCAGTTA
65 TCAAATAAGGATTCAGTTA
7847668 CGGAAGTGTA
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
91 29 0.39
92 2 0.03
93 40 0.53
94 4 0.05
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (92 bp):
TTTTCTCAATTAAGGATATCAACTTTAATATGGACAATGTAAAACTAAATGTATTCGGATTGATT
CAAATAAGGATTCAGTTAGGGTAGGTG
Found at i:7848037 original size:24 final size:24
Alignment explanation
Indices: 7848010--7848083 Score: 96
Period size: 24 Copynumber: 3.0 Consensus size: 24
7848000 TAAACTTAAA
7848010 ATGAAACCTCAGTTTTATCAAACC
1 ATGAAACCTCAGTTTTATCAAACC
*
7848034 ATGAAAACC-CAGTTTTTATCGAACC
1 ATG-AAACCTCAG-TTTTATCAAACC
* *
7848059 TTGAAAACTCAGTTTTATCAAACC
1 ATGAAACCTCAGTTTTATCAAACC
7848083 A
1 A
7848084 CAATCCACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
24 21 0.50
25 21 0.50
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (24 bp):
ATGAAACCTCAGTTTTATCAAACC
Found at i:7848050 original size:25 final size:24
Alignment explanation
Indices: 7848013--7848083 Score: 97
Period size: 25 Copynumber: 2.9 Consensus size: 24
7848003 ACTTAAAATG
7848013 AAACCTCAGTTTTATCAAACCATGA
1 AAACC-CAGTTTTATCAAACCATGA
* *
7848038 AAACCCAGTTTTTATCGAACCTTGA
1 AAACCCAG-TTTTATCAAACCATGA
*
7848063 AAACTCAGTTTTATCAAACCA
1 AAACCCAGTTTTATCAAACCA
7848084 CAATCCACAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
24 14 0.35
25 26 0.65
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (24 bp):
AAACCCAGTTTTATCAAACCATGA
Found at i:7851248 original size:21 final size:21
Alignment explanation
Indices: 7851197--7851244 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7851187 CTGAGAATCA
* *
7851197 AGAGAAGAAATGACAATTTTT
1 AGAGAAGAAACGACAATCTTT
7851218 AGAGAAGAAACGACAATCTTT
1 AGAGAAGAAACGACAATCTTT
7851239 AG-GAAG
1 AGAGAAG
7851245 GAAAGTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.21
Consensus pattern (21 bp):
AGAGAAGAAACGACAATCTTT
Found at i:7852648 original size:22 final size:23
Alignment explanation
Indices: 7852617--7852664 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
7852607 ATAAAATACT
* * *
7852617 AATATGTAAAGTTTT-TTTTTTA
1 AATATCTAAAATTTTATTTTATA
7852639 AATATCTAAAATTTTATTTTATA
1 AATATCTAAAATTTTATTTTATA
7852662 AAT
1 AAT
7852665 CATAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (23 bp):
AATATCTAAAATTTTATTTTATA
Found at i:7852670 original size:22 final size:21
Alignment explanation
Indices: 7852629--7852681 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
7852619 TATGTAAAGT
*
7852629 TTTTTTTTTAAATATCTAAAA
1 TTTTATTTTAAATATCTAAAA
7852650 TTTTATTTTATAA-ATCATAAAA
1 TTTTATTTTA-AATATC-TAAAA
*
7852672 TATTAATTTT
1 T-TTTATTTT
7852682 TTTTATCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 12 0.44
22 8 0.30
23 7 0.26
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTATTTTAAATATCTAAAA
Found at i:7853303 original size:2 final size:2
Alignment explanation
Indices: 7853296--7853324 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7853286 GTAATTGAAG
7853296 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 A
7853325 AAGAGAGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7869091 original size:16 final size:17
Alignment explanation
Indices: 7869066--7869103 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
7869056 TTTATTTTTT
*
7869066 AATTTGTA-TTTAAATA
1 AATTTGTATTTTAAAAA
*
7869082 AATTTTTATTTTAAAAA
1 AATTTGTATTTTAAAAA
7869099 AATTT
1 AATTT
7869104 ATTTAATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTTGTATTTTAAAAA
Found at i:7879480 original size:13 final size:13
Alignment explanation
Indices: 7879459--7879488 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7879449 AAAAATCAGG
7879459 ATTTAATTTAATT
1 ATTTAATTTAATT
*
7879472 ATTTCATTTAATT
1 ATTTAATTTAATT
7879485 ATTT
1 ATTT
7879489 TTAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTAATTTAATT
Found at i:7880267 original size:23 final size:25
Alignment explanation
Indices: 7880232--7880290 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
7880222 ATTTTGACAT
*
7880232 ATTC-AATACATTT-TTT-TAATTA
1 ATTCAAATAAATTTATTTATAATTA
*
7880254 ATTCAAATAAATTTATTTATATTTA
1 ATTCAAATAAATTTATTTATAATTA
7880279 A-TCAAATAAATT
1 ATTCAAATAAATT
7880291 AATAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 4 0.12
23 8 0.25
24 14 0.44
25 6 0.19
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTCAAATAAATTTATTTATAATTA
Found at i:7880301 original size:24 final size:25
Alignment explanation
Indices: 7880251--7880307 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
7880241 ATTTTTTTAA
* ** *
7880251 TTAATTCAAATAAATTTATTTATAT
1 TTAATTCAAATAAATTAATAAAAAT
7880276 TTAA-TCAAATAAATTAATAAAAAT
1 TTAATTCAAATAAATTAATAAAAAT
*
7880300 TTTATTCA
1 TTAATTCA
7880308 CGAACTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAATTCAAATAAATTAATAAAAAT
Found at i:7880562 original size:24 final size:24
Alignment explanation
Indices: 7880530--7880578 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7880520 TGGTAATAAA
7880530 TAAAGAGTGGTCCTCTTTCCTATG
1 TAAAGAGTGGTCCTCTTTCCTATG
7880554 TAAAGAGTGGTCCTCTTTCCTATG
1 TAAAGAGTGGTCCTCTTTCCTATG
7880578 T
1 T
7880579 CTAGTACAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (24 bp):
TAAAGAGTGGTCCTCTTTCCTATG
Found at i:7882751 original size:2 final size:2
Alignment explanation
Indices: 7882744--7882769 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7882734 TTGAAACAAC
7882744 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7882770 TAAGTGACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7886623 original size:125 final size:126
Alignment explanation
Indices: 7886384--7886633 Score: 387
Period size: 125 Copynumber: 2.0 Consensus size: 126
7886374 TATTGCATAC
* *
7886384 TTAGGTTCTTGCCCTATTCGGGTTCTTATTATGATTGCACTACCAGTATTATGCATCATTCTAAT
1 TTAGGTTCTTGCACTATTCAGGTTCTTATTATGATTGCACTACCAGTATTATGCATCATTCTAAT
* *
7886449 GATTTCCTAGAGGTTACATCAAATCTTCATACAAAGTCCAAAACCAAGTTTGCACAATGCG
66 GATTTCCTAGAGGTAACATCAAATCTTCATACAAAGTACAAAACCAAGTTTGCACAATGCG
* * * *
7886510 TTAGGTTC-TGCACTATTCAGGTTCTTTTTATGATTGCACTATCTGTGTTATGCATCATTCTAAT
1 TTAGGTTCTTGCACTATTCAGGTTCTTATTATGATTGCACTACCAGTATTATGCATCATTCTAAT
* *
7886574 GATTTCCTAGAGGTAACATCAAATCTTC-TAACAATGTACAAAACTAAGTTTGCACAATGC
66 GATTTCCTAGAGGTAACATCAAATCTTCAT-ACAAAGTACAAAACCAAGTTTGCACAATGC
7886634 CAAATTCAAC
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
124 1 0.01
125 104 0.92
126 8 0.07
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (126 bp):
TTAGGTTCTTGCACTATTCAGGTTCTTATTATGATTGCACTACCAGTATTATGCATCATTCTAAT
GATTTCCTAGAGGTAACATCAAATCTTCATACAAAGTACAAAACCAAGTTTGCACAATGCG
Found at i:7904839 original size:21 final size:21
Alignment explanation
Indices: 7904813--7904852 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7904803 ATTATTTTGT
*
7904813 AATATAATAATTGATTATATA
1 AATATAACAATTGATTATATA
*
7904834 AATATAACATTTGATTATA
1 AATATAACAATTGATTATA
7904853 AATTTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
AATATAACAATTGATTATATA
Found at i:7906334 original size:16 final size:15
Alignment explanation
Indices: 7906310--7906349 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
7906300 TTTAAATAAT
*
7906310 TTTTTATATTTAAAA
1 TTTTAATATTTAAAA
7906325 TTATTAATA-TTAAAA
1 TT-TTAATATTTAAAA
7906340 TTTTAATATT
1 TTTTAATATT
7906350 CAATAAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 6 0.27
15 11 0.50
16 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAATATTTAAAA
Found at i:7906347 original size:14 final size:15
Alignment explanation
Indices: 7906319--7906349 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
7906309 TTTTTTATAT
7906319 TTAAAATTATTAATA
1 TTAAAATTATTAATA
7906334 TTAAAATT-TTAATA
1 TTAAAATTATTAATA
7906348 TT
1 TT
7906350 CAATAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAAAATTATTAATA
Found at i:7906771 original size:15 final size:15
Alignment explanation
Indices: 7906747--7906786 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
7906737 TAAATATTAT
*
7906747 ATTAAAAATTTTAAA
1 ATTAAAAATTTAAAA
*
7906762 ATTTAAAATTTAAAA
1 ATTAAAAATTTAAAA
7906777 ATTAAAAATT
1 ATTAAAAATT
7906787 ATATTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTAAAAATTTAAAA
Found at i:7906793 original size:35 final size:36
Alignment explanation
Indices: 7906698--7906794 Score: 87
Period size: 35 Copynumber: 2.7 Consensus size: 36
7906688 ATTAATCATA
*
7906698 TTAAAAA-TAAAAATTATATTAATTAATGAATTTATAAT
1 TTAAAAATTAAAAATTATATT--TTAA-GAATTTAAAAT
*
7906736 TTAAATATTATATTAAA--A-ATTTTAA-AATTTAAAAT
1 TTAAAAATTA-A--AAATTATATTTTAAGAATTTAAAAT
7906771 TTAAAAATTAAAAATTATATTTTA
1 TTAAAAATTAAAAATTATATTTTA
7906795 TATTTTATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 17
0.71 0.04 0.25
Matches are distributed among these distances:
32 3 0.06
34 2 0.04
35 24 0.49
37 4 0.08
38 6 0.12
39 5 0.10
40 2 0.04
42 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (36 bp):
TTAAAAATTAAAAATTATATTTTAAGAATTTAAAAT
Found at i:7906794 original size:21 final size:21
Alignment explanation
Indices: 7906733--7906792 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
7906723 ATGAATTTAT
*
7906733 AATTTAAATATTATA-TTAAA
1 AATTTAAAAATTATATTTAAA
* *
7906753 AATTTTAAAATTTAAAATTTAAA
1 AA-TTTAAAAATT-ATATTTAAA
7906776 AA-TTAAAAATTATATTT
1 AATTTAAAAATTATATTT
7906793 TATATTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 7 0.22
21 16 0.50
22 2 0.06
23 7 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTTAAAAATTATATTTAAA
Found at i:7907556 original size:13 final size:13
Alignment explanation
Indices: 7907538--7907564 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7907528 GTATGTGTAT
7907538 TTATATATATATA
1 TTATATATATATA
7907551 TTATATATATATA
1 TTATATATATATA
7907564 T
1 T
7907565 GTGCTGTCCA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATATATATATA
Found at i:7920919 original size:18 final size:18
Alignment explanation
Indices: 7920886--7920920 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7920876 TTATTTTTAA
* *
7920886 ATATAAATATATAATTAT
1 ATATAAATAAAAAATTAT
7920904 ATATAAATAAAAAATTA
1 ATATAAATAAAAAATTA
7920921 AATAATTAAT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATAAATAAAAAATTAT
Found at i:7921332 original size:21 final size:22
Alignment explanation
Indices: 7921308--7921355 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
7921298 TATTTTTAAT
* *
7921308 TTTTTATTTA-ATATATTTAGA
1 TTTTTATTTATAAATATATAGA
*
7921329 TTTTT-TTTATAAATATATATA
1 TTTTTATTTATAAATATATAGA
7921350 TTTTTA
1 TTTTTA
7921356 ATAAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTTATTTATAAATATATAGA
Found at i:7921376 original size:20 final size:21
Alignment explanation
Indices: 7921339--7921377 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
7921329 TTTTTTTTAT
*
7921339 AAATATATATATTTTTAATAA
1 AAATATATATAATTTTAATAA
7921360 AAATATAT-TAATTTTAAT
1 AAATATATATAATTTTAAT
7921378 TAATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATATATATAATTTTAATAA
Found at i:7930167 original size:2 final size:2
Alignment explanation
Indices: 7930162--7930186 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7930152 TTATATAAAT
7930162 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 A
7930187 TATATAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:7939121 original size:25 final size:23
Alignment explanation
Indices: 7939071--7939121 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
7939061 AGAGAAATTC
* *
7939071 TAAAAATAGAAGGGAGTTATAAA
1 TAAAAACAGAAGGGAGTTACAAA
*
7939094 TAAAAACAGAAGGGGAGGTTACACA
1 TAAAAACAGAA-GGGA-GTTACAAA
7939119 TAA
1 TAA
7939122 GAGAAGGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 10 0.43
24 4 0.17
25 9 0.39
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18
Consensus pattern (23 bp):
TAAAAACAGAAGGGAGTTACAAA
Found at i:7940515 original size:30 final size:31
Alignment explanation
Indices: 7940476--7940605 Score: 99
Period size: 30 Copynumber: 4.3 Consensus size: 31
7940466 TTATTCAATA
*
7940476 AAAATTTTAATT-AGGTAAAAATAAATATTTT
1 AAAATTTTAATTGA-ATAAAAATAAATATTTT
*
7940507 AAAA-TTTAATTGAATAAAACTAAATATTTT
1 AAAATTTTAATTGAATAAAAATAAATATTTT
* * * * ** * *
7940537 AAAGTTTTGATTTATTTGAAATAAAAAATTT
1 AAAATTTTAATTGAATAAAAATAAATATTTT
** *
7940568 AAAA-TTTAATT-AATTGAAATAAA-ATATT
1 AAAATTTTAATTGAATAAAAATAAATATTTT
7940596 AAAATTTTAA
1 AAAATTTTAA
7940606 ATTATTATTA
Statistics
Matches: 80, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
28 7 0.09
29 16 0.20
30 31 0.39
31 26 0.32
ACGTcount: A:0.52, C:0.01, G:0.05, T:0.42
Consensus pattern (31 bp):
AAAATTTTAATTGAATAAAAATAAATATTTT
Found at i:7941723 original size:2 final size:2
Alignment explanation
Indices: 7941716--7941746 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7941706 TATTATATTT
7941716 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 T
7941747 TAGATGAATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7941965 original size:23 final size:22
Alignment explanation
Indices: 7941938--7942000 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
7941928 TAAAAATTTT
7941938 AAAATTTTAAAAAAATTCTTATA
1 AAAATTTT-AAAAAATTCTTATA
* *
7941961 AAAATCTTTAAAATATTCTTTTA
1 AAAAT-TTTAAAAAATTCTTATA
* *
7941984 AACATTATGAAAAAATT
1 AAAATT-TTAAAAAATT
7942001 AATAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 1 0.03
23 29 0.88
24 3 0.09
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATTTTAAAAAATTCTTATA
Found at i:7945527 original size:27 final size:27
Alignment explanation
Indices: 7945492--7945543 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
7945482 TATTATAATT
*
7945492 TTATACATCAAATACAAC-ATAATGTGA
1 TTATACATCAAAGAC-ACTATAATGTGA
*
7945519 TTATGCATCAAAGACACTATAATGT
1 TTATACATCAAAGACACTATAATGT
7945544 AATTGGCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (27 bp):
TTATACATCAAAGACACTATAATGTGA
Found at i:7948657 original size:52 final size:52
Alignment explanation
Indices: 7948595--7948699 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
7948585 TTCTTTTTTA
*
7948595 ATAGATTGGAGCTCATCAATTTCCAAACAAATGTAAGATCTTTAAGTTCCAT
1 ATAGATTGGAGCTCATCAATTTCCAAACAAATATAAGATCTTTAAGTTCCAT
*
7948647 ATAGATTGGAGCTTATCAATTTCCAAACAAATATAAGATCTTTAAGTTCCAT
1 ATAGATTGGAGCTCATCAATTTCCAAACAAATATAAGATCTTTAAGTTCCAT
7948699 A
1 A
7948700 ATCCAAACTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (52 bp):
ATAGATTGGAGCTCATCAATTTCCAAACAAATATAAGATCTTTAAGTTCCAT
Found at i:7948696 original size:26 final size:25
Alignment explanation
Indices: 7948615--7948697 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
7948605 GCTCATCAAT
7948615 TTCCAAACAAATGTAAGATCTTTAAG
1 TTCCAAACAAAT-TAAGATCTTTAAG
* * * * * *
7948641 TTCCATATAGATT-GGAGCTTATCAAT
1 TTCCAAACAAATTAAGATCTT-T-AAG
7948667 TTCCAAACAAATATAAGATCTTTAAG
1 TTCCAAACAAAT-TAAGATCTTTAAG
7948693 TTCCA
1 TTCCA
7948698 TAATCCAAAC
Statistics
Matches: 41, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
24 5 0.12
25 2 0.05
26 27 0.66
27 2 0.05
28 5 0.12
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.34
Consensus pattern (25 bp):
TTCCAAACAAATTAAGATCTTTAAG
Found at i:7954396 original size:20 final size:19
Alignment explanation
Indices: 7954371--7954424 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
7954361 AATACATAAG
7954371 TATATACATAAATAAATATA
1 TATATACATAAATAAAT-TA
* *
7954391 TTTATACATAAAATTAATTA
1 TATATACAT-AAATAAATTA
*
7954411 TATATAAATAAATA
1 TATATACATAAATA
7954425 GTTATAACGT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.14
20 17 0.61
21 7 0.25
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
TATATACATAAATAAATTA
Found at i:7954657 original size:12 final size:12
Alignment explanation
Indices: 7954640--7954680 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
7954630 ATGATAATAA
7954640 GATATAAAAAAT
1 GATATAAAAAAT
7954652 GATAT-AAAAAT
1 GATATAAAAAAT
7954663 -AT-TAAAAAAT
1 GATATAAAAAAT
*
7954673 AATATAAA
1 GATATAAA
7954681 TTAAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.04
10 8 0.31
11 8 0.31
12 9 0.35
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (12 bp):
GATATAAAAAAT
Found at i:7954685 original size:26 final size:26
Alignment explanation
Indices: 7954656--7954719 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
7954646 AAAAATGATA
7954656 TAAAAATAT-TAAAAAATAATATAAAT
1 TAAAAATATATAAAAAATAATA-AAAT
* **
7954682 TAAAATTTATATAAAATTTAATAAAAT
1 TAAAA-ATATATAAAAAATAATAAAAT
*
7954709 TAAATATATAT
1 TAAAAATATAT
7954720 TTTATATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 10 0.32
27 11 0.35
28 10 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
TAAAAATATATAAAAAATAATAAAAT
Found at i:7959338 original size:12 final size:12
Alignment explanation
Indices: 7959321--7959346 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7959311 ATCAAAACGG
7959321 CCAATACGTGGA
1 CCAATACGTGGA
7959333 CCAATACGTGGA
1 CCAATACGTGGA
7959345 CC
1 CC
7959347 TTTAATCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (12 bp):
CCAATACGTGGA
Found at i:7964072 original size:29 final size:32
Alignment explanation
Indices: 7964038--7964104 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 32
7964028 AATTTTATTT
7964038 TTTTAAAAAATT-TATATTT-A-TTTTTTAAA
1 TTTTAAAAAATTATATATTTAATTTTTTTAAA
* *
7964067 TTTT--AAAATTATATTTTTAATTTTTTTAAC
1 TTTTAAAAAATTATATATTTAATTTTTTTAAA
7964097 TTTTAAAA
1 TTTTAAAA
7964105 TTAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
27 6 0.19
28 6 0.19
29 5 0.16
30 12 0.39
32 2 0.06
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (32 bp):
TTTTAAAAAATTATATATTTAATTTTTTTAAA
Found at i:7964122 original size:22 final size:23
Alignment explanation
Indices: 7964097--7964147 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
7964087 TTTTTTTAAC
7964097 TTTTAAAATTA-AAAAAAATAAA
1 TTTTAAAATTATAAAAAAATAAA
** * *
7964119 TTTTAATTTTATAAAAAATTTAA
1 TTTTAAAATTATAAAAAAATAAA
7964142 TTTTAA
1 TTTTAA
7964148 TATAAATACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTTAAAATTATAAAAAAATAAA
Found at i:7964154 original size:17 final size:17
Alignment explanation
Indices: 7964113--7964146 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7964103 AATTAAAAAA
7964113 AATAAATTTTAATTTTAT
1 AATAAA-TTTAATTTTAT
*
7964131 AAAAAATTTAATTTTA
1 AATAAATTTAATTTTA
7964147 ATATAAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATAAATTTAATTTTAT
Found at i:7967591 original size:17 final size:16
Alignment explanation
Indices: 7967562--7967595 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7967552 TTACAGTAAC
7967562 CAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAA
*
7967578 CAAAAAGAAGAAAAAAA
1 CAAAAA-AAAAAAAAAA
7967595 C
1 C
7967596 TATTGCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAA
Done.