Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 30 of 187
Found at i:8724553 original size:25 final size:26
Alignment explanation
Indices: 8724525--8724573 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8724515 ACTTAGAATT
8724525 TTTCT-AAA-AACACTGTAGTTAGTAC
1 TTTCTGAAACAACACTG-AGTTAGTAC
*
8724550 TTTCTGAAACTACACTGAGTTAGT
1 TTTCTGAAACAACACTGAGTTAGT
8724574 TAGAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.24
26 10 0.48
27 6 0.29
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (26 bp):
TTTCTGAAACAACACTGAGTTAGTAC
Found at i:8737748 original size:57 final size:57
Alignment explanation
Indices: 8737660--8737774 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
8737650 GAAACTAACT
8737660 AAAAATTTTACTAAGACAAGTGCACCTATCAATTAATAGTATAGCTACCGTGAGCAA
1 AAAAATTTTACTAAGACAAGTGCACCTATCAATTAATAGTATAGCTACCGTGAGCAA
8737717 AAAAATTTTACTAAGACAAGTGCACCTATCAATTAATAGTATAGCTACCGTGAGCAA
1 AAAAATTTTACTAAGACAAGTGCACCTATCAATTAATAGTATAGCTACCGTGAGCAA
8737774 A
1 A
8737775 GATATCGTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (57 bp):
AAAAATTTTACTAAGACAAGTGCACCTATCAATTAATAGTATAGCTACCGTGAGCAA
Found at i:8739308 original size:14 final size:15
Alignment explanation
Indices: 8739289--8739317 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8739279 TTTTTCAATC
8739289 TTAAAA-TTTAAAAT
1 TTAAAATTTTAAAAT
8739303 TTAAAATTTTAAAAT
1 TTAAAATTTTAAAAT
8739318 ACCAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAATTTTAAAAT
Found at i:8742433 original size:16 final size:16
Alignment explanation
Indices: 8742400--8742433 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8742390 AGTAAGTGTT
* *
8742400 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
8742416 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
8742432 AA
1 AA
8742434 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:8745259 original size:21 final size:21
Alignment explanation
Indices: 8745233--8745273 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8745223 AGACGAGCAA
* *
8745233 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
8745254 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
8745274 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:8747212 original size:16 final size:16
Alignment explanation
Indices: 8747179--8747212 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8747169 GGAGATTGTT
* *
8747179 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
8747195 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
8747211 AA
1 AA
8747213 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:8750421 original size:15 final size:15
Alignment explanation
Indices: 8750401--8750508 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
8750391 TTTATGGAAA
8750401 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
8750416 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
8750430 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* ****
8750446 ATCAAATAT-TAAAA
1 ATCAAAGATATGGGT
8750460 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
8750476 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
*
8750490 AGTCAAAGGTATGGGT
1 A-TCAAAGATATGGGT
8750506 ATC
1 ATC
8750509 GAGATATTGG
Statistics
Matches: 64, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
14 11 0.17
15 42 0.66
16 11 0.17
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:8750430 original size:30 final size:30
Alignment explanation
Indices: 8750394--8750508 Score: 160
Period size: 30 Copynumber: 3.8 Consensus size: 30
8750384 ATCCATATTT
8750394 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAATCAAAGATATGGGTATCAAATA
*
8750424 ATGGAAAGTCAAAGATATGGGTATCAAAT-
1 ATGGAAAATCAAAGATATGGGTATCAAATA
**
8750453 ATTAAAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAA-TCAAAGATATGGGTATCAAATA
* * *
8750484 TTGGAAAGTCAAAGGTATGGGTATC
1 ATGGAAAATCAAAGATATGGGTATC
8750509 GAGATATTGG
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
29 5 0.07
30 65 0.88
31 4 0.05
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAATCAAAGATATGGGTATCAAATA
Found at i:8755115 original size:15 final size:15
Alignment explanation
Indices: 8755095--8755172 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
8755085 TTTATGGAAA
8755095 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
8755110 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
8755124 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
8755140 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
8755154 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
8755170 ATC
1 ATC
8755173 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:8755124 original size:30 final size:30
Alignment explanation
Indices: 8755088--8755172 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
8755078 ATCCATATTT
*
8755088 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
8755118 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
8755148 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
8755173 GAGATATTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:8760616 original size:114 final size:113
Alignment explanation
Indices: 8760453--8760823 Score: 444
Period size: 114 Copynumber: 3.3 Consensus size: 113
8760443 CGTTTTCCCA
* * * * * * ** * *
8760453 AAAGCGCCACAAAAGAGTTAAG-CCAACGATGTCGTTTTTTTGTTCAGCTTCAAAGATATTAGTG
1 AAAGCGCCGCAAAAGAGTTAAGTCAAACGACGCCGTTTTTTTGTTGAGCTTTAGCGACATTGGTG
** * *
8760517 GCGCTTTTAAAAAAACGTCGCAAAAGACAAGTATTAGCGGCGCTATCAC
66 GCGCTTTTCTAGAAACG-CGCAAAAGACAAGAATTAGCGGCGCTATCAC
* *
8760566 ATAGCGCCGCAAAAGAGTTAAGTTAAACGACGCCGTTTTTTTGTTGAGCTTTAGCGACATTGGTG
1 AAAGCGCCGCAAAAGAGTTAAGTCAAACGACGCCGTTTTTTTGTTGAGCTTTAGCGACATTGGTG
* * * *
8760631 GTGCTTTTCTAGGAACGCTGCAAAAGACAAGCATTAGCGGCACTATCAC
66 GCGCTTTTCTAGAAACGC-GCAAAAGACAAGAATTAGCGGCGCTATCAC
* *
8760680 AAAGCGCCGCAAAAAAGTTAAGTCAAACGACGCCGTTTTCTTGTTGAGCTTTAGCGACATTGGTG
1 AAAGCGCCGCAAAAGAGTTAAGTCAAACGACGCCGTTTTTTTGTTGAGCTTTAGCGACATTGGTG
*
8760745 GCGCTTTTCTAGAAACGC-CAAAATATTCAAGAATTAGCGGCGCTTTATCA-
66 GCGCTTTTCTAGAAACGCGCAAAAGA--CAAGAATTAGCGGCGC--TATCAC
*
8760795 AAAGCGCCGCAAAAGTGTTAAG-CAAACGA
1 AAAGCGCCGCAAAAGAGTTAAGTCAAACGA
8760824 TGTCATTTTA
Statistics
Matches: 222, Mismatches: 30, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
112 6 0.03
113 21 0.09
114 170 0.77
115 20 0.09
116 5 0.02
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (113 bp):
AAAGCGCCGCAAAAGAGTTAAGTCAAACGACGCCGTTTTTTTGTTGAGCTTTAGCGACATTGGTG
GCGCTTTTCTAGAAACGCGCAAAAGACAAGAATTAGCGGCGCTATCAC
Found at i:8760853 original size:24 final size:24
Alignment explanation
Indices: 8760812--8760864 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
8760802 CGCAAAAGTG
8760812 TTAAGCAAACGATGTCATTTTATT-
1 TTAAGCAAACGATGTCATTTT-TTC
*
8760836 TTAAGCAAACG-TCTTCATTTTTTC
1 TTAAGCAAACGAT-GTCATTTTTTC
8760860 TTAAG
1 TTAAG
8760865 ATTTAGAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (24 bp):
TTAAGCAAACGATGTCATTTTTTC
Found at i:8761082 original size:113 final size:109
Alignment explanation
Indices: 8760851--8761127 Score: 288
Period size: 114 Copynumber: 2.5 Consensus size: 109
8760841 CAAACGTCTT
* * * * *
8760851 CATTTTTTCTTAAGATTTAGAGACATTAGTGGCGATTCTAT-AAAAAGGCCGCAAAGTCAAACAA
1 CATTTTTT-TT-AGCTTTAGAGACAATAGTGGCG-CTCTTTGAAAAACGCCGCAAAGTCAAACAA
* * * * *
8760915 TAGTGGTGCTTTCTCAAAAGCGCCGTAAAAATGTTAAGCAAACGAGG
63 TAGCGGCGATTTCACAAAAGCGCCGCAAAAATGTTAAGCAAACGAGG
* *
8760962 TCATTTTTTATTGAGCTTTTAGAGACAATAGTGGCGCTCTTTGAAAAACACCGCAGAAGTCAAGC
1 -CATTTTTT-TT-AGC-TTTAGAGACAATAGTGGCGCTCTTTGAAAAACGCCGCA-AAGTCAAAC
* * * *
8761027 ATTAGCGGCGATTTCACAAAAGCGCCGCAAAAGTTTTAAGCAAACGATG
61 AATAGCGGCGATTTCACAAAAGCGCCGCAAAAATGTTAAGCAAACGAGG
* * * *
8761076 -TTTTTTTTTAGCTTTAGAGACACTGGTGGCGCTTTTTGAAAAACGCCGCAAA
1 CATTTTTTTTAGCTTTAGAGACAATAGTGGCGCTCTTTGAAAAACGCCGCAAA
8761128 AGTTTAAGCA
Statistics
Matches: 139, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
108 2 0.01
109 34 0.24
110 3 0.02
111 2 0.01
112 22 0.16
113 28 0.20
114 48 0.35
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (109 bp):
CATTTTTTTTAGCTTTAGAGACAATAGTGGCGCTCTTTGAAAAACGCCGCAAAGTCAAACAATAG
CGGCGATTTCACAAAAGCGCCGCAAAAATGTTAAGCAAACGAGG
Found at i:8761168 original size:72 final size:69
Alignment explanation
Indices: 8761044--8761198 Score: 222
Period size: 72 Copynumber: 2.2 Consensus size: 69
8761034 GCGATTTCAC
*
8761044 AAAAGCGCCGCAAAAGTTTTAAGCAAACGATGTTTTTTTTTAGCTTTAGAGACACTGGTGGCGCT
1 AAAAACGCCGCAAAAGTTTTAAGCAAACGATGTTTTTTTTTAGCTTTAGAGACACTGGTGGCG-T
8761109 TTTTG
65 TTTTG
*
8761114 AAAAACGCCGCAAAAG-TTTAAGCAAACGATGTTGTTTTTCTTTAGCTTTAGAGACATTGGTGGC
1 AAAAACGCCGCAAAAGTTTTAAGCAAACGATG-T-TTTTT-TTTAGCTTTAGAGACACTGGTGGC
*
8761178 GTTTTTT
63 GTTTTTG
*
8761185 AAAAAGTGCCGCAA
1 AAAAA-CGCCGCAA
8761199 TAGTCAAGCA
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
69 15 0.19
70 16 0.21
71 15 0.19
72 31 0.40
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (69 bp):
AAAAACGCCGCAAAAGTTTTAAGCAAACGATGTTTTTTTTTAGCTTTAGAGACACTGGTGGCGTT
TTTG
Found at i:8761224 original size:72 final size:70
Alignment explanation
Indices: 8761044--8761225 Score: 190
Period size: 72 Copynumber: 2.6 Consensus size: 70
8761034 GCGATTTCAC
* * *
8761044 AAAAGCGCCGCAAAAGTTTTAAGCAAACGATG-TTTTTTTTTAGCTTTAGAGACACTGGTGGCGC
1 AAAAACGCCGCAAAAG-TTCAAGCAAACGACGCTTTTTTTTTAGCTTTAGAGACACTGGTGGCGC
8761108 TTTTTG
65 TTTTTG
* * * *
8761114 AAAAACGCCGCAAAAGTTTAAGCAAACGATGTTGTTTTTCTTTAGCTTTAGAGACATTGGTGGCG
1 AAAAACGCCGCAAAAGTTCAAGCAAACGACGCT-TTTTT-TTTAGCTTTAGAGACACTGGTGGCG
*
8761179 -TTTTTT
64 CTTTTTG
* * *
8761185 AAAAAGTGCCGCAATAG-TCAAGCATTAGCGACGCTTTTTTT
1 AAAAA-CGCCGCAAAAGTTCAAGCA--AACGACGCTTTTTTT
8761226 AAAATGCCGC
Statistics
Matches: 97, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
69 15 0.15
70 16 0.16
71 22 0.23
72 38 0.39
73 6 0.06
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (70 bp):
AAAAACGCCGCAAAAGTTCAAGCAAACGACGCTTTTTTTTTAGCTTTAGAGACACTGGTGGCGCT
TTTTG
Found at i:8761350 original size:28 final size:28
Alignment explanation
Indices: 8761305--8761364 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
8761295 GGATTATGGA
* ** *
8761305 TTTAAGGGTTATGGTTTATTGTTTATTG
1 TTTAAGGGTTAGGGTTTAGAGTTTATAG
8761333 TTTAAGGGTT-GGGTTTTAGAGTTTATAG
1 TTTAAGGGTTAGGG-TTTAGAGTTTATAG
8761361 TTTA
1 TTTA
8761365 TAAATATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (28 bp):
TTTAAGGGTTAGGGTTTAGAGTTTATAG
Found at i:8761400 original size:43 final size:39
Alignment explanation
Indices: 8761347--8761432 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 39
8761337 AGGGTTGGGT
8761347 TTTAGAGTTTATAGTTTATAAATATATATTCTATGATTTAGGG
1 TTTAGAGTTTATAG-TT-T--ATATATATTCTATGATTTAGGG
* *
8761390 TTTAGGGTTTATAGTTTATATATGTTCTATGATTTAGGG
1 TTTAGAGTTTATAGTTTATATATATTCTATGATTTAGGG
8761429 TTTA
1 TTTA
8761433 AGGGATATAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 25 0.61
41 1 0.02
42 2 0.05
43 13 0.32
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (39 bp):
TTTAGAGTTTATAGTTTATATATATTCTATGATTTAGGG
Found at i:8761407 original size:21 final size:21
Alignment explanation
Indices: 8761383--8761530 Score: 69
Period size: 21 Copynumber: 7.1 Consensus size: 21
8761373 TATTCTATGA
8761383 TTTAGGGTTTAGGGTTTATAG
1 TTTAGGGTTTAGGGTTTATAG
* *
8761404 TTTA---TATA-TGTTCTAT-G
1 TTTAGGGTTTAGGGTT-TATAG
*
8761421 ATTTAGGGTTTAAGGG-ATATAG
1 -TTTAGGGTTT-AGGGTTTATAG
* * *
8761443 GTTAGGGGTTTAGGGATTATGG
1 TTTA-GGGTTTAGGGTTTATAG
**
8761465 TTTAAGGG-TTAGGGTTTAGGG
1 TTT-AGGGTTTAGGGTTTATAG
* *
8761486 TTTAGGGGTTAGGGGTTA-AGG
1 TTTAGGGTTTAGGGTTTATA-G
* *
8761507 GTTAGGGGTTTAAGGTTTATAG
1 TTTA-GGGTTTAGGGTTTATAG
8761529 TT
1 TT
8761531 AATGTTTTAT
Statistics
Matches: 94, Mismatches: 18, Indels: 29
0.67 0.13 0.21
Matches are distributed among these distances:
17 4 0.04
18 10 0.11
20 4 0.04
21 43 0.46
22 30 0.32
23 3 0.03
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.42
Consensus pattern (21 bp):
TTTAGGGTTTAGGGTTTATAG
Found at i:8761432 original size:7 final size:7
Alignment explanation
Indices: 8761422--8761525 Score: 72
Period size: 7 Copynumber: 14.6 Consensus size: 7
8761412 TGTTCTATGA
8761422 TTTAGGG
1 TTTAGGG
8761429 TTTAAGGG
1 TTT-AGGG
*
8761437 ATATA-GG
1 -TTTAGGG
8761444 -TTAGGGG
1 TTTA-GGG
8761451 TTTAGGG
1 TTTAGGG
* *
8761458 ATTATGG
1 TTTAGGG
8761465 TTTAAGGG
1 TTT-AGGG
8761473 -TTAGGG
1 TTTAGGG
8761479 TTTAGGG
1 TTTAGGG
8761486 TTTAGGG
1 TTTAGGG
*
8761493 GTTAGGGG
1 TTTA-GGG
*
8761501 TTAAGGG
1 TTTAGGG
8761508 -TTAGGGG
1 TTTA-GGG
*
8761515 TTTAAGG
1 TTTAGGG
8761522 TTTA
1 TTTA
8761526 TAGTTAATGT
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
5 2 0.03
6 6 0.08
7 47 0.62
8 19 0.25
9 2 0.03
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (7 bp):
TTTAGGG
Found at i:8761442 original size:39 final size:39
Alignment explanation
Indices: 8761368--8761442 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
8761358 TAGTTTATAA
*
8761368 ATATATATTCTATGATTTAGGGTTTAGGGTTTATAGTTT
1 ATATATATTCTATGATTTAGGGTTTAGGGTATATAGTTT
*
8761407 ATATATGTTCTATGATTTAGGGTTTAAGGG-ATATAG
1 ATATATATTCTATGATTTAGGGTTT-AGGGTATATAG
8761443 GTTAGGGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 29 0.88
40 4 0.12
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.47
Consensus pattern (39 bp):
ATATATATTCTATGATTTAGGGTTTAGGGTATATAGTTT
Found at i:8761712 original size:7 final size:7
Alignment explanation
Indices: 8761700--8761771 Score: 72
Period size: 7 Copynumber: 10.0 Consensus size: 7
8761690 TCATAGTTAA
8761700 TTTAGGG
1 TTTAGGG
8761707 TTTAGGG
1 TTTAGGG
*
8761714 TTTAAGG
1 TTTAGGG
*
8761721 TTTAGAG
1 TTTAGGG
*
8761728 TTTAAGG
1 TTTAGGG
*
8761735 TTTAGGAT
1 TTTAGG-G
8761743 TTTATGGG
1 TTTA-GGG
*
8761751 TTTAGAG
1 TTTAGGG
*
8761758 TTTAAGG
1 TTTAGGG
8761765 TTTAGGG
1 TTTAGGG
8761772 CCTATGATCT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
7 41 0.80
8 8 0.16
9 2 0.04
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:8761722 original size:14 final size:14
Alignment explanation
Indices: 8761700--8761771 Score: 81
Period size: 14 Copynumber: 5.0 Consensus size: 14
8761690 TCATAGTTAA
*
8761700 TTTAGGGTTTAGGG
1 TTTAAGGTTTAGGG
*
8761714 TTTAAGGTTTAGAG
1 TTTAAGGTTTAGGG
*
8761728 TTTAAGGTTTAGGAT
1 TTTAAGGTTTAGG-G
* *
8761743 TTTATGGGTTTAGAG
1 TTTA-AGGTTTAGGG
8761758 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGGG
8761772 CCTATGATCT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
14 32 0.68
15 8 0.17
16 7 0.15
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:8762127 original size:39 final size:39
Alignment explanation
Indices: 8762071--8762148 Score: 122
Period size: 41 Copynumber: 2.0 Consensus size: 39
8762061 ATCATTATTC
8762071 AATTTTAAAATTGAACAATT-AAATAATGTCATATTAAA
1 AATTTTAAAATTGAACAATTAAAATAATGTCATATTAAA
*
8762109 AATTTTAAAAATTTAACAATTAAAAATAATGTCATATTAA
1 AATTTT-AAAATTGAACAATT-AAAATAATGTCATATTAA
8762149 TGCATCAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 6 0.17
39 13 0.36
41 17 0.47
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (39 bp):
AATTTTAAAATTGAACAATTAAAATAATGTCATATTAAA
Found at i:8763425 original size:16 final size:16
Alignment explanation
Indices: 8763404--8763455 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
8763394 TTTGGTTCGC
*
8763404 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
* *
8763420 TGTATTGGATTAAAGT
1 TGTATTGGATTAGAGG
8763436 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8763452 TGTA
1 TGTA
8763456 ATAGCAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:8763712 original size:18 final size:17
Alignment explanation
Indices: 8763691--8763725 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8763681 TTATTATTAA
*
8763691 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8763709 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8763726 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8763862 original size:156 final size:157
Alignment explanation
Indices: 8763578--8763893 Score: 571
Period size: 156 Copynumber: 2.0 Consensus size: 157
8763568 TAGAATACTC
*
8763578 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * **
8763643 TTATCAGTAATAAATTTTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
8763708 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
8763734 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
8763799 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
8763864 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
8763891 TTA
1 TTA
8763894 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
156 146 0.95
157 7 0.05
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:8763868 original size:18 final size:17
Alignment explanation
Indices: 8763847--8763881 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8763837 TTATTATTAA
*
8763847 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8763865 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8763882 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8763964 original size:120 final size:120
Alignment explanation
Indices: 8763830--8764189 Score: 668
Period size: 120 Copynumber: 3.0 Consensus size: 120
8763820 ATCATATTTA
8763830 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
8763895 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
8763950 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
8764015 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
8764070 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
8764135 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGT-AAATGATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAAT-ATAAATT
8764190 TTAATAAAAG
Statistics
Matches: 234, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
119 4 0.02
120 230 0.98
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:8764115 original size:14 final size:15
Alignment explanation
Indices: 8764066--8764117 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
8764056 GTAAAATATA
8764066 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
8764081 TATTAAATATATTAT
1 AATTAAATATATTAT
8764096 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
8764109 AATTTAATA
1 AATTAAATA
8764118 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:8764194 original size:59 final size:58
Alignment explanation
Indices: 8763891--8764195 Score: 156
Period size: 59 Copynumber: 5.1 Consensus size: 58
8763881 TTCTTAATAA
*
8763891 TTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAA-T
1 TTAATATTCTTATATAAATTTACTGAAATCATAATATATGATACTGT-AAATATAAATT
* * * * ** * * * * * * *
8763949 TAACATAATTATTAT-TAAATATATTTTAATTAAAATATATAATTTAATG-AAATTCTTAATAA
1 TTA-AT-ATTCTTATATAAATTTACTGAAATCATAATATATGA--TACTGTAAA-TATAAAT-T
*
8764011 TTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAA-T
1 TTAATATTCTTATATAAATTTACTGAAATCATAATATATGATACTGT-AAATATAAATT
* * * * * * * * * * * *
8764069 TAACATAATTATTAT-TAAATATA-TTATAATTAAAATATATAATTTAAT-AAAATTCTTAATAA
1 TTA-AT-ATTCTTATATAAATTTACTGA-AATCATAATATATGA--TACTGTAAA-TATAAAT-T
* *
8764131 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGATAAATT
1 TTAATATTCTTATATAAATTTACTGAAATCATAATATATGATACTGTAAAT-ATAAATT
8764190 TTAATA
1 TTAATA
8764196 AAAGTAATAT
Statistics
Matches: 171, Mismatches: 54, Indels: 43
0.64 0.20 0.16
Matches are distributed among these distances:
58 6 0.04
59 61 0.36
60 47 0.27
61 51 0.30
62 6 0.04
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (58 bp):
TTAATATTCTTATATAAATTTACTGAAATCATAATATATGATACTGTAAATATAAATT
Found at i:8767419 original size:5 final size:5
Alignment explanation
Indices: 8767409--8767434 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8767399 AAAGAGAGTT
8767409 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
8767435 AAGAGAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:8768685 original size:21 final size:21
Alignment explanation
Indices: 8768655--8768698 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8768645 TGGTTTGCTA
*
8768655 CATTCGTGCAAAAAACACAAT
1 CATTCATGCAAAAAACACAAT
*
8768676 CATTCATGCAAAAAACGCAAT
1 CATTCATGCAAAAAACACAAT
8768697 CA
1 CA
8768699 ATTTGGGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.25, G:0.09, T:0.18
Consensus pattern (21 bp):
CATTCATGCAAAAAACACAAT
Found at i:8769936 original size:42 final size:42
Alignment explanation
Indices: 8769889--8770022 Score: 133
Period size: 42 Copynumber: 3.2 Consensus size: 42
8769879 CAAAATTAGT
* * * * *
8769889 GGCGTTTTTAAAAAAACGCCGCTAAAGGTCATGTTCTTTAGC
1 GGCGTTTATAAAAAAACGACGCTAAAAGTCATGATCTATAGC
* *
8769931 TGCGTTTATAAAAAAAGGACGCTAAAAGTCATGATCTATAGC
1 GGCGTTTATAAAAAAACGACGCTAAAAGTCATGATCTATAGC
* *** * * *
8769973 GGCGTTTGTGGGGAAAGCGCCGCTAAATGTCATGATCTATAGC
1 GGCGTTTAT-AAAAAAACGACGCTAAAAGTCATGATCTATAGC
8770016 GGCGTTT
1 GGCGTTT
8770023 GTGGGGAAAG
Statistics
Matches: 75, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 42 0.56
43 33 0.44
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (42 bp):
GGCGTTTATAAAAAAACGACGCTAAAAGTCATGATCTATAGC
Found at i:8770005 original size:43 final size:43
Alignment explanation
Indices: 8769950--8770034 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
8769940 AAAAAAAGGA
8769950 CGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGGAAAGCGC
1 CGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGGAAAGCGC
*
8769993 CGCTAAATGTCATGATCTATAGCGGCGTTTGTGGGGAAAGCG
1 CGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGGAAAGCG
8770035 GCGTTTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.25
Consensus pattern (43 bp):
CGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGGAAAGCGC
Found at i:8771423 original size:12 final size:12
Alignment explanation
Indices: 8771406--8771430 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8771396 CGAAAAAATT
8771406 CGGTTAACCGAC
1 CGGTTAACCGAC
8771418 CGGTTAACCGAC
1 CGGTTAACCGAC
8771430 C
1 C
8771431 CAAACTTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:8771657 original size:9 final size:9
Alignment explanation
Indices: 8771643--8771688 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
8771633 TTTTGGAAGG
*
8771643 TCGGTTAAT
1 TCGGGTAAT
*
8771652 TCGGTTAAT
1 TCGGGTAAT
8771661 TCGGGTAAT
1 TCGGGTAAT
8771670 TCGGGTAAT
1 TCGGGTAAT
8771679 TCGGGTAAT
1 TCGGGTAAT
8771688 T
1 T
8771689 TTTAAACAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (9 bp):
TCGGGTAAT
Found at i:8771865 original size:12 final size:12
Alignment explanation
Indices: 8771848--8771872 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8771838 AGTAATTTTG
8771848 GGTCGGTTAACC
1 GGTCGGTTAACC
8771860 GGTCGGTTAACC
1 GGTCGGTTAACC
8771872 G
1 G
8771873 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:8772149 original size:20 final size:20
Alignment explanation
Indices: 8772126--8772170 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
8772116 TTTTTTGAAA
*
8772126 ATTTTAAAATTTTTAT-TAAT
1 ATTTT-AAATTTTTATATAAG
*
8772146 ATTTTCAATTTTTATATAAG
1 ATTTTAAATTTTTATATAAG
8772166 ATTTT
1 ATTTT
8772171 GATTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTTAAATTTTTATATAAG
Found at i:8772155 original size:19 final size:20
Alignment explanation
Indices: 8772133--8772170 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
8772123 AAAATTTTAA
*
8772133 AATTTTTAT-TAATATTTTC
1 AATTTTTATATAAGATTTTC
8772152 AATTTTTATATAAGATTTT
1 AATTTTTATATAAGATTTT
8772171 GATTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
AATTTTTATATAAGATTTTC
Found at i:8772360 original size:20 final size:21
Alignment explanation
Indices: 8772321--8772360 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8772311 GCGCCACATG
8772321 GATGGTCAACATCCAGTCAAT
1 GATGGTCAACATCCAGTCAAT
*
8772342 GATGGTCAAC-TCTAGTCAA
1 GATGGTCAACATCCAGTCAA
8772361 CATCCTGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
GATGGTCAACATCCAGTCAAT
Found at i:8778171 original size:9 final size:9
Alignment explanation
Indices: 8778157--8778262 Score: 51
Period size: 9 Copynumber: 11.8 Consensus size: 9
8778147 TAAGTATAAT
8778157 TAAGTTATG
1 TAAGTTATG
8778166 TAAGTTATG
1 TAAGTTATG
* * *
8778175 ATATGATATA
1 -TAAGTTATG
8778185 T-A-TCTATG
1 TAAGT-TATG
8778193 T-A-TTATG
1 TAAGTTATG
8778200 TAAGTTATG
1 TAAGTTATG
*
8778209 TGAGTTATG
1 TAAGTTATG
* *
8778218 TGAGTTTTG
1 TAAGTTATG
*
8778227 AAAGTTATG
1 TAAGTTATG
* *
8778236 ATATGATATATA
1 -TAAG-T-TATG
8778248 TAAGTTAT-
1 TAAGTTATG
8778256 TAAGTTA
1 TAAGTTA
8778263 AGATCCAAAG
Statistics
Matches: 75, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
7 5 0.07
8 14 0.19
9 40 0.53
10 9 0.12
11 4 0.05
12 3 0.04
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:8778308 original size:9 final size:9
Alignment explanation
Indices: 8778289--8778371 Score: 51
Period size: 9 Copynumber: 9.1 Consensus size: 9
8778279 TTTAATTCTT
8778289 TAAAGTTATG
1 TAAA-TTATG
8778299 TAAATTATG
1 TAAATTATG
*
8778308 TAAGTTATG
1 TAAATTATG
* *
8778317 TAAGTTTTG
1 TAAATTATG
* * *
8778326 -ATATGATA
1 TAAATTATG
*
8778334 TATATTTATG
1 TA-AATTATG
*
8778344 TAAATTATA
1 TAAATTATG
*
8778353 TAAGTTATG
1 TAAATTATG
*
8778362 TATATTATG
1 TAAATTATG
8778371 T
1 T
8778372 GGAAATTAGT
Statistics
Matches: 54, Mismatches: 17, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
8 3 0.06
9 42 0.78
10 9 0.17
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.48
Consensus pattern (9 bp):
TAAATTATG
Found at i:8778314 original size:18 final size:18
Alignment explanation
Indices: 8778289--8778371 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
8778279 TTTAATTCTT
*
8778289 TAAAGTTATGTAAATTATG
1 TAAA-TTATGTAAGTTATG
* *
8778308 TAAGTTATGTAAGTTTTG
1 TAAATTATGTAAGTTATG
* * * *
8778326 -ATATGATATATATTTATG
1 TAAATTATGTA-AGTTATG
*
8778344 TAAATTATATAAGTTATG
1 TAAATTATGTAAGTTATG
*
8778362 TATATTATGT
1 TAAATTATGT
8778372 GGAAATTAGT
Statistics
Matches: 48, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
17 6 0.12
18 31 0.65
19 11 0.23
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.48
Consensus pattern (18 bp):
TAAATTATGTAAGTTATG
Found at i:8778475 original size:7 final size:7
Alignment explanation
Indices: 8778463--8778493 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
8778453 TATAATTATT
8778463 TTTAAAA
1 TTTAAAA
8778470 TTTAAAA
1 TTTAAAA
8778477 TTTAAAA
1 TTTAAAA
8778484 TTTAATAA
1 TTTAA-AA
8778492 TT
1 TT
8778494 GTAATTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAAAA
Found at i:8779303 original size:16 final size:16
Alignment explanation
Indices: 8779282--8779313 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8779272 GTGAATAGAA
8779282 GAAGCGGGCGACAGAG
1 GAAGCGGGCGACAGAG
*
8779298 GAAGCGGGTGACAGAG
1 GAAGCGGGCGACAGAG
8779314 CGACCGCCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.16, G:0.50, T:0.03
Consensus pattern (16 bp):
GAAGCGGGCGACAGAG
Found at i:8779661 original size:41 final size:42
Alignment explanation
Indices: 8779616--8779694 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
8779606 TACATATTTG
* *
8779616 TGGCGTTTTGA-CTAAAAACGCCACTATTGTTCAACTTTTCA
1 TGGCGTTTTGAGCAAAAAACGCCACTATTGCTCAACTTTTCA
*
8779657 TGGCGTTTTGAGCAAAAAACGCTACTATTGCTCAACTT
1 TGGCGTTTTGAGCAAAAAACGCCACTATTGCTCAACTT
8779695 AATTAACCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 11 0.32
42 23 0.68
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (42 bp):
TGGCGTTTTGAGCAAAAAACGCCACTATTGCTCAACTTTTCA
Found at i:8779850 original size:7 final size:7
Alignment explanation
Indices: 8779832--8779997 Score: 77
Period size: 7 Copynumber: 23.7 Consensus size: 7
8779822 ATGTTTTTAG
8779832 CTAAACC
1 CTAAACC
* *
8779839 ATAAACA
1 CTAAACC
8779846 CTAAACC
1 CTAAACC
*
8779853 CTAAA-A
1 CTAAACC
8779859 CTAAACC
1 CTAAACC
*
8779866 ATAAACC
1 CTAAACC
8779873 CTAAACC
1 CTAAACC
*
8779880 CTAAGCC
1 CTAAACC
* *
8779887 TTTAAATC
1 -CTAAACC
*
8779895 CTAAAAC
1 CTAAACC
* * *
8779902 ATAGACT
1 CTAAACC
*
8779909 TTAAACC
1 CTAAACC
*
8779916 TTAAACC
1 CTAAACC
* *
8779923 CTAAGCT
1 CTAAACC
8779930 C-ATAACC
1 CTA-AACC
8779937 CTTAAACC
1 C-TAAACC
*
8779945 CTAAACT
1 CTAAACC
* *
8779952 ATAAACA
1 CTAAACC
*
8779959 CTAAACA
1 CTAAACC
*
8779966 CTAAATC
1 CTAAACC
*
8779973 GTAAACC
1 CTAAACC
*
8779980 ATAAA-C
1 CTAAACC
*
8779986 CTATACC
1 CTAAACC
8779993 CTAAA
1 CTAAA
8779998 AAATAAACAC
Statistics
Matches: 115, Mismatches: 38, Indels: 12
0.70 0.23 0.07
Matches are distributed among these distances:
6 10 0.09
7 95 0.83
8 9 0.08
9 1 0.01
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:8779862 original size:27 final size:27
Alignment explanation
Indices: 8779832--8779883 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
8779822 ATGTTTTTAG
8779832 CTAAACCATAAACACTAAACCCTAAAA
1 CTAAACCATAAACACTAAACCCTAAAA
*
8779859 CTAAACCATAAACCCTAAACCCTAA
1 CTAAACCATAAACACTAAACCCTAA
8779884 GCCTTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (27 bp):
CTAAACCATAAACACTAAACCCTAAAA
Found at i:8780262 original size:7 final size:7
Alignment explanation
Indices: 8780252--8780291 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
8780242 TAATAAATCT
8780252 TAAACCC
1 TAAACCC
8780259 TAAACCC
1 TAAACCC
*
8780266 TAAACTC
1 TAAACCC
8780273 TAAACCC
1 TAAACCC
8780280 TAAACCC
1 TAAACCC
8780287 TAAAC
1 TAAAC
8780292 TCAAAACTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:8780269 original size:21 final size:21
Alignment explanation
Indices: 8780252--8780303 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
8780242 TAATAAATCT
8780252 TAAACCCTAAACCCTAAACTC
1 TAAACCCTAAACCCTAAACTC
8780273 TAAACCCTAAACCCTAAACTC
1 TAAACCCTAAACCCTAAACTC
* *
8780294 AAAACTCTAA
1 TAAACCCTAA
8780304 TCCCAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAACCCTAAACCCTAAACTC
Found at i:8780753 original size:40 final size:40
Alignment explanation
Indices: 8780709--8780794 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
8780699 AATGGTTGAC
*
8780709 CTATAGCGGCT-TTTTT-CAAGAAGCGCCGCTAATGCTCTAT
1 CTATAGCGG-TGTTTTTCCAA-AAGCGCCGCTAATGCTCGAT
* * *
8780749 CTATAACGGTGTTTTTCCAAAAGCGTCGTTAATGCTCGAT
1 CTATAGCGGTGTTTTTCCAAAAGCGCCGCTAATGCTCGAT
8780789 CTATAG
1 CTATAG
8780795 TGGCATTTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
39 1 0.03
40 35 0.90
41 3 0.08
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (40 bp):
CTATAGCGGTGTTTTTCCAAAAGCGCCGCTAATGCTCGAT
Found at i:8781529 original size:22 final size:22
Alignment explanation
Indices: 8781467--8781532 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
8781457 ATGGAATGAT
*
8781467 AATTTAAGTACCAATCTAAAAA
1 AATTTAAGTACCAATATAAAAA
* ** *
8781489 AATTGAA-TATTAATTTAAAAA
1 AATTTAAGTACCAATATAAAAA
*
8781510 AATTTAAGTACCAAAATAAAAA
1 AATTTAAGTACCAATATAAAAA
8781532 A
1 A
8781533 TCATACATAT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.29
Consensus pattern (22 bp):
AATTTAAGTACCAATATAAAAA
Found at i:8785035 original size:14 final size:15
Alignment explanation
Indices: 8785016--8785050 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
8785006 ACACTTGTAT
*
8785016 GGATTTAGGGTTT-G
1 GGATTTAAGGTTTAG
8785030 GGATTTAAGGTTTAG
1 GGATTTAAGGTTTAG
8785045 GGATTT
1 GGATTT
8785051 TGGGGTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GGATTTAAGGTTTAG
Found at i:8788096 original size:36 final size:36
Alignment explanation
Indices: 8788053--8788459 Score: 367
Period size: 36 Copynumber: 11.6 Consensus size: 36
8788043 TAAGTATCAC
*
8788053 AAATTAAATAACTTACATTAA-TTACATAACTTACAA
1 AAATTAAATAACTTACA-TAACTTACATAACTTACAT
* *
8788089 AAATTAAATAACTTACATAACTTATATAAATTA-AGT
1 AAATTAAATAACTTACATAACTTACATAACTTACA-T
* * * * * *
8788125 AACTTACATAACTTACATAAATTAAATATCTTACGT
1 AAATTAAATAACTTACATAACTTACATAACTTACAT
* * * * * *
8788161 AACTTACATAAATTA-AGTAAATTAAATAACTTGCAT
1 AAATTAAATAACTTACA-TAACTTACATAACTTACAT
* * *
8788197 AAATTAAGTAAATTAAATAACTTACATAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAACTTACAT
* *
8788233 AAATTAAATATCTTACATAACTTACATAAATTA-AGT
1 AAATTAAATAACTTACATAACTTACATAACTTACA-T
8788269 AAATTAAATAACTTACAT-A---A-AT--C--A-AGT
1 AAATTAAATAACTTACATAACTTACATAACTTACA-T
* *
8788296 AAATTAAATATCTTACATAACTTACATAAATTA-AGT
1 AAATTAAATAACTTACATAACTTACATAACTTACA-T
8788332 AAATTAAATAACTTACATAACTTACATAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAACTTACAT
* * *
8788368 AAATTAAGTAAATTAAATAACTTACATAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAACTTACAT
* * *
8788404 AAATTAAATATCTTACATAACTTACATAAATTAAAT
1 AAATTAAATAACTTACATAACTTACATAACTTACAT
* * * *
8788440 AACTTACACAACTCACATAA
1 AAATTAAATAACTTACATAA
8788460 TGATGTAGTA
Statistics
Matches: 310, Mismatches: 45, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
27 21 0.07
28 1 0.00
31 3 0.01
32 3 0.01
35 7 0.02
36 273 0.88
37 2 0.01
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (36 bp):
AAATTAAATAACTTACATAACTTACATAACTTACAT
Found at i:8788112 original size:27 final size:27
Alignment explanation
Indices: 8788074--8788459 Score: 398
Period size: 27 Copynumber: 13.6 Consensus size: 27
8788064 CTTACATTAA
*
8788074 TTACATAACTTACAAAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
* *
8788101 TTACATAACTTATATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
*
8788128 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
*
8788155 TTACGTAACTTACATAAATTAAGTAAATTAAATAAC
1 TTACATAACTTAC--------A-TAAATTAAATAAC
* *
8788191 TTGCATAAATTA-AGTAAATTAAATAAC
1 TTACATAACTTACA-TAAATTAAATAAC
*
8788218 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
* *
8788245 TTACATAACTTACATAAATTAAGTAAA
1 TTACATAACTTACATAAATTAAATAAC
*
8788272 TTAAATAACTTACATAAATCAAGTAAATTAAATATC
1 TTACATAACTTACATAAAT----TAAA-T--A-A-C
* *
8788308 TTACATAACTTACATAAATTAAGTAAA
1 TTACATAACTTACATAAATTAAATAAC
* * *
8788335 TTAAATAACTTACATAACTTACATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
8788362 TTACATAAATTA-AGTAAATTAAATAAC
1 TTACATAACTTACA-TAAATTAAATAAC
*
8788389 TTACATAACTTACATAAATTAAATATC
1 TTACATAACTTACATAAATTAAATAAC
8788416 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
* *
8788443 TTACACAACTCACATAA
1 TTACATAACTTACATAA
8788460 TGATGTAGTA
Statistics
Matches: 301, Mismatches: 37, Indels: 42
0.79 0.10 0.11
Matches are distributed among these distances:
26 1 0.00
27 246 0.82
28 3 0.01
29 1 0.00
31 4 0.01
32 4 0.01
34 1 0.00
35 2 0.01
36 39 0.13
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (27 bp):
TTACATAACTTACATAAATTAAATAAC
Found at i:8788120 original size:63 final size:63
Alignment explanation
Indices: 8788053--8788459 Score: 426
Period size: 63 Copynumber: 6.5 Consensus size: 63
8788043 TAAGTATCAC
* * *
8788053 AAATTAAATAACTTACATTAA-TTACATAACTTACA-AAAATTAAATAACTTACATAACTTATAT
1 AAATTAAATAACTTACA-TAACTTACATAAATTA-AGTAAATTAAATAACTTACATAACTTACAT
* *
8788116 AAATTAAGTAACTTACATAACTTACATAAA-T---TAAA-T--AT--CTTACGTAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACAT
* * * *
8788170 AAATTAAGTAAATTAAATAACTTGCATAAATTAAGTAAATTAAATAACTTACATAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACAT
* * *
8788233 AAATTAAATATCTTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAAATCA-AGT
1 AAATTAAATAACTTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACA-T
*
8788296 AAATTAAATATCTTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACATAA
1 AAATTAAATAACTTACATAACTTACATAAATTAAGTAAA-T---T-A---A-ATAACTTACATAA
8788361 CTTACAT
57 CTTACAT
* * * * *
8788368 AAATTAAGTAAATTAAATAACTTACATAACTTACA-TAAATTAAATATCTTACATAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAAATTA-AGTAAATTAAATAACTTACATAACTTACAT
* *
8788431 AAATTAAATAACTTACACAACTCACATAA
1 AAATTAAATAACTTACATAACTTACATAA
8788460 TGATGTAGTA
Statistics
Matches: 293, Mismatches: 29, Indels: 44
0.80 0.08 0.12
Matches are distributed among these distances:
54 41 0.14
55 1 0.00
56 2 0.01
58 5 0.02
59 4 0.01
61 2 0.01
62 5 0.02
63 175 0.60
64 2 0.01
67 2 0.01
68 2 0.01
71 2 0.01
72 48 0.16
73 2 0.01
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (63 bp):
AAATTAAATAACTTACATAACTTACATAAATTAAGTAAATTAAATAACTTACATAACTTACAT
Found at i:8788459 original size:18 final size:18
Alignment explanation
Indices: 8788060--8788459 Score: 312
Period size: 18 Copynumber: 22.2 Consensus size: 18
8788050 CACAAATTAA
8788060 ATAACTTACATTAA-TTAC
1 ATAACTTACA-TAACTTAC
* * *
8788078 ATAACTTACAAAAATTAA
1 ATAACTTACATAACTTAC
*
8788096 ATAACTTACATAACTTAT
1 ATAACTTACATAACTTAC
*
8788114 ATAAATTA-AGTAACTTAC
1 ATAACTTACA-TAACTTAC
* *
8788132 ATAACTTACATAAATTAA
1 ATAACTTACATAACTTAC
* *
8788150 ATATCTTACGTAACTTAC
1 ATAACTTACATAACTTAC
* * *
8788168 ATAAATTA-AGTAAATTAA
1 ATAACTTACA-TAACTTAC
* *
8788186 ATAACTTGCATAAATTA-
1 ATAACTTACATAACTTAC
* *
8788203 AGTAAATTAAATAACTTAC
1 A-TAACTTACATAACTTAC
* *
8788222 ATAACTTACATAAATTAA
1 ATAACTTACATAACTTAC
*
8788240 ATATCTTACATAACTTAC
1 ATAACTTACATAACTTAC
* * *
8788258 ATAAATTA-AGTAAATTAA
1 ATAACTTACA-TAACTTAC
* *
8788276 ATAACTTACATAAATCA-
1 ATAACTTACATAACTTAC
* * *
8788293 AGTAAATTAAATATCTTAC
1 A-TAACTTACATAACTTAC
*
8788312 ATAACTTACATAAATTA-
1 ATAACTTACATAACTTAC
* *
8788329 AGTAAATTAAATAACTTAC
1 A-TAACTTACATAACTTAC
8788348 ATAACTTACATAACTTAC
1 ATAACTTACATAACTTAC
* * *
8788366 ATAAATTA-AGTAAATTAA
1 ATAACTTACA-TAACTTAC
8788384 ATAACTTACATAACTTAC
1 ATAACTTACATAACTTAC
* * *
8788402 ATAAATTAAATATCTTAC
1 ATAACTTACATAACTTAC
* *
8788420 ATAACTTACATAAATTAA
1 ATAACTTACATAACTTAC
* *
8788438 ATAACTTACACAACTCAC
1 ATAACTTACATAACTTAC
8788456 ATAA
1 ATAA
8788460 TGATGTAGTA
Statistics
Matches: 297, Mismatches: 70, Indels: 30
0.75 0.18 0.08
Matches are distributed among these distances:
17 8 0.03
18 282 0.95
19 7 0.02
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:8788537 original size:7 final size:7
Alignment explanation
Indices: 8788525--8788562 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
8788515 TACATGGGGC
8788525 ATACATA
1 ATACATA
8788532 ATACATA
1 ATACATA
8788539 ATACATA
1 ATACATA
8788546 ACTTACATA
1 A--TACATA
8788555 ATACATA
1 ATACATA
8788562 A
1 A
8788563 AAATATATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 22 0.76
9 7 0.24
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (7 bp):
ATACATA
Found at i:8788554 original size:16 final size:14
Alignment explanation
Indices: 8788525--8788562 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 14
8788515 TACATGGGGC
8788525 ATACATAATACATA
1 ATACATAATACATA
8788539 ATACATAACTTACATA
1 ATACATAA--TACATA
8788555 ATACATAA
1 ATACATAA
8788563 AAATATATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
16 14 0.64
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (14 bp):
ATACATAATACATA
Found at i:8794087 original size:21 final size:21
Alignment explanation
Indices: 8794061--8794156 Score: 93
Period size: 21 Copynumber: 4.4 Consensus size: 21
8794051 CAACAACTTA
* * *
8794061 AAGCAGATGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
**
8794082 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
8794103 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
** *
8794124 AAGCAGCGAGAGAAGCAGCGATAG
1 AAGCA--GAG-GCCGCAGCGAGAG
8794148 AAGCAGAGG
1 AAGCAGAGG
8794157 TTCAAAAGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
21 42 0.67
22 3 0.05
23 3 0.05
24 15 0.24
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:8794131 original size:12 final size:12
Alignment explanation
Indices: 8794094--8794153 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
8794084 GCAGAGGCTA
8794094 CAGCGAGAGAAG
1 CAGCGAGAGAAG
**
8794106 CA--GAG-GCCG
1 CAGCGAGAGAAG
8794115 CAGCGAGAGAAG
1 CAGCGAGAGAAG
8794127 CAGCGAGAGAAG
1 CAGCGAGAGAAG
*
8794139 CAGCGATAGAAG
1 CAGCGAGAGAAG
8794151 CAG
1 CAG
8794154 AGGTTCAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 4 0.10
10 3 0.08
11 3 0.08
12 30 0.75
ACGTcount: A:0.38, C:0.20, G:0.40, T:0.02
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:8794723 original size:42 final size:42
Alignment explanation
Indices: 8794577--8794761 Score: 153
Period size: 42 Copynumber: 4.3 Consensus size: 42
8794567 TTTGTGAAAC
**
8794577 AAGCGCCGCTAAAGAACACT-ACTTTTAGCGGCGTTTTTGAAC-
1 AAGCGCCGCTAAAGAACA-TGACTTTTAGCGGCGTTTTT-TCCT
* * ** * * *
8794619 AAGCGCCGCTATAGAACATTACTTTTAAAGGAGTTTTCTTTCA
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTT-TTCCT
*
8794662 AAGTGCCGCTAAAGAACATGATCTTTT-GCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGA-CTTTTAGCGGCGTTTTTTCCT
* * *
8794704 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGACATTTTTTTCTGT
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGC-GTTTTTTC-CT
*
8794748 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
8794762 TTAGCGACGT
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.01
41 4 0.03
42 59 0.51
43 33 0.28
44 19 0.16
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTCCT
Found at i:8795979 original size:22 final size:22
Alignment explanation
Indices: 8795936--8795976 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8795926 CGTATGTATT
*
8795936 AAAATAATTATCCATAAATTAA
1 AAAATAATTATACATAAATTAA
8795958 AAAATAATTA-ACATAAATT
1 AAAATAATTATACATAAATT
8795977 TAACATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATAATTATACATAAATTAA
Found at i:8798935 original size:14 final size:13
Alignment explanation
Indices: 8798913--8799059 Score: 63
Period size: 13 Copynumber: 11.1 Consensus size: 13
8798903 AAGTGTTTTC
*
8798913 TTTCTTCAAGTGTT
1 TTTCATCAAGT-TT
*
8798927 TTTCATCAAGTTC
1 TTTCATCAAGTTT
8798940 TTTCATCAAGTTT
1 TTTCATCAAGTTT
* *
8798953 TTAATTACCAAGGTTTTT
1 TT--TCATCAA-G--TTT
* *
8798971 TTTTATTAAG-TT
1 TTTCATCAAGTTT
*
8798983 TTGCATCAAGTTCT
1 TTTCATCAAGTT-T
*
8798997 TTT--T-AA-ATT
1 TTTCATCAAGTTT
*
8799006 TTTCATCAAGTCT
1 TTTCATCAAGTTT
*
8799019 TTTCATAAAG-TT
1 TTTCATCAAGTTT
*
8799031 TTCCATCAAGTTT
1 TTTCATCAAGTTT
*
8799044 TTAATCATTAAGTTT
1 TT--TCATCAAGTTT
8799059 T
1 T
8799060 CCAATTAACC
Statistics
Matches: 99, Mismatches: 20, Indels: 27
0.68 0.14 0.18
Matches are distributed among these distances:
9 4 0.04
10 1 0.01
11 3 0.03
12 21 0.21
13 30 0.30
14 13 0.13
15 16 0.16
16 6 0.06
18 5 0.05
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.52
Consensus pattern (13 bp):
TTTCATCAAGTTT
Found at i:8799007 original size:23 final size:23
Alignment explanation
Indices: 8798976--8799042 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 23
8798966 TTTTTTTTTA
* *
8798976 TTAAGTTTTGCATCAAGTTCTTT
1 TTAAATTTTCCATCAAGTTCTTT
*
8798999 TTAAATTTTTCATCAAG-TCTTT
1 TTAAATTTTCCATCAAGTTCTTT
8799021 TCATAAAGTTTTCCATCAAGTT
1 T--TAAA-TTTTCCATCAAGTT
8799043 TTTAATCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 6 0.16
23 15 0.41
24 4 0.11
25 11 0.30
26 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.49
Consensus pattern (23 bp):
TTAAATTTTCCATCAAGTTCTTT
Found at i:8799023 original size:13 final size:12
Alignment explanation
Indices: 8798978--8799050 Score: 60
Period size: 12 Copynumber: 6.1 Consensus size: 12
8798968 TTTTTTTATT
*
8798978 AAGTTTTGCATC
1 AAGTTTTTCATC
*
8798990 AAGTTCTTT--TT
1 AAGTT-TTTCATC
*
8799001 AAATTTTTCATC
1 AAGTTTTTCATC
*
8799013 AAGTCTTTTCATA
1 AAGT-TTTTCATC
*
8799026 AAGTTTTCCATC
1 AAGTTTTTCATC
*
8799038 AAGTTTTTAATC
1 AAGTTTTTCATC
8799050 A
1 A
8799051 TTAAGTTTTC
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
10 3 0.06
11 5 0.11
12 26 0.55
13 13 0.28
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (12 bp):
AAGTTTTTCATC
Found at i:8801966 original size:300 final size:300
Alignment explanation
Indices: 8801424--8802027 Score: 1136
Period size: 300 Copynumber: 2.0 Consensus size: 300
8801414 GTCGATGCTA
*
8801424 CAAAATACCAATAAAAGACAGACGCATCAATACAAGAGTTAACTAATCAAGTTAGTAAACTCTCG
1 CAAAATACCAACAAAAGACAGACGCATCAATACAAGAGTTAACTAATCAAGTTAGTAAACTCTCG
* * *
8801489 ATGGCAGTTAATCGTTTGGAGTCTCAAGGTAAATTACCTTCCCAAACAGAGCTGAATCCTTAGTA
66 ATGGCAGTTAATCGTTTGGAGTCTCAAGGTAAATTACCTTCCCAAACAGAGCTAAATCCTCAGCA
*
8801554 GAATGCAAGTGCAATAACTCTTCGTAGCGGAAAAGTTTTGGAAACAGTTCCAGAAAAAATTCATG
131 GAATGCAAGTGCAATAACTCTTCGTAGCGGAAAAGTTTTGGAAACAGTTCCAGAAAAAAGTCATG
*
8801619 GGCAAGACAACGAACGAGAAAAGTAGATCTCTGATCCAAAAGCCAAACCAGAATCAGAAATTCAG
196 GGCAAGACAACGAACGAGAAAAGTAGATCTCTAATCCAAAAGCCAAACCAGAATCAGAAATTCAG
8801684 AAACCAGTTGTGATGCCACCTCCTTTTCCAGGGAGGCTCG
261 AAACCAGTTGTGATGCCACCTCCTTTTCCAGGGAGGCTCG
*
8801724 CAAAATACCAACAAAGGACAGACGCATCAATACAAGAGTTAACTAATCAAGTTAGTAAACTCTCG
1 CAAAATACCAACAAAAGACAGACGCATCAATACAAGAGTTAACTAATCAAGTTAGTAAACTCTCG
*
8801789 ATGGCAGTTAATTGTTTGGAGTCTCAAGGTAAATTACCTTCCCAAACAGAGCTAAATCCTCAGCA
66 ATGGCAGTTAATCGTTTGGAGTCTCAAGGTAAATTACCTTCCCAAACAGAGCTAAATCCTCAGCA
8801854 GAATGCAAGTGCAATAACTCTTCGTAGCGGAAAAGTTTTGGAAACAGTTCCAGAAAAAAGTCATG
131 GAATGCAAGTGCAATAACTCTTCGTAGCGGAAAAGTTTTGGAAACAGTTCCAGAAAAAAGTCATG
8801919 GGCAAGACAACGAACGAGAAAAGTAGATCTCTAATCCAAAAGCCAAACCAGAATCAGAAATTCAG
196 GGCAAGACAACGAACGAGAAAAGTAGATCTCTAATCCAAAAGCCAAACCAGAATCAGAAATTCAG
8801984 AAACCAGTTGTGATGCCACCTCCTTTTCCAGGGAGGCTCG
261 AAACCAGTTGTGATGCCACCTCCTTTTCCAGGGAGGCTCG
8802024 CAAA
1 CAAA
8802028 GGATAAGAAA
Statistics
Matches: 296, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
300 296 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (300 bp):
CAAAATACCAACAAAAGACAGACGCATCAATACAAGAGTTAACTAATCAAGTTAGTAAACTCTCG
ATGGCAGTTAATCGTTTGGAGTCTCAAGGTAAATTACCTTCCCAAACAGAGCTAAATCCTCAGCA
GAATGCAAGTGCAATAACTCTTCGTAGCGGAAAAGTTTTGGAAACAGTTCCAGAAAAAAGTCATG
GGCAAGACAACGAACGAGAAAAGTAGATCTCTAATCCAAAAGCCAAACCAGAATCAGAAATTCAG
AAACCAGTTGTGATGCCACCTCCTTTTCCAGGGAGGCTCG
Found at i:8804667 original size:62 final size:63
Alignment explanation
Indices: 8804568--8804692 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 63
8804558 ATCTCGTTAC
*
8804568 AGGTACTGTTCCTTCGGAATTACCAAGGTCTAAAAAAGATACGATCAAAAAGGATACTCAATA
1 AGGTACTGTTCCTTCAGAATTACCAAGGTCTAAAAAAGATACGATCAAAAAGGATACTCAATA
*
8804631 AGGTAC-GTTCCTTTAGAATTACCAAGGTCTAAAAAAGATACGATCAAAAAGGATACTCAATA
1 AGGTACTGTTCCTTCAGAATTACCAAGGTCTAAAAAAGATACGATCAAAAAGGATACTCAATA
8804693 TTACATTTGG
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
62 54 0.90
63 6 0.10
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (63 bp):
AGGTACTGTTCCTTCAGAATTACCAAGGTCTAAAAAAGATACGATCAAAAAGGATACTCAATA
Found at i:8806195 original size:5 final size:6
Alignment explanation
Indices: 8806144--8806236 Score: 100
Period size: 6 Copynumber: 15.0 Consensus size: 6
8806134 AAAAAAAAAC
* * *
8806144 ATTTTA ATTTTA ATTTTCCT ATTATT ATTATTT ATTTTT ACTATTTT A-TTTT
1 ATTTTT ATTTTT ATTTT--T ATTTTT ATT-TTT ATTTTT A-T-TTTT ATTTTT
8806196 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A-TTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
8806237 GCGGAGAAAC
Statistics
Matches: 77, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
5 10 0.13
6 52 0.68
7 6 0.08
8 9 0.12
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:8809590 original size:14 final size:13
Alignment explanation
Indices: 8809568--8809714 Score: 83
Period size: 12 Copynumber: 11.2 Consensus size: 13
8809558 AAGTGTTTTC
*
8809568 TTTCTTCAAGTGTT
1 TTTCATCAAGT-TT
8809582 TTTCATCAAGTTCT
1 TTTCATCAAGTT-T
8809596 TTT-ATCAAGTTT
1 TTTCATCAAGTTT
*
8809608 TTAATTATCAAGGTTTT
1 TT--TCATCAA-G-TTT
* *
8809625 TTTTATTAAG-TT
1 TTTCATCAAGTTT
*
8809637 TTGCATCAAGTTCT
1 TTTCATCAAGTT-T
8809651 TTT--T-AAG-TT
1 TTTCATCAAGTTT
*
8809660 TTTCATCAAGTCT
1 TTTCATCAAGTTT
*
8809673 TTTCATAAAG-TT
1 TTTCATCAAGTTT
*
8809685 TTCCATCAAGTTT
1 TTTCATCAAGTTT
*
8809698 TTAATCATTAAGTTT
1 TT--TCATCAAGTTT
8809713 TT
1 TT
8809715 CAATTAACCT
Statistics
Matches: 105, Mismatches: 13, Indels: 29
0.71 0.09 0.20
Matches are distributed among these distances:
9 4 0.04
10 1 0.01
11 4 0.04
12 25 0.24
13 24 0.23
14 19 0.18
15 22 0.21
16 1 0.01
17 5 0.05
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (13 bp):
TTTCATCAAGTTT
Found at i:8809615 original size:15 final size:14
Alignment explanation
Indices: 8809573--8809638 Score: 55
Period size: 13 Copynumber: 4.6 Consensus size: 14
8809563 TTTTCTTTCT
*
8809573 TCAAGTGTTTT-TCA
1 TCAAGT-TTTTATTA
*
8809587 TCAAGTTCTT-TTA
1 TCAAGTTTTTATTA
8809600 TCAAGTTTTTAATTA
1 TCAAGTTTTT-ATTA
*
8809615 TCAAGGTTTTTTTTA
1 TCAA-GTTTTTATTA
*
8809630 TTAAGTTTT
1 TCAAGTTTT
8809639 GCATCAAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
13 14 0.32
14 11 0.25
15 13 0.30
16 6 0.14
ACGTcount: A:0.24, C:0.09, G:0.11, T:0.56
Consensus pattern (14 bp):
TCAAGTTTTTATTA
Found at i:8809658 original size:23 final size:23
Alignment explanation
Indices: 8809630--8809696 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 23
8809620 GTTTTTTTTA
*
8809630 TTAAGTTTTGCATCAAGTTCTTT
1 TTAAGTTTTCCATCAAGTTCTTT
*
8809653 TTAAGTTTTTCATCAAG-TCTTT
1 TTAAGTTTTCCATCAAGTTCTTT
8809675 TCATAAAGTTTTCCATCAAGTT
1 T--T-AAGTTTTCCATCAAGTT
8809697 TTTAATCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
22 6 0.16
23 16 0.42
24 1 0.03
25 14 0.37
26 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.49
Consensus pattern (23 bp):
TTAAGTTTTCCATCAAGTTCTTT
Found at i:8813025 original size:14 final size:14
Alignment explanation
Indices: 8813006--8813035 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8812996 AATTTGAATT
8813006 TCGAGTTAAACGAA
1 TCGAGTTAAACGAA
*
8813020 TCGAGTTAATCGAA
1 TCGAGTTAAACGAA
8813034 TC
1 TC
8813036 AATTCGAATT
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:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (14 bp):
TCGAGTTAAACGAA
Found at i:8813101 original size:9 final size:9
Alignment explanation
Indices: 8813087--8813114 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
8813077 TGAATTTTCG
8813087 AATTCGAAT
1 AATTCGAAT
8813096 AATTCGAAT
1 AATTCGAAT
8813105 AATTCGAAT
1 AATTCGAAT
8813114 A
1 A
8813115 TAAACCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8813144 original size:20 final size:20
Alignment explanation
Indices: 8813121--8813161 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
8813111 AATATAAACC
8813121 ATATTTTTTATTTTTAAAAT
1 ATATTTTTTATTTTTAAAAT
8813141 ATATTTTTTATTTTTAAAAT
1 ATATTTTTTATTTTTAAAAT
8813161 A
1 A
8813162 CACTACATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATATTTTTTATTTTTAAAAT
Found at i:8818347 original size:27 final size:27
Alignment explanation
Indices: 8818317--8818376 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
8818307 GACAGCCAAA
*
8818317 TCACACGCCCTTTTATTAGGCCATGTG
1 TCACACGCCCTTTTACTAGGCCATGTG
*
8818344 TCACACGCCCTTTTACTAGGCCGTGTG
1 TCACACGCCCTTTTACTAGGCCATGTG
8818371 TCACAC
1 TCACAC
8818377 ACGGCTAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.30
Consensus pattern (27 bp):
TCACACGCCCTTTTACTAGGCCATGTG
Found at i:8819378 original size:23 final size:23
Alignment explanation
Indices: 8819326--8819378 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
8819316 ATTTCATGTT
* *
8819326 CATATATCATCATCTCATATTTT
1 CATATATCATCATATCATATTTC
* *
8819349 CACATATCAT-GTATCATCATTTC
1 CATATATCATCATATCAT-ATTTC
8819372 CATATAT
1 CATATAT
8819379 TTCAGGCAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (23 bp):
CATATATCATCATATCATATTTC
Found at i:8819636 original size:23 final size:24
Alignment explanation
Indices: 8819603--8819656 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
8819593 CATTAATTAA
*
8819603 AAAGCTCACAAAGAGCATATC-GG
1 AAAGCTTACAAAGAGCATATCAGG
*
8819626 AAAGCTTACAAAGAGCCTATCAGG
1 AAAGCTTACAAAGAGCATATCAGG
8819650 -AAGCTTA
1 AAAGCTTA
8819657 TCCAGGCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 26 0.93
24 2 0.07
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (24 bp):
AAAGCTTACAAAGAGCATATCAGG
Found at i:8819737 original size:26 final size:26
Alignment explanation
Indices: 8819673--8819807 Score: 141
Period size: 26 Copynumber: 5.3 Consensus size: 26
8819663 CTATATAACG
* *
8819673 GGAAGCTCA-TAAGAGCC-ATAATCA
1 GGAAGCTCACGAAGAGCCTTTAATCA
* * * *
8819697 GGAAGTTCACAAAGAACTTTTAATCA
1 GGAAGCTCACGAAGAGCCTTTAATCA
* * *
8819723 GGAAGCTCGCGAAGAGCCTTTAAACG
1 GGAAGCTCACGAAGAGCCTTTAATCA
* *
8819749 GGAAGCTCACGAAGAGCCTTTAAACG
1 GGAAGCTCACGAAGAGCCTTTAATCA
*
8819775 GGAAGCTCACCAAGAGCCTTTAATCA
1 GGAAGCTCACGAAGAGCCTTTAATCA
8819801 GG-AGCTC
1 GGAAGCTC
8819808 CAGATAGCCA
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.09
25 10 0.11
26 75 0.81
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
GGAAGCTCACGAAGAGCCTTTAATCA
Found at i:8819965 original size:64 final size:64
Alignment explanation
Indices: 8819864--8819992 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 64
8819854 TTTAAAGAGC
* * * *
8819864 CATATAACAGGACGCTAATAAAGAGTTGCGGTATGTCCGCAACACATGCAGGATCACTACCGAT
1 CATATAACAGGACGCTAACAAAAAGTTGCGGTATGTCCACAACACATGCAGAATCACTACCGAT
* *
8819928 CATATAACAGGACGCTCACAAAAAGTTGCGGTATGTCCACAACACATGTAGAATCACTACCGAT
1 CATATAACAGGACGCTAACAAAAAGTTGCGGTATGTCCACAACACATGCAGAATCACTACCGAT
8819992 C
1 C
8819993 GGGATGCTCG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (64 bp):
CATATAACAGGACGCTAACAAAAAGTTGCGGTATGTCCACAACACATGCAGAATCACTACCGAT
Found at i:8822883 original size:20 final size:21
Alignment explanation
Indices: 8822858--8822941 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
8822848 TGATCAGTAT
*
8822858 ACGACACA-TAAGTGCCTGAA
1 ACGACACACGAAGTGCCTGAA
* *
8822878 ACGACACACGAGGTGCCTGAT
1 ACGACACACGAAGTGCCTGAA
*
8822899 ACGACACACGAGGTGCCTGATA
1 ACGACACACGAAGTGCCTGA-A
* **
8822921 TATGACACAAAAAGTGCCTGA
1 -ACGACACACGAAGTGCCTGA
8822942 TCGGCAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 8 0.15
21 29 0.55
23 16 0.30
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (21 bp):
ACGACACACGAAGTGCCTGAA
Found at i:8822929 original size:23 final size:21
Alignment explanation
Indices: 8822856--8822920 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
8822846 CCTGATCAGT
* *
8822856 ATACGACACA-TAAGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
8822876 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
8822897 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
8822918 ATA
1 ATA
8822921 TATGACACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 9 0.22
21 31 0.77
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:8824114 original size:3 final size:3
Alignment explanation
Indices: 8824106--8824158 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
8824096 TATTCCTAGT
8824106 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8824154 TAA TA
1 TAA TA
8824159 TATTTTAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8824308 original size:11 final size:11
Alignment explanation
Indices: 8824292--8824334 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 11
8824282 ATTTTAAATA
8824292 TAATAATAATT
1 TAATAATAATT
8824303 TAATAATACTAATTT
1 TAAT-A-A-TAA-TT
8824318 TAATAATAATT
1 TAATAATAATT
8824329 TAATAA
1 TAATAA
8824335 CATTTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 12 0.43
12 4 0.14
13 2 0.07
14 4 0.14
15 6 0.21
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATAATAATT
Found at i:8834808 original size:37 final size:37
Alignment explanation
Indices: 8834766--8834836 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
8834756 AGTATTACTT
8834766 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
8834803 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
8834837 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:8834841 original size:19 final size:19
Alignment explanation
Indices: 8834772--8834840 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
8834762 ACTTAATAGT
8834772 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
8834791 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
8834809 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
8834828 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
8834841 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:8834973 original size:27 final size:27
Alignment explanation
Indices: 8834913--8834964 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
8834903 AATTTTAGTC
*
8834913 CTTTGGCACCATTGGTGCCGCCAATCA
1 CTTTGGCACCATTGGTGCCACCAATCA
8834940 CTTTGGCACCATTGGTGCCACCAAT
1 CTTTGGCACCATTGGTGCCACCAAT
8834965 ATGATTGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.33, G:0.21, T:0.27
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCACCAATCA
Found at i:8835052 original size:25 final size:26
Alignment explanation
Indices: 8835016--8835073 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
8835006 GTTTTTTTGT
8835016 ATATTTTCGTAAATAAAAAAA-AATA
1 ATATTTTCGTAAATAAAAAAATAATA
* *
8835041 ATATTTTGGTAAATAAAAAAATTATA
1 ATATTTTCGTAAATAAAAAAATAATA
8835067 ATATTTT
1 ATATTTT
8835074 AGTTATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 20 0.67
26 10 0.33
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (26 bp):
ATATTTTCGTAAATAAAAAAATAATA
Found at i:8835376 original size:22 final size:23
Alignment explanation
Indices: 8835351--8835415 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
8835341 TTACAAAACT
8835351 TTGATTATTAAATTATTAGTTA-
1 TTGATTATTAAATTATTAGTTAC
* * * * *
8835373 TTGATTCTTTATTTGTTA-TAAC
1 TTGATTATTAAATTATTAGTTAC
8835395 TTGATTATTAAATTATTAGTT
1 TTGATTATTAAATTATTAGTT
8835416 TTATATTGAA
Statistics
Matches: 31, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
21 2 0.06
22 28 0.90
23 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (23 bp):
TTGATTATTAAATTATTAGTTAC
Found at i:8841180 original size:24 final size:24
Alignment explanation
Indices: 8841153--8841200 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8841143 AATAGAAGGC
8841153 ATGGATGGAATCAAAGAATTGGGT
1 ATGGATGGAATCAAAGAATTGGGT
*
8841177 ATGGATGGAGTCAAAGAATTGGGT
1 ATGGATGGAATCAAAGAATTGGGT
8841201 TTTAAGCCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.35, T:0.25
Consensus pattern (24 bp):
ATGGATGGAATCAAAGAATTGGGT
Found at i:8846172 original size:16 final size:16
Alignment explanation
Indices: 8846151--8846185 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8846141 AATTTCACAT
8846151 TATCCGTGTATATATA
1 TATCCGTGTATATATA
* *
8846167 TATCCGTGTGTGTATA
1 TATCCGTGTATATATA
8846183 TAT
1 TAT
8846186 ATTATATGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (16 bp):
TATCCGTGTATATATA
Found at i:8847524 original size:29 final size:31
Alignment explanation
Indices: 8847473--8847530 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
8847463 TTTTAATACT
* *
8847473 TAAACTTTTTTTTTTATTATAAG-TGATATC
1 TAAACTTTTTGTTTTATCATAAGTTGATATC
*
8847503 TAAACTTTTTGTTTT-TCCTAAGTTGATA
1 TAAACTTTTTGTTTTATCATAAGTTGATA
8847531 CGTCTATTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.55
Consensus pattern (31 bp):
TAAACTTTTTGTTTTATCATAAGTTGATATC
Found at i:8859038 original size:16 final size:16
Alignment explanation
Indices: 8859019--8859064 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
8859009 ATCTTTTTTT
*
8859019 ATCTTTTTATTTTTCC
1 ATCTTTTTAATTTTCC
*
8859035 ATCTTTATAATTTTCC
1 ATCTTTTTAATTTTCC
8859051 AT-TTTTCTAATTTT
1 ATCTTTT-TAATTTT
8859065 TTTCCACTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 3 0.12
16 23 0.88
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (16 bp):
ATCTTTTTAATTTTCC
Found at i:8859127 original size:36 final size:36
Alignment explanation
Indices: 8859079--8859148 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
8859069 CACTCTACCA
* * *
8859079 AGAAAAGTCCTAATGATATTGTTACACACAACATCT
1 AGAAAAGCCCTAATGATATCGCTACACACAACATCT
*
8859115 AGAAAAGCCCTAATGATATCGCTACACACTACAT
1 AGAAAAGCCCTAATGATATCGCTACACACAACAT
8859149 TTAGCTAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.24
Consensus pattern (36 bp):
AGAAAAGCCCTAATGATATCGCTACACACAACATCT
Found at i:8862648 original size:26 final size:26
Alignment explanation
Indices: 8862613--8862701 Score: 87
Period size: 26 Copynumber: 3.5 Consensus size: 26
8862603 GAGTATCTCG
*
8862613 TATATGGCTCTTTGAGAGCTTCCCGAT
1 TATATGGCTCTCTGAGAGCTTCCCG-T
*
8862640 TATA-GGCTCTCTGTGAGCTTCCCGT
1 TATATGGCTCTCTGAGAGCTTCCCGT
* * *
8862665 TAT-T-GCTCGCTTA-AACTTCCCGT
1 TATATGGCTCTCTGAGAGCTTCCCGT
*
8862688 TATATGGCTATCTG
1 TATATGGCTCTCTG
8862702 GTGCTTCTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
23 12 0.24
24 7 0.14
25 9 0.18
26 18 0.36
27 4 0.08
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (26 bp):
TATATGGCTCTCTGAGAGCTTCCCGT
Found at i:8862744 original size:24 final size:24
Alignment explanation
Indices: 8862712--8862762 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
8862702 GTGCTTCTGA
*
8862712 TTAATTGCTCT-TCGGAGCTACCTG
1 TTAATTGCTCTCT-GGAGCTACCCG
8862736 TTAATTGCTCTCTGGAGCTACCCG
1 TTAATTGCTCTCTGGAGCTACCCG
8862760 TTA
1 TTA
8862763 TAAGCTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (24 bp):
TTAATTGCTCTCTGGAGCTACCCG
Found at i:8862769 original size:24 final size:24
Alignment explanation
Indices: 8862712--8862779 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 24
8862702 GTGCTTCTGA
* *
8862712 TTAATTGCTCT-TCGGAGCTACCTG
1 TTAATAGCTCTCT-GGAGCTACCCG
*
8862736 TTAATTGCTCTCTGGAGCTACCCG
1 TTAATAGCTCTCTGGAGCTACCCG
*
8862760 TT-ATAAGCTCTTTGTGAGCT
1 TTAAT-AGCTCTCTG-GAGCT
8862780 TTCCGTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 2 0.05
24 30 0.79
25 6 0.16
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (24 bp):
TTAATAGCTCTCTGGAGCTACCCG
Found at i:8863333 original size:43 final size:43
Alignment explanation
Indices: 8863272--8863357 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
8863262 GGAGGCTCGT
8863272 TGGGTTGGAAATTTGGCGGAGATCACTCACACTATCCACCGAC
1 TGGGTTGGAAATTTGGCGGAGATCACTCACACTATCCACCGAC
8863315 TGGGTTGGAAATTTGGCGGAGATCACTCACACTATCCACCGAC
1 TGGGTTGGAAATTTGGCGGAGATCACTCACACTATCCACCGAC
8863358 CCATTTCGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (43 bp):
TGGGTTGGAAATTTGGCGGAGATCACTCACACTATCCACCGAC
Found at i:8868801 original size:25 final size:25
Alignment explanation
Indices: 8868715--8868801 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
8868705 ATTCATGTAT
**
8868715 GCTCATACGAGCTGTA-AATAGGAA
1 GCTCATACGAGCTGTATAACGGGAA
* * * * *
8868739 GCTCCTCCTAGTTGAATAACGGGAA
1 GCTCATACGAGCTGTATAACGGGAA
* *
8868764 GCTCATGCAAGCTGTATAACGGGAA
1 GCTCATACGAGCTGTATAACGGGAA
8868789 GCTCATACGAGCT
1 GCTCATACGAGCT
8868802 ATGGTGTGTT
Statistics
Matches: 48, Mismatches: 14, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
24 11 0.23
25 37 0.77
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGTATAACGGGAA
Found at i:8873500 original size:28 final size:27
Alignment explanation
Indices: 8873439--8873520 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
8873429 ATTGAAAAAA
* * *
8873439 GAAAAGAAAAGAAAAGAAAAAACCTTTT
1 GAAAAAAAAAGAAAAGAAAAAA-ATCTT
*
8873467 GGAAAAAAAAGAAAAGAAAAAAATCTT
1 GAAAAAAAAAGAAAAGAAAAAAATCTT
*
8873494 GAAAAAAAATTAAAAAAAGAAAAAAAT
1 G-AAAAAAA--AAGAAAAGAAAAAAAT
8873521 TAAATTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.09
28 26 0.58
30 15 0.33
ACGTcount: A:0.72, C:0.04, G:0.12, T:0.12
Consensus pattern (27 bp):
GAAAAAAAAAGAAAAGAAAAAAATCTT
Found at i:8883166 original size:19 final size:18
Alignment explanation
Indices: 8883142--8883179 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
8883132 ATTACGTTTT
8883142 TGAATA-GAAATAAACGAAA
1 TGAATAGGAAA-AAAC-AAA
8883161 TGAATAGGAAAAAACAAA
1 TGAATAGGAAAAAACAAA
8883179 T
1 T
8883180 AGGGAATGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.63, C:0.05, G:0.16, T:0.16
Consensus pattern (18 bp):
TGAATAGGAAAAAACAAA
Found at i:8884122 original size:23 final size:23
Alignment explanation
Indices: 8884094--8884137 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8884084 ATATATTTGG
8884094 ACTATA-AAATATACATAAAACAA
1 ACTATACAAATAT-CATAAAACAA
*
8884117 ACTATACAAATATTATAAAAC
1 ACTATACAAATATCATAAAAC
8884138 GGAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (23 bp):
ACTATACAAATATCATAAAACAA
Found at i:8884328 original size:3 final size:3
Alignment explanation
Indices: 8884276--8884309 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
8884266 TATATATTGA
* *
8884276 AAT AAT AAT AAT AAT AAT AAC AAT AAT AAA AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8884310 GAAAGTACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:8885342 original size:45 final size:46
Alignment explanation
Indices: 8885240--8885347 Score: 123
Period size: 45 Copynumber: 2.4 Consensus size: 46
8885230 TTGTACAGGG
** **
8885240 AACATTCA-AGAATG-ATTATTGTTTTCTTTGAAATGGAGAAATGGA
1 AACATTCAGA-AATGAATTATTGTTTTCTCCGAAAAAGAGAAATGGA
8885285 AACATTCAGAAAT-AATTATTGTTTTCTCCGAAAAAGAGAAATGGA
1 AACATTCAGAAATGAATTATTGTTTTCTCCGAAAAAGAGAAATGGA
* **
8885330 ATCATTTGGAAATGAATT
1 AACATTCAGAAATGAATT
8885348 TAAGCTTTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
45 48 0.91
46 5 0.09
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (46 bp):
AACATTCAGAAATGAATTATTGTTTTCTCCGAAAAAGAGAAATGGA
Found at i:8886505 original size:15 final size:16
Alignment explanation
Indices: 8886480--8886509 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8886470 AAAACAAAGG
8886480 ACATCACACAATACAA
1 ACATCACACAATACAA
8886496 ACAT-ACACAATACA
1 ACATCACACAATACA
8886510 CTCCTATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (16 bp):
ACATCACACAATACAA
Found at i:8887006 original size:16 final size:16
Alignment explanation
Indices: 8886956--8887012 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
8886946 TTTAACAAAA
*
8886956 AAATCCAAAAAATAAT
1 AAATCCAAAAAATCAT
* ** *
8886972 AAA-CCTAAATCTCTCT
1 AAATCCAAAAAATC-AT
8886988 AAATCCAAAAAATCAT
1 AAATCCAAAAAATCAT
8887004 AAATCCAAA
1 AAATCCAAA
8887013 TTAGAAACTT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
15 6 0.20
16 17 0.57
17 7 0.23
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATCCAAAAAATCAT
Found at i:8887915 original size:41 final size:44
Alignment explanation
Indices: 8887870--8887955 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 44
8887860 TTCTCATGCA
*
8887870 ATCAACAATCCCAAT-AAAA-AAAA-AGCTTGGATATAAATACT
1 ATCAACAACCCCAATCAAAAGAAAAGAGCTTGGATATAAATACT
*
8887911 ATCAACAACCCCTATGCAAAAGAAAAGAGCTTGGATATAAATACT
1 ATCAACAACCCCAAT-CAAAAGAAAAGAGCTTGGATATAAATACT
8887956 TACGTATTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 13 0.33
43 4 0.10
44 4 0.10
45 18 0.46
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (44 bp):
ATCAACAACCCCAATCAAAAGAAAAGAGCTTGGATATAAATACT
Found at i:8888080 original size:37 final size:39
Alignment explanation
Indices: 8888030--8888107 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
8888020 GAAGAGATTG
* *
8888030 AAATAAATAAATAA-AGTGTTA-ATAAGTTGGTTGAATA
1 AAATAAATAAATAATAATATTATATAAGTTGGTTGAATA
* *
8888067 AAATAAATAAATAATAATATTATATTATTTGGTTGAATA
1 AAATAAATAAATAATAATATTATATAAGTTGGTTGAATA
8888106 AA
1 AA
8888108 TTAATAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.40
38 5 0.14
39 16 0.46
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.36
Consensus pattern (39 bp):
AAATAAATAAATAATAATATTATATAAGTTGGTTGAATA
Found at i:8904071 original size:4 final size:4
Alignment explanation
Indices: 8904062--8904088 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8904052 CCTCTTTCGT
8904062 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
8904089 TCCTGAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:8919231 original size:9 final size:9
Alignment explanation
Indices: 8919217--8919251 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
8919207 TTCTATTCTG
8919217 TTTCTTTTC
1 TTTCTTTTC
*
8919226 TTTCTTTTT
1 TTTCTTTTC
*
8919235 TTTCTATTC
1 TTTCTTTTC
8919244 TTTCTTTT
1 TTTCTTTT
8919252 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:8919244 original size:18 final size:19
Alignment explanation
Indices: 8919217--8919256 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
8919207 TTCTATTCTG
*
8919217 TTTCTTTTCTTTCTTTT-T
1 TTTCTATTCTTTCTTTTGT
8919235 TTTCTATTCTTTCTTTTGT
1 TTTCTATTCTTTCTTTTGT
8919254 TTT
1 TTT
8919257 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTCTATTCTTTCTTTTGT
Found at i:8919273 original size:5 final size:5
Alignment explanation
Indices: 8919260--8919332 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
8919250 TTGTTTTATG
8919260 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
8919308 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
8919333 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:8919285 original size:19 final size:19
Alignment explanation
Indices: 8919261--8919303 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
8919251 TGTTTTATGT
8919261 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
8919280 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
8919299 ATATA
1 ATATA
8919304 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:8919313 original size:24 final size:25
Alignment explanation
Indices: 8919267--8919331 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
8919257 ATGTATATAT
* *
8919267 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
8919291 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
8919316 TTACTATAATATAATA
1 ATAATATAATATAATA
8919332 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:8926776 original size:29 final size:28
Alignment explanation
Indices: 8926736--8926808 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
8926726 ATTTATTATT
*
8926736 ATAATAATTATTTTAAAAATTAA-AAGATA
1 ATAATAA-TATTTTAAAAATTAAGAA-AGA
*
8926765 ATAATAACTATTTTAAAATTTAAGAAAGA
1 ATAATAA-TATTTTAAAAATTAAGAAAGA
8926794 ATAATAAT-TTTTAAA
1 ATAATAATATTTTAAA
8926809 TTTTAAAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
27 7 0.17
28 1 0.03
29 30 0.75
30 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (28 bp):
ATAATAATATTTTAAAAATTAAGAAAGA
Found at i:8926803 original size:26 final size:26
Alignment explanation
Indices: 8926738--8926816 Score: 70
Period size: 29 Copynumber: 2.9 Consensus size: 26
8926728 TTATTATTAT
* * *
8926738 AATAATTATTTTAAAAATTAAAAGAT
1 AATAATAATTTTAAAATTTAAAAGAG
8926764 AATAATAACTATTTTAAAATTTAAGAA-AG
1 AATAAT-A--ATTTTAAAATTTAA-AAGAG
*
8926793 AATAATAATTTTTAAATTTTAAAA
1 AATAATAA-TTTTAAAATTTAAAA
8926817 CCCTCTTTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
26 9 0.20
27 12 0.27
28 1 0.02
29 20 0.45
30 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (26 bp):
AATAATAATTTTAAAATTTAAAAGAG
Found at i:8927479 original size:13 final size:13
Alignment explanation
Indices: 8927446--8927478 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8927436 TCAAAAAAAG
*
8927446 TTTTGAAACAAAT
1 TTTTAAAACAAAT
8927459 TTTTAAAAC-AAT
1 TTTTAAAACAAAT
8927471 TTTTAAAA
1 TTTTAAAA
8927479 ATAGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (13 bp):
TTTTAAAACAAAT
Found at i:8933080 original size:14 final size:15
Alignment explanation
Indices: 8933055--8933083 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8933045 TTAAAATCCG
8933055 TTAATGTTTAATTTT
1 TTAATGTTTAATTTT
8933070 TTAAT-TTTAATTTT
1 TTAATGTTTAATTTT
8933084 AAAAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTAATGTTTAATTTT
Found at i:8937193 original size:15 final size:16
Alignment explanation
Indices: 8937173--8937204 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
8937163 TAAATTATAA
8937173 AATTTATGA-TTTATT
1 AATTTATGATTTTATT
8937188 AATTTATGATTTTATT
1 AATTTATGATTTTATT
8937204 A
1 A
8937205 TTTTGAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
AATTTATGATTTTATT
Found at i:8938852 original size:29 final size:29
Alignment explanation
Indices: 8938810--8938868 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
8938800 ATTATAGGGT
*
8938810 ATGGATCAAATTAGTCCCTATATTATTAA
1 ATGGATCAAATTAGTCCCTATACTATTAA
*
8938839 ATGGATCAATTTAGTCCCTATACTATTAA
1 ATGGATCAAATTAGTCCCTATACTATTAA
8938868 A
1 A
8938869 AAGAATCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (29 bp):
ATGGATCAAATTAGTCCCTATACTATTAA
Done.