Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 310 of 362
Found at i:103783534 original size:24 final size:24
Alignment explanation
Indices: 103783507--103783558 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
103783497 AACATGATAG
103783507 CACTGAAGTCAATTACAAGACAAA
1 CACTGAAGTCAATTACAAGACAAA
103783531 CACTGAAGTCAATTACAAGACAAA
1 CACTGAAGTCAATTACAAGACAAA
103783555 CACT
1 CACT
103783559 ACAATAGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.17
Consensus pattern (24 bp):
CACTGAAGTCAATTACAAGACAAA
Found at i:103793121 original size:13 final size:13
Alignment explanation
Indices: 103793103--103793139 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
103793093 AGTTGATCTG
103793103 TTAAAAATATTAA
1 TTAAAAATATTAA
*
103793116 TTAAAAATAATAA
1 TTAAAAATATTAA
103793129 -T-AAAATATTAA
1 TTAAAAATATTAA
103793140 AACAACATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 9 0.41
12 1 0.05
13 12 0.55
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAAAAATATTAA
Found at i:103793192 original size:39 final size:39
Alignment explanation
Indices: 103793149--103793223 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
103793139 AAACAACATG
103793149 AAATAAAGAAAACTAATGTAAGTGGAAGAATAATCAATC
1 AAATAAAGAAAACTAATGTAAGTGGAAGAATAATCAATC
*
103793188 AAATAAAGAAAATTAATGTAAGTGGAAGAATAATCA
1 AAATAAAGAAAACTAATGTAAGTGGAAGAATAATCA
103793224 GTCTTGGGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.21
Consensus pattern (39 bp):
AAATAAAGAAAACTAATGTAAGTGGAAGAATAATCAATC
Found at i:103794008 original size:11 final size:11
Alignment explanation
Indices: 103793992--103794016 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
103793982 GGGTGGATGT
103793992 AAATTTTGCGG
1 AAATTTTGCGG
103794003 AAATTTTGCGG
1 AAATTTTGCGG
103794014 AAA
1 AAA
103794017 ATGAAAAAAG
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:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (11 bp):
AAATTTTGCGG
Found at i:103806099 original size:18 final size:18
Alignment explanation
Indices: 103806046--103806177 Score: 124
Period size: 18 Copynumber: 7.4 Consensus size: 18
103806036 ATCTTTATTG
* *
103806046 TTCAGTAACAGTCAGTCA
1 TTCAGTAACAGTCATTTA
* * *
103806064 -TCAGTAATAATCAGTTA
1 TTCAGTAACAGTCATTTA
*
103806081 TTCAGTAACGGTCATTTA
1 TTCAGTAACAGTCATTTA
* * *
103806099 TTCAATATCAGTCAATTA
1 TTCAGTAACAGTCATTTA
* * *
103806117 TTCAGTAGCAGCCAGTTA
1 TTCAGTAACAGTCATTTA
*
103806135 TTCAGTAACAGTCATTGA
1 TTCAGTAACAGTCATTTA
103806153 TTCAGTAACAGTCGA-TTA
1 TTCAGTAACAGTC-ATTTA
103806171 TTCAGTA
1 TTCAGTA
103806178 GTGGTTAATT
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
17 14 0.15
18 77 0.84
19 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (18 bp):
TTCAGTAACAGTCATTTA
Found at i:103806133 original size:54 final size:54
Alignment explanation
Indices: 103806075--103806178 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
103806065 CAGTAATAAT
* * *
103806075 CAGTTATTCAGTAACGGTCATTTATTCAATATCAGTCAATTATTCAGTAGCAGC
1 CAGTTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAGCAGC
* *
103806129 CAGTTATTCAGTAACAGTCATTGATTCAGTAACAGTCGATTATTCAGTAG
1 CAGTTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAG
103806179 TGGTTAATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (54 bp):
CAGTTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAGCAGC
Found at i:103806380 original size:12 final size:12
Alignment explanation
Indices: 103806363--103806394 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
103806353 ACAAATCCAG
103806363 AATAGTAACAGT
1 AATAGTAACAGT
103806375 AATAGTAACAGT
1 AATAGTAACAGT
*
103806387 AACAGTAA
1 AATAGTAA
103806395 GGTACGGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.22
Consensus pattern (12 bp):
AATAGTAACAGT
Found at i:103806421 original size:63 final size:63
Alignment explanation
Indices: 103806338--103806502 Score: 303
Period size: 63 Copynumber: 2.6 Consensus size: 63
103806328 ACGGTACATA
* * *
103806338 GAGTACCTCATCGGAACAAATCCAGAATAGTAACAGTAATAGTAACAGTAACAGTAAGGTACG
1 GAGTACCTCTTCGGAACAAATCCGGAACAGTAACAGTAATAGTAACAGTAACAGTAAGGTACG
103806401 GAGTACCTCTTCGGAACAAATCCGGAACAGTAACAGTAATAGTAACAGTAACAGTAAGGTACG
1 GAGTACCTCTTCGGAACAAATCCGGAACAGTAACAGTAATAGTAACAGTAACAGTAAGGTACG
103806464 GAGTACCTCTTCGGAACAAATCCGGAACAGTAACAGTAA
1 GAGTACCTCTTCGGAACAAATCCGGAACAGTAACAGTAA
103806503 GGCGACACTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 99 1.00
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (63 bp):
GAGTACCTCTTCGGAACAAATCCGGAACAGTAACAGTAATAGTAACAGTAACAGTAAGGTACG
Found at i:103806437 original size:6 final size:6
Alignment explanation
Indices: 103806426--103806457 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
103806416 ACAAATCCGG
*
103806426 AACAGT AACAGT AATAGT AACAGT AACAGT AA
1 AACAGT AACAGT AACAGT AACAGT AACAGT AA
103806458 GGTACGGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (6 bp):
AACAGT
Found at i:103809324 original size:15 final size:14
Alignment explanation
Indices: 103809292--103809358 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
103809282 CCAGAAAAGT
103809292 AAATCATTTTCCAG
1 AAATCATTTTCCAG
103809306 AAATCATTTTCCAAG
1 AAATCATTTTCC-AG
* *
103809321 AAATTATTTTTCAG
1 AAATCATTTTCCAG
*
103809335 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
103809349 AAAACATTTT
1 AAATCATTTT
103809359 ACCTGCAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 34 0.74
15 12 0.26
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:103810215 original size:33 final size:33
Alignment explanation
Indices: 103810173--103810235 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
103810163 CCATTTGGTC
103810173 TAATTTCATTTTAAAACCTCCTATTAAAAGGTA
1 TAATTTCATTTTAAAACCTCCTATTAAAAGGTA
103810206 TAATTTCATTTTAAAACCTCCTATTAAAAG
1 TAATTTCATTTTAAAACCTCCTATTAAAAG
103810236 AACAACAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (33 bp):
TAATTTCATTTTAAAACCTCCTATTAAAAGGTA
Found at i:103812337 original size:19 final size:19
Alignment explanation
Indices: 103812313--103812350 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
103812303 CAACTCGTCC
103812313 TAATAAAGGATGCCTTGTT
1 TAATAAAGGATGCCTTGTT
103812332 TAATAAAGGATGCCTTGTT
1 TAATAAAGGATGCCTTGTT
103812351 CAGAGTTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (19 bp):
TAATAAAGGATGCCTTGTT
Found at i:103816128 original size:15 final size:16
Alignment explanation
Indices: 103816105--103816137 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
103816095 AAAGGTCTAC
*
103816105 AAGTTAAAA-TAAATA
1 AAGTGAAAAGTAAATA
103816120 AAGTGAAAAGTAAATA
1 AAGTGAAAAGTAAATA
103816136 AA
1 AA
103816138 TTAAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (16 bp):
AAGTGAAAAGTAAATA
Found at i:103816232 original size:28 final size:28
Alignment explanation
Indices: 103816201--103816254 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
103816191 ATTAAATAGT
103816201 TAAATAAAAGT-ATAA-AAATTAAAATAAA
1 TAAAT-AAAGTAATAATAAA-TAAAATAAA
103816229 TAAATAAAGTAATAATAAATAAAATA
1 TAAATAAAGTAATAATAAATAAAATA
103816255 TAGATGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.21
28 16 0.67
29 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (28 bp):
TAAATAAAGTAATAATAAATAAAATAAA
Found at i:103819196 original size:16 final size:17
Alignment explanation
Indices: 103819165--103819197 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
103819155 TTTATAAGTA
103819165 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
103819182 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
103819198 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:103819707 original size:46 final size:46
Alignment explanation
Indices: 103819478--103819705 Score: 307
Period size: 46 Copynumber: 5.0 Consensus size: 46
103819468 TTATCTTTGA
* * * * *
103819478 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
*
103819524 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
103819570 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCA-GT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT-CATGT
*
103819616 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * **
103819662 TAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
103819706 ATCAGAGAGC
Statistics
Matches: 163, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
45 5 0.03
46 157 0.96
47 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:103834285 original size:30 final size:30
Alignment explanation
Indices: 103834251--103834323 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
103834241 TTGATCTTTC
*
103834251 TAAAAAT-AGTAAAAACTTGATTTAACCCTT
1 TAAAAATGA-TAAAAACTTGACTTAACCCTT
** *
103834281 TAAAAATGATAAAATTTTGACTTAACTCTT
1 TAAAAATGATAAAAACTTGACTTAACCCTT
*
103834311 TAAAAATTATAAA
1 TAAAAATGATAAA
103834324 GATATAAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 36 0.97
31 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (30 bp):
TAAAAATGATAAAAACTTGACTTAACCCTT
Found at i:103836200 original size:11 final size:11
Alignment explanation
Indices: 103836186--103836234 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
103836176 ATATCCAAAT
*
103836186 AATAACATCAA
1 AATAATATCAA
*
103836197 AATAGTATCAA
1 AATAATATCAA
*
103836208 TATAATATCAA
1 AATAATATCAA
* *
103836219 AATGATAGCAA
1 AATAATATCAA
103836230 AATAA
1 AATAA
103836235 CGAAAAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.59, C:0.10, G:0.06, T:0.24
Consensus pattern (11 bp):
AATAATATCAA
Found at i:103836713 original size:20 final size:22
Alignment explanation
Indices: 103836658--103836714 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
103836648 TAATTATTAT
103836658 AATATATAATTATTATAAATTTA
1 AATATATAATT-TTATAAATTTA
*
103836681 AATATATAATTTTATATATTTA
1 AATATATAATTTTATAAATTTA
103836703 AA-ATA-AATTTTA
1 AATATATAATTTTA
103836715 ATTGAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 7 0.21
21 3 0.09
22 12 0.36
23 11 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATATATAATTTTATAAATTTA
Found at i:103845762 original size:43 final size:43
Alignment explanation
Indices: 103845709--103845934 Score: 380
Period size: 43 Copynumber: 5.3 Consensus size: 43
103845699 CGCCACAAAA
* *
103845709 CTAAAGGTCATGGCCTTTAGCGGCGCTTTTCCCACAAATGCCG
1 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCG
*
103845752 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCTACAAACGCCG
1 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCG
* * *
103845795 CTAAAGGTCATGACCTTTAACGGCGCTTTTCCCACAAACGCCG
1 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCG
103845838 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCG
1 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCG
* *
103845881 CTAAATGTCATGTCCTTTAGCGGCACTTTTCCCACAAACGCCG
1 CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCG
103845924 CTAAATGTCAT
1 CTAAATGTCAT
103845935 AAATTCAAAA
Statistics
Matches: 171, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 171 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (43 bp):
CTAAATGTCATGGCCTTTAGCGGCGCTTTTCCCACAAACGCCG
Found at i:103846231 original size:18 final size:19
Alignment explanation
Indices: 103846194--103846234 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
103846184 ATTTAGAATC
103846194 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
103846213 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
103846231 AAAA
1 AAAA
103846235 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:103846236 original size:31 final size:31
Alignment explanation
Indices: 103846160--103846233 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
103846150 TCAAATTATC
*
103846160 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
103846192 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
103846222 TTAAATATAAAA
1 TTAAATATAAAA
103846234 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:103851640 original size:14 final size:14
Alignment explanation
Indices: 103851623--103851701 Score: 59
Period size: 14 Copynumber: 5.4 Consensus size: 14
103851613 CCTTAATCCC
103851623 TAAACCATATATCT
1 TAAACCATATATCT
*
103851637 TAAACCATAGTTAACTCA
1 TAAACCATA--T-A-TCT
* * * *
103851655 TAAACCTTAAACCC
1 TAAACCATATATCT
103851669 TAAACCATATATCT
1 TAAACCATATATCT
* *
103851683 TAAACCATAAACCT
1 TAAACCATATATCT
103851697 TAAAC
1 TAAAC
103851702 TGTAATGAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
14 37 0.74
15 1 0.02
16 1 0.02
17 1 0.02
18 10 0.20
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (14 bp):
TAAACCATATATCT
Found at i:103851650 original size:46 final size:46
Alignment explanation
Indices: 103851598--103851691 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
103851588 CTTCAAATAC
* *
103851598 TAGTTAACTCTTAAACCTTAATCCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
103851644 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
103851690 TA
1 TA
103851692 AACCTTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:103851684 original size:21 final size:21
Alignment explanation
Indices: 103851614--103851695 Score: 83
Period size: 21 Copynumber: 3.7 Consensus size: 21
103851604 ACTCTTAAAC
* *
103851614 CTTAATCCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
103851635 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
103851660 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
103851681 CTTAAACCATAAACC
1 CTTAAACCATAAACC
103851696 TTAAACTGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 28 0.57
22 3 0.06
24 3 0.06
25 15 0.31
ACGTcount: A:0.43, C:0.28, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:103851926 original size:41 final size:41
Alignment explanation
Indices: 103851872--103852105 Score: 294
Period size: 41 Copynumber: 5.7 Consensus size: 41
103851862 CTTTTAGCAA
* * *
103851872 CGTTTTACAAAAAGTGCCGCTAATGCTATGGTCTTTAGCGG
1 CGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGG
* *
103851913 CGTTTTACTAAAAGCGCCGCTAATGCTCTTGTCTTTAGCGG
1 CGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGG
* *
103851954 CGTTTTACCAAAAGCGCCGCTAATGCTCTTGTCTTTAGTGG
1 CGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGG
*
103851995 CGTTTTACCAAAAGCGCCACTAATGCTCTGGTCTTT-GCGG
1 CGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGG
* * * *
103852035 CGTTTTTTTACTAAAA-CGCCGCTATTGCTCT-GTTTTTAGCAG
1 CG---TTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGG
* *
103852077 CGTTTTACCAAAAACGCCGCTATTGCTCT
1 CGTTTTACCAAAAGCGCCGCTAATGCTCT
103852106 ATATTTTACA
Statistics
Matches: 173, Mismatches: 15, Indels: 11
0.87 0.08 0.06
Matches are distributed among these distances:
39 10 0.06
40 20 0.12
41 115 0.66
42 18 0.10
43 10 0.06
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (41 bp):
CGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGG
Found at i:103852083 original size:123 final size:123
Alignment explanation
Indices: 103851872--103852105 Score: 339
Period size: 123 Copynumber: 1.9 Consensus size: 123
103851862 CTTTTAGCAA
* *
103851872 CGTTTTACAAAAAGTGCCGCTAATGCTATGGTCTTTAGCGGCGTTTTACTAAAAGCGCCGCTAAT
1 CGTTTTACAAAAAGCGCCACTAATGCTATGGTCTTTAGCGGCGTTTTACTAAAAGCGCCGCTAAT
* *
103851937 GCTCTTGTCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGTCTTTAGTGG
66 GCTCTTGTCTTTAGCAGCGTTTTACCAAAAACGCCGCTAATGCTCTTGTCTTTAGTGG
* *
103851995 CGTTTTACCAAAAGCGCCACTAATGCTCTGGTCTTT-GCGGCGTTTTTTTACTAAAA-CGCCGCT
1 CGTTTTACAAAAAGCGCCACTAATGCTATGGTCTTTAGCGGCG---TTTTACTAAAAGCGCCGCT
* * *
103852058 ATTGCTC-TGTTTTTAGCAGCGTTTTACCAAAAACGCCGCTATTGCTCT
63 AATGCTCTTGTCTTTAGCAGCGTTTTACCAAAAACGCCGCTAATGCTCT
103852106 ATATTTTACA
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
122 6 0.06
123 69 0.70
124 13 0.13
125 11 0.11
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (123 bp):
CGTTTTACAAAAAGCGCCACTAATGCTATGGTCTTTAGCGGCGTTTTACTAAAAGCGCCGCTAAT
GCTCTTGTCTTTAGCAGCGTTTTACCAAAAACGCCGCTAATGCTCTTGTCTTTAGTGG
Found at i:103856305 original size:11 final size:11
Alignment explanation
Indices: 103856289--103856318 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
103856279 CATTGTGAAA
103856289 AAAATAAAAAT
1 AAAATAAAAAT
*
103856300 AAAATAAAATT
1 AAAATAAAAAT
103856311 AAAATAAA
1 AAAATAAA
103856319 GAACACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:103860726 original size:11 final size:11
Alignment explanation
Indices: 103860710--103860739 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
103860700 AATTTGTGAA
103860710 AAAATAAAAAT
1 AAAATAAAAAT
103860721 AAAATAAAAAT
1 AAAATAAAAAT
103860732 AAAATAAA
1 AAAATAAA
103860740 TAACACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:103861075 original size:18 final size:18
Alignment explanation
Indices: 103861054--103861088 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
103861044 TCTAACAAAC
* *
103861054 ATATTAAATTTTTATTCA
1 ATATCAAATTTTAATTCA
103861072 ATATCAAATTTTAATTC
1 ATATCAAATTTTAATTC
103861089 GGTTGAATTT
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:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATCAAATTTTAATTCA
Found at i:103862193 original size:20 final size:20
Alignment explanation
Indices: 103862170--103862228 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
103862160 AACTCTTTAA
103862170 AAAATAATTTAACTTGATTG
1 AAAATAATTTAACTTGATTG
*
103862190 AAAA-AATTCTAACATGATTG
1 AAAATAATT-TAACTTGATTG
*
103862210 -AAATCATTTTAACTTGATT
1 AAAAT-AATTTAACTTGATT
103862229 TGGAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.21
20 23 0.70
21 3 0.09
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (20 bp):
AAAATAATTTAACTTGATTG
Found at i:103867355 original size:22 final size:22
Alignment explanation
Indices: 103867327--103867371 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
103867317 GGGTAAGGGG
103867327 TGTTACATTATCATCTAACACC
1 TGTTACATTATCATCTAACACC
103867349 TGTTACATTATCATCTAACACC
1 TGTTACATTATCATCTAACACC
103867371 T
1 T
103867372 AACATGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (22 bp):
TGTTACATTATCATCTAACACC
Found at i:103867381 original size:22 final size:21
Alignment explanation
Indices: 103867331--103867376 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
103867321 AAGGGGTGTT
*
103867331 ACATTATCATCTAACACCTGTT
1 ACATTATCATCTAACACC-GTA
103867353 ACATTATCATCTAACACC-TA
1 ACATTATCATCTAACACCGTA
103867373 ACAT
1 ACAT
103867377 GTTATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
22 18 0.78
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.33
Consensus pattern (21 bp):
ACATTATCATCTAACACCGTA
Found at i:103869940 original size:21 final size:23
Alignment explanation
Indices: 103869893--103869946 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
103869883 CATTCAAGAT
**
103869893 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
103869916 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
103869937 AAAAT-ATATA
1 AAAATAATATA
103869947 ATGTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:103869968 original size:27 final size:24
Alignment explanation
Indices: 103869938--103870009 Score: 63
Period size: 27 Copynumber: 2.8 Consensus size: 24
103869928 AAACAATTCA
*
103869938 AAATATATAATGTATAAAAAAAGTTT
1 AAATAAATAATGTATAAAAAAA--TT
* * * *
103869964 GAAATACATAATATATGAAAATATT
1 -AAATAAATAATGTATAAAAAAATT
103869989 AAAGTAAATAATGTATAAAAA
1 AAA-TAAATAATGTATAAAAA
103870010 TTTAAAATGA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 3 0.08
25 16 0.43
27 18 0.49
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (24 bp):
AAATAAATAATGTATAAAAAAATT
Found at i:103870175 original size:15 final size:15
Alignment explanation
Indices: 103870151--103870196 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
103870141 ATATAAATAG
*
103870151 AAATAAAAATATAAT
1 AAATAGAAATATAAT
103870166 AAATAGAAATATAAT
1 AAATAGAAATATAAT
103870181 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
103870197 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:103870184 original size:23 final size:23
Alignment explanation
Indices: 103870118--103870184 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
103870108 TATAAGAAAA
*
103870118 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
103870138 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
103870161 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
103870184 A
1 A
103870185 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:103870199 original size:44 final size:44
Alignment explanation
Indices: 103870145--103870231 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
103870135 ATTAGTATAT
103870145 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
103870189 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
103870232 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:103870216 original size:15 final size:14
Alignment explanation
Indices: 103870143--103870229 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
103870133 ATATTAGTAT
*
103870143 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
103870156 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
103870172 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
103870186 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
103870201 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
103870216 ATAAATAATAATAG
1 ATAAATAAAAATAG
103870230 TATTAGAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 20 0.33
15 34 0.57
16 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:103870811 original size:5 final size:5
Alignment explanation
Indices: 103870778--103870804 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
103870768 CTAATTTAAT
103870778 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
103870805 AATAAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:103871407 original size:44 final size:43
Alignment explanation
Indices: 103871357--103871502 Score: 136
Period size: 44 Copynumber: 3.3 Consensus size: 43
103871347 TTCCCTATTG
*
103871357 CTTAGGGGGATAAGTCTCACTGTCTTCAATCTGCTCCACTACTA
1 CTTAGGGAGATAAGTCTCACTGT-TTCAATCTGCTCCACTACTA
** *
103871401 CTTAGGGAGATAAGATCTGTCA-T-TTTCAGCCTGTTTCC-CTACTA
1 CTTAGGGAGATAAG-TC--TCACTGTTTCAATCTG-CTCCACTACTA
* * * *
103871445 CTTAGGGGGATAAGGCTCACCGTTTTCAATCTGCTCCACTACTG
1 CTTAGGGAGATAAGTCTCACTG-TTTCAATCTGCTCCACTACTA
*
103871489 CTTAAGGAGATAAG
1 CTTAGGGAGATAAG
103871503 ATGTGTAATT
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
41 3 0.04
43 4 0.05
44 64 0.79
45 6 0.07
46 1 0.01
47 3 0.04
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (43 bp):
CTTAGGGAGATAAGTCTCACTGTTTCAATCTGCTCCACTACTA
Found at i:103871483 original size:88 final size:88
Alignment explanation
Indices: 103871301--103871639 Score: 421
Period size: 88 Copynumber: 3.8 Consensus size: 88
103871291 GTCTTCGATT
* * *
103871301 TGCTCCACTACTACTTAGGGAGATAAAATCTGTAATTTTCAGCC-ATTTCCCTATTGCTTAGGGG
1 TGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTACTACTTAGGGG
* * *
103871365 GATAAGTCTCACTGTCTTCAATC
66 GATAAGGCTCACCGTTTTCAATC
* *
103871388 TGCTCCACTACTACTTAGGGAGATAAGATCTGTCATTTTCAGCCTGTTTCCCTACTACTTAGGGG
1 TGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTACTACTTAGGGG
103871453 GATAAGGCTCACCGTTTTCAATC
66 GATAAGGCTCACCGTTTTCAATC
* * * * * *
103871476 TGCTCCACTACTGCTTAAGGAGATAAGATGTGTAATTTTTAGCCTATTTCCCTACTGCTTAGAGG
1 TGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTACTACTTAGGGG
* * *
103871541 AATAAGGCTCACCATTTTCAACC
66 GATAAGGCTCACCGTTTTCAATC
* * * * * * *
103871564 TACTCCACTACTACTTAGGGAGATATGGTGGTCTGTCATTTTTAGCCT-GTTCCTTACTACTTAG
1 TGCTCCACTACTACTTAGGGAGATA---AGATCTGTAATTTTCAGCCTATTTCCCTACTACTTAG
103871628 GGGGATAAGGCT
63 GGGGATAAGGCT
103871640 AGTGGCTTAA
Statistics
Matches: 217, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
87 42 0.19
88 136 0.63
90 23 0.11
91 16 0.07
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (88 bp):
TGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTACTACTTAGGGG
GATAAGGCTCACCGTTTTCAATC
Found at i:103871575 original size:44 final size:44
Alignment explanation
Indices: 103871439--103871581 Score: 107
Period size: 44 Copynumber: 3.2 Consensus size: 44
103871429 GCCTGTTTCC
* * * * *
103871439 CTACTACTTAGGGGGATAAGGCTCACCGTTTTCAATCTGCTCCA
1 CTACTACTTAGAGGAATAAGGCTCACCATTTTCAACCTACTCCA
* * * * *
103871483 CTACTGCTTA-AGGAGATAAGATG-TGTA--ATTTTTAGCCTATTTCC-
1 CTACTACTTAGAGGA-ATAAG--GCT-CACCATTTTCAACCTA-CTCCA
*
103871527 CTACTGCTTAGAGGAATAAGGCTCACCATTTTCAACCTACTCCA
1 CTACTACTTAGAGGAATAAGGCTCACCATTTTCAACCTACTCCA
103871571 CTACTACTTAG
1 CTACTACTTAG
103871582 GGAGATATGG
Statistics
Matches: 74, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
42 2 0.03
43 6 0.08
44 56 0.76
45 8 0.11
46 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (44 bp):
CTACTACTTAGAGGAATAAGGCTCACCATTTTCAACCTACTCCA
Found at i:103878528 original size:21 final size:23
Alignment explanation
Indices: 103878481--103878534 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
103878471 CATTCAAGAT
**
103878481 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
103878504 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
103878525 AAAAT-ATATA
1 AAAATAATATA
103878535 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:103878581 original size:25 final size:24
Alignment explanation
Indices: 103878543--103878655 Score: 65
Period size: 24 Copynumber: 4.6 Consensus size: 24
103878533 TAATGTGTAA
*
103878543 AAAAAGTTTGAAAT-ACATAATATAT
1 AAAAA-TTTAAAATAAC-TAATATAT
* *
103878568 GAAAATATTAAAATAACTAATGTAT
1 AAAAAT-TTAAAATAACTAATATAT
*
103878593 AAAAATTTAAAATGAGCGT--TATAT
1 AAAAATTTAAAAT-AAC-TAATATAT
* *
103878617 AAAAAGTTAAAATAGA-TAATA-ACA
1 AAAAATTTAAAATA-ACTAATATA-T
*
103878641 AAAAATGTAAAATAA
1 AAAAATTTAAAATAA
103878656 ATAAATAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
22 1 0.01
23 3 0.04
24 38 0.55
25 24 0.35
26 3 0.04
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.28
Consensus pattern (24 bp):
AAAAATTTAAAATAACTAATATAT
Found at i:103878767 original size:15 final size:15
Alignment explanation
Indices: 103878743--103878788 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
103878733 ATATAAATAG
*
103878743 AAATAAAAATATAAT
1 AAATAGAAATATAAT
103878758 AAATAGAAATATAAT
1 AAATAGAAATATAAT
103878773 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
103878789 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:103878776 original size:23 final size:23
Alignment explanation
Indices: 103878710--103878776 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
103878700 TATAAGAAAA
*
103878710 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
103878730 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
103878753 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
103878776 A
1 A
103878777 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:103878808 original size:15 final size:14
Alignment explanation
Indices: 103878735--103878815 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
103878725 ATATTAGTAT
*
103878735 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
103878748 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
103878764 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
103878778 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
103878793 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
103878808 ATAAATAA
1 ATAAATAA
103878816 TAATGGTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 17 0.31
15 32 0.58
16 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:103883343 original size:9 final size:9
Alignment explanation
Indices: 103883329--103883370 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
103883319 GTTCTTATTT
103883329 TTTTTTTAC
1 TTTTTTTAC
103883338 TTTTTTTAC
1 TTTTTTTAC
*
103883347 TTTTTTAAC
1 TTTTTTTAC
103883356 -TTTTTTAC
1 TTTTTTTAC
103883364 TTTTTTT
1 TTTTTTT
103883371 CTTATAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:103883352 original size:17 final size:18
Alignment explanation
Indices: 103883329--103883370 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
103883319 GTTCTTATTT
103883329 TTTTTTTACTTTTTTTAC
1 TTTTTTTACTTTTTTTAC
*
103883347 TTTTTTAAC-TTTTTTAC
1 TTTTTTTACTTTTTTTAC
103883364 TTTTTTT
1 TTTTTTT
103883371 CTTATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTACTTTTTTTAC
Found at i:103883455 original size:36 final size:36
Alignment explanation
Indices: 103883386--103883459 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
103883376 AATTTGCCTC
*
103883386 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
103883423 TTTCTTA-ATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
103883459 T
1 T
103883460 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:103883464 original size:18 final size:17
Alignment explanation
Indices: 103883413--103883460 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
103883403 TTTTTTAAGT
*
103883413 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
103883431 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
103883449 TTTATATTATTA
1 TTTATATTATTA
103883461 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:103883511 original size:23 final size:22
Alignment explanation
Indices: 103883485--103883535 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
103883475 GTAATGTATA
103883485 TTTAAAATGTTTTATAATATT-TT
1 TTTAAAAT-TTTTA-AATATTATT
*
103883508 TTT-AAATTTTTAATTATTATT
1 TTTAAAATTTTTAAATATTATT
103883529 TTTAAAA
1 TTTAAAA
103883536 ATATTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.20
21 10 0.40
22 7 0.28
23 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTAAAATTTTTAAATATTATT
Found at i:103883530 original size:21 final size:20
Alignment explanation
Indices: 103883494--103883534 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
103883484 ATTTAAAATG
103883494 TTTTATAATATTTTTTTAAA
1 TTTTATAATATTTTTTTAAA
103883514 TTTT-TAATTATTATTTTTAAA
1 TTTTATAA-TATT-TTTTTAAA
103883535 AATATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 8 0.42
21 8 0.42
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTATAATATTTTTTTAAA
Found at i:103883537 original size:23 final size:24
Alignment explanation
Indices: 103883449--103883542 Score: 69
Period size: 22 Copynumber: 4.1 Consensus size: 24
103883439 ACTTATTTAA
* *
103883449 TTTATATTATTAATTTTAAAAAAT
1 TTTATATTATTATTTTTAAAATAT
*
103883473 TTGTA-ATGTA-TA--TTTAAAATGT
1 TT-TATAT-TATTATTTTTAAAATAT
*
103883495 TTTATAATATT-TTTTT-AAAT-T
1 TTTATATTATTATTTTTAAAATAT
103883516 TTTA-ATTATTATTTTTAAAAATAT
1 TTTATATTATTATTTTT-AAAATAT
103883540 TTT
1 TTT
103883543 TTAACTTTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
20 5 0.09
21 14 0.25
22 16 0.29
23 7 0.12
24 10 0.18
25 4 0.07
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (24 bp):
TTTATATTATTATTTTTAAAATAT
Found at i:103883627 original size:37 final size:37
Alignment explanation
Indices: 103883556--103883626 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
103883546 ACTTTATATA
*
103883556 TATTTTTGAAATTAATTATTTATAAATTTTAAAAATG
1 TATTTTTCAAATTAATTATTTATAAATTTTAAAAATG
*
103883593 TATTTTTCAAATTAATTTTTTA-AAATTTTAAAAA
1 TATTTTTCAAATTAATTATTTATAAATTTTAAAAA
103883627 AATAATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 12 0.38
37 20 0.62
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (37 bp):
TATTTTTCAAATTAATTATTTATAAATTTTAAAAATG
Found at i:103883972 original size:22 final size:23
Alignment explanation
Indices: 103883947--103883996 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
103883937 CTTATTATTA
* * *
103883947 ATTTTAAAAGTT-TGTAATGTAT
1 ATTTGAAAAGTTCTATAATATAT
*
103883969 ATTTGAAATGTTCTATAATATAT
1 ATTTGAAAAGTTCTATAATATAT
103883992 ATTTG
1 ATTTG
103883997 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (23 bp):
ATTTGAAAAGTTCTATAATATAT
Found at i:103884223 original size:28 final size:27
Alignment explanation
Indices: 103884182--103884263 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 27
103884172 TAAAAATAAA
* *
103884182 TAAAAATTATAAAT-TTCAAAATTCTATG
1 TAAAATTTAAAAATATTCAAAA-TC-ATG
* *
103884210 TAAAATTTAAAAATATTTAAAATCATT
1 TAAAATTTAAAAATATTCAAAATCATG
*
103884237 TAAAATATTAAAAAATATT-TAAATCAT
1 TAAAAT-TT-AAAAATATTCAAAATCAT
103884264 TTTAAATCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
27 8 0.17
28 23 0.50
29 15 0.33
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (27 bp):
TAAAATTTAAAAATATTCAAAATCATG
Found at i:103884229 original size:10 final size:10
Alignment explanation
Indices: 103884214--103884259 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
103884204 TCTATGTAAA
103884214 ATTTAAAAAT
1 ATTTAAAAAT
103884224 ATTT-AAAAT
1 ATTTAAAAAT
103884233 CATTT-AAAAT
1 -ATTTAAAAAT
*
103884243 ATTAAAAAAT
1 ATTTAAAAAT
103884253 ATTTAAA
1 ATTTAAA
103884260 TCATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (10 bp):
ATTTAAAAAT
Found at i:103884243 original size:19 final size:19
Alignment explanation
Indices: 103884214--103884280 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
103884204 TCTATGTAAA
103884214 ATTTAAAAATATTTAAAATC
1 ATTT-AAAATATTTAAAATC
*
103884234 ATTTAAAATATTAAAAAAT-
1 ATTTAAAATATT-TAAAATC
*
103884253 ATTT-AAATCATTTTAAATC
1 ATTTAAAAT-ATTTAAAATC
*
103884272 ATTTTAAAT
1 ATTTAAAAT
103884281 GTTTTATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 8 0.20
19 19 0.47
20 13 0.32
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTTAAAATATTTAAAATC
Found at i:103884250 original size:29 final size:26
Alignment explanation
Indices: 103884210--103884270 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 26
103884200 AAATTCTATG
103884210 TAAAATTTAAAAATATTTAAAATCATT
1 TAAAATTTAAAAATATTT-AAATCATT
103884237 TAAAATATTAAAAAATATTTAAATCATT
1 TAAAAT-TT-AAAAATATTTAAATCATT
*
103884265 TTAAAT
1 TAAAAT
103884271 CATTTTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 6 0.19
28 15 0.48
29 10 0.32
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (26 bp):
TAAAATTTAAAAATATTTAAATCATT
Found at i:103884267 original size:10 final size:10
Alignment explanation
Indices: 103884254--103884280 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
103884244 TTAAAAAATA
103884254 TTTAAATCAT
1 TTTAAATCAT
103884264 TTTAAATCAT
1 TTTAAATCAT
103884274 TTTAAAT
1 TTTAAAT
103884281 GTTTTATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTAAATCAT
Found at i:103884299 original size:19 final size:19
Alignment explanation
Indices: 103884287--103884323 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
103884277 AAATGTTTTA
103884287 TAATA-TTAAAAATATATT
1 TAATATTTAAAAATATATT
103884305 TAATATTTAAAAA-ATATT
1 TAATATTTAAAAATATATT
103884323 T
1 T
103884324 TGAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATATTTAAAAATATATT
Found at i:103884331 original size:13 final size:13
Alignment explanation
Indices: 103884313--103884337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103884303 TTTAATATTT
103884313 AAAAAATATTTTG
1 AAAAAATATTTTG
103884326 AAAAAATATTTT
1 AAAAAATATTTT
103884338 TAATATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AAAAAATATTTTG
Found at i:103886776 original size:26 final size:25
Alignment explanation
Indices: 103886743--103886793 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
103886733 TTTATTTCAT
*
103886743 TAAATAAAAAAATTTAAAAATATAA
1 TAAATAAAAAAATTTAAAAACATAA
* *
103886768 TAAATTAAATATATTTAAAAACATAA
1 TAAA-TAAAAAAATTTAAAAACATAA
103886794 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
TAAATAAAAAAATTTAAAAACATAA
Found at i:103886823 original size:21 final size:21
Alignment explanation
Indices: 103886774--103886832 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
103886764 ATAATAAATT
*
103886774 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
103886794 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
103886816 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
103886833 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:103886909 original size:15 final size:16
Alignment explanation
Indices: 103886879--103886911 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
103886869 AAATGGTTAT
103886879 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
103886896 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
103886911 A
1 A
103886912 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:103888450 original size:30 final size:30
Alignment explanation
Indices: 103888414--103888516 Score: 161
Period size: 30 Copynumber: 3.4 Consensus size: 30
103888404 CCTATATCCT
*
103888414 GGTGATATGAACTCAAACCACCCATGTCCG
1 GGTGATATGAACTCGAACCACCCATGTCCG
103888444 GGTGATATGAACTCGAACCACCCATGTCCG
1 GGTGATATGAACTCGAACCACCCATGTCCG
* * *
103888474 GATGATATGAACTCGAACCATCTATGTCCG
1 GGTGATATGAACTCGAACCACCCATGTCCG
*
103888504 GGTTATATGAACT
1 GGTGATATGAACT
103888517 GCTCTAGGAC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 67 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (30 bp):
GGTGATATGAACTCGAACCACCCATGTCCG
Found at i:103891556 original size:18 final size:18
Alignment explanation
Indices: 103891513--103891560 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
103891503 AATAAAAAAA
*
103891513 TATATTT-AATATATATT
1 TATATTTAAATTTATATT
*
103891530 T-T-TTAAAATTTATATT
1 TATATTTAAATTTATATT
103891546 TATATTTAAATTTAT
1 TATATTTAAATTTAT
103891561 TAATAGTCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 11 0.44
17 2 0.08
18 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTTAAATTTATATT
Found at i:103891693 original size:20 final size:21
Alignment explanation
Indices: 103891668--103891710 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
103891658 GTTAAAAAAG
103891668 AATTT-AAAAATAATATT-TAA
1 AATTTAAAAAAT-ATATTATAA
103891688 AATTTAAAAAATATATTATAA
1 AATTTAAAAAATATATTATAA
103891709 AA
1 AA
103891711 CATTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTTAAAAAATATATTATAA
Found at i:103891743 original size:23 final size:24
Alignment explanation
Indices: 103891690--103891743 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
103891680 ATATTTAAAA
* * *
103891690 TTTAAAAAATATATTATAAAACAT
1 TTTAAAATATACATTACAAAACAT
*
103891714 TTT-AAATATACATTACAAAA-TT
1 TTTAAAATATACATTACAAAACAT
103891736 TTTAAAAT
1 TTTAAAAT
103891744 TAATAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 4 0.16
23 18 0.72
24 3 0.12
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTAAAATATACATTACAAAACAT
Found at i:103891865 original size:27 final size:27
Alignment explanation
Indices: 103891835--103891897 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
103891825 TTTAAAAAAA
* * *
103891835 TATTTAAAATATTATGATTTCTTATAT-
1 TATTTAAAAAATTATAATTT-TTAAATG
103891862 TA-TTAAAAAATTATAATTTTTAAATG
1 TATTTAAAAAATTATAATTTTTAAATG
103891888 TATTTAAAAA
1 TATTTAAAAA
103891898 TTGTATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 5 0.16
26 17 0.55
27 9 0.29
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
TATTTAAAAAATTATAATTTTTAAATG
Found at i:103892065 original size:21 final size:21
Alignment explanation
Indices: 103892041--103892104 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
103892031 GTAAAAAAAG
103892041 AAAAATATATTTAATATTTAT
1 AAAAATATATTTAATATTTAT
*
103892062 -AAAATAATATTTAATATATTTTT
1 AAAAAT-ATATTT-A-ATATTTAT
*
103892085 AAAATTTATATTT-ATATTTA
1 AAAA-ATATATTTAATATTTA
103892105 AATTTATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
20 5 0.14
21 12 0.34
22 1 0.03
23 7 0.20
24 9 0.26
25 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAAAATATATTTAATATTTAT
Found at i:103892101 original size:23 final size:22
Alignment explanation
Indices: 103892041--103892101 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
103892031 GTAAAAAAAG
*
103892041 AAAAATATATTTA-ATATTTAT
1 AAAATTATATTTATATATTTAT
* *
103892062 AAAATAATATTTAATATATTTTT
1 AAAATTATATTT-ATATATTTAT
103892085 AAAATTTATATTTATAT
1 AAAA-TTATATTTATAT
103892102 TTAAATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.30
22 1 0.03
23 15 0.45
24 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAAATTATATTTATATATTTAT
Found at i:103892413 original size:23 final size:23
Alignment explanation
Indices: 103892362--103892430 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
103892352 TATAAAGTTA
* *
103892362 AAAAATATTTTTAAAAATAATAAT
1 AAAAATATTTTAAAAAAT-ATTAT
* *
103892386 TAAAATATTATAAAAAATATTAT
1 AAAAATATTTTAAAAAATATTAT
*
103892409 AAAAA-ATTTTAAATATATATTA
1 AAAAATATTTTAAA-AAATATTA
103892431 CAAATTTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 7 0.19
23 15 0.41
24 15 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAAATATTTTAAAAAATATTAT
Found at i:103892487 original size:36 final size:36
Alignment explanation
Indices: 103892447--103892519 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
103892437 TTTTAAAATT
103892447 AATAATAT-AAA-TTAAATAAGCAAAATAAAT-TAAGAA
1 AATAATATAAAACTTAAA-AAG-AAAA-AAATCTAAGAA
103892483 AATAATATAAAACTTAAAAAGAAAAAAATCTAAGAA
1 AATAATATAAAACTTAAAAAGAAAAAAATCTAAGAA
103892519 A
1 A
103892520 GAGACAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
35 4 0.12
36 19 0.56
37 6 0.18
38 5 0.15
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.22
Consensus pattern (36 bp):
AATAATATAAAACTTAAAAAGAAAAAAATCTAAGAA
Found at i:103892492 original size:18 final size:18
Alignment explanation
Indices: 103892442--103892493 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
103892432 AAATTTTTTA
*
103892442 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
103892460 AAATAAGCAAAATAAATT
1 AAATAAATAATATAAATT
103892478 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
103892494 ACTTAAAAAG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:103892549 original size:9 final size:9
Alignment explanation
Indices: 103892535--103892576 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
103892525 AAAATATAAG
103892535 AAAAAAAGT
1 AAAAAAAGT
103892544 AAAAAAA-T
1 AAAAAAAGT
103892552 AAAAAAAGT
1 AAAAAAAGT
103892561 AAAAAAAGT
1 AAAAAAAGT
103892570 AAAAAAA
1 AAAAAAA
103892577 ATATAAGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 8 0.25
9 24 0.75
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:103892557 original size:17 final size:18
Alignment explanation
Indices: 103892535--103892576 Score: 77
Period size: 17 Copynumber: 2.4 Consensus size: 18
103892525 AAAATATAAG
103892535 AAAAAAAGTAAAAAAA-T
1 AAAAAAAGTAAAAAAAGT
103892552 AAAAAAAGTAAAAAAAGT
1 AAAAAAAGTAAAAAAAGT
103892570 AAAAAAA
1 AAAAAAA
103892577 ATATAAGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (18 bp):
AAAAAAAGTAAAAAAAGT
Found at i:103916080 original size:20 final size:21
Alignment explanation
Indices: 103916057--103916100 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
103916047 ATCATATTAT
* *
103916057 ATATTAACATAACATA-TAAA
1 ATATAAACATAACAAATTAAA
*
103916077 ATATAAACCTAACAAATTAAA
1 ATATAAACATAACAAATTAAA
103916098 ATA
1 ATA
103916101 CTACAAGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (21 bp):
ATATAAACATAACAAATTAAA
Found at i:103916884 original size:30 final size:30
Alignment explanation
Indices: 103916840--103916902 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
103916830 ACTTAACAAG
* *
103916840 CAAATGCCTCTAAAATAATAGCAAAATTAA
1 CAAATGCCTCTAAAAAAATAACAAAATTAA
* *
103916870 CAAATGTCTTTAAAAAAATAACAAAATTAA
1 CAAATGCCTCTAAAAAAATAACAAAATTAA
103916900 CAA
1 CAA
103916903 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAAAAATAACAAAATTAA
Found at i:103918029 original size:19 final size:17
Alignment explanation
Indices: 103918001--103918041 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 17
103917991 GCCTCTCTAT
103918001 TTTTTCTTTTTTTTTCTC
1 TTTTTCTTTTTTTTTC-C
103918019 TTTTTCTTTTTTTTTTCC
1 TTTTTC-TTTTTTTTTCC
103918037 TTTTT
1 TTTTT
103918042 TTTGAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTCC
Found at i:103921244 original size:23 final size:23
Alignment explanation
Indices: 103921162--103921248 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
103921152 CCTGATCAGT
*
103921162 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
103921184 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
103921204 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
103921227 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
103921249 TCGATAAATC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:103921644 original size:15 final size:15
Alignment explanation
Indices: 103921619--103921676 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
103921609 TCATATATAT
103921619 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
103921635 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
103921650 AATAATTTCAATCAA
1 TATAAATTCAATCAA
103921665 TATAAATTCAAT
1 TATAAATTCAAT
103921677 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:103922964 original size:5 final size:5
Alignment explanation
Indices: 103922954--103922987 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
103922944 TTACTTATTT
*
103922954 ATATA ATATA ATATA ATAATA ATATC ATATA ATA
1 ATATA ATATA ATATA AT-ATA ATATA ATATA ATA
103922988 ACAATTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:103922977 original size:16 final size:16
Alignment explanation
Indices: 103922956--103922988 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
103922946 ACTTATTTAT
103922956 ATAATATAATATAATA
1 ATAATATAATATAATA
*
103922972 ATAATATCATATAATA
1 ATAATATAATATAATA
103922988 A
1 A
103922989 CAATTTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATATAATATAATA
Found at i:103923000 original size:16 final size:16
Alignment explanation
Indices: 103922958--103922992 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
103922948 TTATTTATAT
* *
103922958 AATATAATATAATAAT
1 AATATCATATAATAAC
103922974 AATATCATATAATAAC
1 AATATCATATAATAAC
103922990 AAT
1 AAT
103922993 TTCTTATATT
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:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
AATATCATATAATAAC
Found at i:103923321 original size:19 final size:22
Alignment explanation
Indices: 103923297--103923343 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
103923287 ATCCTTTCCA
103923297 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
103923316 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
103923337 CTAATTA
1 CTAATTA
103923344 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:103927762 original size:17 final size:17
Alignment explanation
Indices: 103927705--103927763 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 17
103927695 TACAATATAT
*
103927705 AATATATAATAA-AAAA
1 AATATATAAAAATAAAA
* *
103927721 AATTTATAAAAGGATAATA
1 AATATATAAAA--ATAAAA
*
103927740 ATTATATAAAAATAAAA
1 AATATATAAAAATAAAA
103927757 AATATAT
1 AATATAT
103927764 TGGTTTAGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
16 9 0.27
17 11 0.33
18 1 0.03
19 12 0.36
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
AATATATAAAAATAAAA
Found at i:103928800 original size:19 final size:19
Alignment explanation
Indices: 103928754--103928826 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
103928744 TTAAATCTCA
*
103928754 AAGATTACAAGATCATATCTT
1 AAGATTAC-ATATCATATC-T
103928775 CAAGATTACATATCATATCT
1 -AAGATTACATATCATATCT
*
103928795 AAGATTGCATATCATATCT
1 AAGATTACATATCATATCT
*
103928814 AAGATTGCATATC
1 AAGATTACATATC
103928827 CTTAAAGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
19 31 0.63
20 1 0.02
21 9 0.18
22 8 0.16
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (19 bp):
AAGATTACATATCATATCT
Found at i:103930265 original size:53 final size:52
Alignment explanation
Indices: 103930186--103930293 Score: 164
Period size: 53 Copynumber: 2.1 Consensus size: 52
103930176 TGACGGAAAA
* *
103930186 GATGTGATATATGATTCCGTATAAGACCATAGT-TGGGCTATGGCATCGGTGT
1 GATGTGATATATGATTCCGTATAAGACCATA-TCTGGGATATGGCATCGGTAT
*
103930238 GATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATATGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
103930291 GAT
1 GAT
103930294 ATGTGATCCG
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
52 9 0.18
53 42 0.82
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (52 bp):
GATGTGATATATGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
Found at i:103937213 original size:30 final size:30
Alignment explanation
Indices: 103937159--103937247 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
103937149 TGAATATACG
* * *
103937159 TATTATATATTTTATAATTATTCATATTGT
1 TATTATATATTATATATTTTTTCATATTGT
* * *
103937189 TATTATCTATTATATATTTTTTCATGTATAT
1 TATTATATATTATATATTTTTTCATAT-TGT
*
103937220 TATTATGTA-TAT-TATTATTTTCATATTG
1 TATTATATATTATATATT-TTTTCATATTG
103937248 AATTGATAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 5 0.10
30 33 0.69
31 10 0.21
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (30 bp):
TATTATATATTATATATTTTTTCATATTGT
Found at i:103937229 original size:12 final size:12
Alignment explanation
Indices: 103937212--103937237 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
103937202 ATATTTTTTC
103937212 ATGTATATTATT
1 ATGTATATTATT
103937224 ATGTATATTATT
1 ATGTATATTATT
103937236 AT
1 AT
103937238 TTTCATATTG
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:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (12 bp):
ATGTATATTATT
Found at i:103949715 original size:206 final size:204
Alignment explanation
Indices: 103949175--103949757 Score: 866
Period size: 204 Copynumber: 2.8 Consensus size: 204
103949165 TAGGCCGCAG
** * * *
103949175 CATAGCAGATCTGGCCTTCAGATGTTTATACTAAAGAAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATATTTACACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
* * *
103949240 CTTACAAGGAGCGAATCGAAGACATAGTTGATTTGGCTTACACGTGTTTACGATGAAGTAAATCT
66 CTTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTT-CACGTGTTTACGATGAAGCAAATCT
103949305 AAGATGATTTGGCATCTC-GTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGG
130 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGG
103949369 GGAGCAGATA
195 GGAGCAGATA
* * * *
103949379 CATAGTAGATCTCACCTTCAGATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATATTTACACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
*
103949444 CTTACAA-GAAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
66 CTTACAAGGAA-CGAATCGAAGACATAGCTGATTTGGC-TTCACGTGTTTACGATGAAGCAAATC
* * * *
103949508 TAAGATGATTTGGCGTCTCTATATTGTCAGAGAACAAATCGAAGTCTGGTATCTCCACTTCGACG
129 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACG
103949573 GGGAGCAGATA
194 GGGAGCAGATA
* *
103949584 CATAGCAGATCTCACCTTTAGATAATTT-CACTGAAGCAAGATCCAAGATGATTTGGCATTCTTG
1 CATAGCAGATCTCACCTTCAGAT-ATTTACACTGAAG-AAGATCCAAGATGATTTGGCATCCTTG
** * *
103949648 TGCTTACAAGGAATAAATTGAAGACATAGCTGATTTGGCATTCACGTGCTTACGATGAAGCAAAT
64 TGCTTACAAGGAACGAATCGAAGACATAGCTGATTTGGC-TTCACGTGTTTACGATGAAGCAAAT
* *
103949713 CTAAGATGATTTGGCATCTCTGTATTATCAGAGAATAAATCGAAG
128 CTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
103949758 AAGCAGATTT
Statistics
Matches: 344, Mismatches: 29, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
203 2 0.01
204 132 0.38
205 83 0.24
206 124 0.36
207 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (204 bp):
CATAGCAGATCTCACCTTCAGATATTTACACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTCACGTGTTTACGATGAAGCAAATCTA
AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGGG
GAGCAGATA
Found at i:103951477 original size:30 final size:30
Alignment explanation
Indices: 103951423--103951511 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
103951413 TGAATATACG
* * *
103951423 TATTATATATTTTATAATTATTCATATTGT
1 TATTATATATTATATATTTTTTCATATTGT
* * *
103951453 TATTATCTATTATATATTTTTTCATGTATAT
1 TATTATATATTATATATTTTTTCATAT-TGT
*
103951484 TATTATGTA-TAT-TATTATTTTCATATTG
1 TATTATATATTATATATT-TTTTCATATTG
103951512 AATTGATAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 5 0.10
30 33 0.69
31 10 0.21
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (30 bp):
TATTATATATTATATATTTTTTCATATTGT
Found at i:103951493 original size:12 final size:12
Alignment explanation
Indices: 103951476--103951501 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
103951466 ATATTTTTTC
103951476 ATGTATATTATT
1 ATGTATATTATT
103951488 ATGTATATTATT
1 ATGTATATTATT
103951500 AT
1 AT
103951502 TTTCATATTG
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:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (12 bp):
ATGTATATTATT
Found at i:103953403 original size:45 final size:45
Alignment explanation
Indices: 103953339--103953442 Score: 172
Period size: 45 Copynumber: 2.3 Consensus size: 45
103953329 GTAGCAGTAG
** * *
103953339 CAGTAACAATAACAATATTCAACACACAAAGTGTTGAATCTGTAA
1 CAGTAACGGTAACAATATTCAACACACAAAGTGTCGAATCGGTAA
103953384 CAGTAACGGTAACAATATTCAACACACAAAGTGTCGAATCGGTAA
1 CAGTAACGGTAACAATATTCAACACACAAAGTGTCGAATCGGTAA
103953429 CAGTAACGGTAACA
1 CAGTAACGGTAACA
103953443 GTAACAGTAG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.21
Consensus pattern (45 bp):
CAGTAACGGTAACAATATTCAACACACAAAGTGTCGAATCGGTAA
Found at i:103953435 original size:51 final size:50
Alignment explanation
Indices: 103953327--103953448 Score: 146
Period size: 45 Copynumber: 2.5 Consensus size: 50
103953317 TAATCAGTAA
* * *
103953327 CGGTAGCAGTAGCAGTAACAATAACAATATTCAACACACAAAGTGTTGAAT
1 CGGTA-CAGTAACAGTAACAGTAACAATATTCAACACACAAAGTGTCGAAT
*
103953378 C--T---GTAACAGTAACGGTAACAATATTCAACACACAAAGTGTCGAAT
1 CGGTACAGTAACAGTAACAGTAACAATATTCAACACACAAAGTGTCGAAT
*
103953423 CGGTAACAGTAACGGTAACAGTAACA
1 CGGT-ACAGTAACAGTAACAGTAACA
103953449 GTAGTTGGCA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
45 40 0.68
47 1 0.02
49 1 0.02
51 17 0.29
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (50 bp):
CGGTACAGTAACAGTAACAGTAACAATATTCAACACACAAAGTGTCGAAT
Found at i:103953440 original size:12 final size:12
Alignment explanation
Indices: 103953423--103953447 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103953413 AGTGTCGAAT
103953423 CGGTAACAGTAA
1 CGGTAACAGTAA
103953435 CGGTAACAGTAA
1 CGGTAACAGTAA
103953447 C
1 C
103953448 AGTAGTTGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:103960609 original size:45 final size:45
Alignment explanation
Indices: 103960559--103960664 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
103960549 TAGCAGTAGA
* *
103960559 AGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAAC
1 AGTAACGGTAACAGTATTCAACACACAAAGTGTC-GAATCGGTAAC
* *
103960604 AGTAACGGTAACAATATTTAACACACAAAGTGTCGAATCGGTAAC
1 AGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAAC
103960649 AGTAACGGTAACAGTA
1 AGTAACGGTAACAGTA
103960665 ACAGTAGTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (45 bp):
AGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAAC
Found at i:103960659 original size:12 final size:12
Alignment explanation
Indices: 103960642--103960666 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103960632 AGTGTCGAAT
103960642 CGGTAACAGTAA
1 CGGTAACAGTAA
103960654 CGGTAACAGTAA
1 CGGTAACAGTAA
103960666 C
1 C
103960667 AGTAGTTGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:103968401 original size:26 final size:26
Alignment explanation
Indices: 103968372--103968479 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
103968362 TGAAATGCCC
*
103968372 ATCATGGAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAAACCATT
*
103968398 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
103968424 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
103968450 ATCATGGAGCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
103968476 ATCA
1 ATCA
103968480 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:103968450 original size:52 final size:52
Alignment explanation
Indices: 103968372--103968479 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 52
103968362 TGAAATGCCC
103968372 ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
* *
103968424 ATCATGGAATATTTACCT-AATCCATTATCATGGAGCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAAT-CATTATCATGGAACATTTACCTAACCCATT
103968476 ATCA
1 ATCA
103968480 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
51 3 0.06
52 50 0.94
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
Found at i:103970776 original size:43 final size:43
Alignment explanation
Indices: 103970719--103970946 Score: 246
Period size: 43 Copynumber: 5.3 Consensus size: 43
103970709 GAAAAAAATA
* * *
103970719 CCGCTAAAGGTCATGATCTTTAGCGGCGCTTTTCCCTA-AAATG
1 CCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC-ACAAACG
* * * *
103970762 CTGCTAAAGATCATGACCTTTAGCGGTGC-TTTCCCAAAAATG
1 CCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACG
** *
103970804 CCATTAAAGATCATGACCTTTAGCGGCGCTTTTACCACAAACG
1 CCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACG
* * * **
103970847 CCACTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAACG
1 CCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACG
* *
103970890 CCGCTAAA-ATACATGACTTTTAGCGGCGCTTTTCTCACAAACG
1 CCGCTAAAGAT-CATGACCTTTAGCGGCGCTTTTCCCACAAACG
* *
103970933 CCACTAAAAATCAT
1 CCGCTAAAGATCAT
103970947 AATTTTTTAA
Statistics
Matches: 160, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.01
42 37 0.23
43 120 0.75
44 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
CCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACG
Found at i:103970855 original size:85 final size:85
Alignment explanation
Indices: 103970722--103970946 Score: 240
Period size: 85 Copynumber: 2.6 Consensus size: 85
103970712 AAAAATACCG
* * * **
103970722 CTAAAGGTCATGATCTTTAGCGGCGCTTTTCC-CTAAAATGCTGCTAAAGATCATGACCTTTAGC
1 CTAAAGATCATGACCTTTAGCGGCGCTTTTCCAC--AAACGCCACTAAAGATCATGACCTTTAGC
** * *
103970786 GGTGC-TTTCCCAAAAATGCCA
64 GACGCTTTTACCAAAAACGCCA
* *
103970807 TTAAAGATCATGACCTTTAGCGGCGCTTTTACCACAAACGCCACTAAAGAACATGACCTTTAGCG
1 CTAAAGATCATGACCTTTAGCGGCGCTTTT-CCACAAACGCCACTAAAGATCATGACCTTTAGCG
* * *
103970872 ACGCTTTTATCACAAACGCCG
65 ACGCTTTTACCAAAAACGCCA
* *
103970893 CTAAA-ATACATGACTTTTAGCGGCGCTTTTCTCACAAACGCCACTAAAAATCAT
1 CTAAAGAT-CATGACCTTTAGCGGCGCTTTTC-CACAAACGCCACTAAAGATCAT
103970947 AATTTTTTAA
Statistics
Matches: 117, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
85 58 0.50
86 58 0.50
87 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (85 bp):
CTAAAGATCATGACCTTTAGCGGCGCTTTTCCACAAACGCCACTAAAGATCATGACCTTTAGCGA
CGCTTTTACCAAAAACGCCA
Found at i:103970980 original size:19 final size:22
Alignment explanation
Indices: 103970965--103971012 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
103970955 AAAAAATTAT
103970965 TTTATTT-TA-ATTAAATAATA
1 TTTATTTCTATATTAAATAATA
*
103970985 TTTATTTCTATATTAAATATTA
1 TTTATTTCTATATTAAATAATA
103971007 TATTAT
1 T-TTAT
103971013 GTTTAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 2 0.08
22 11 0.46
23 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATTTCTATATTAAATAATA
Found at i:103972482 original size:15 final size:16
Alignment explanation
Indices: 103972456--103972486 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
103972446 TCTCTCTTAC
103972456 TTTTAGATCATATATA
1 TTTTAGATCATATATA
103972472 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
103972487 AGACAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:103974998 original size:3 final size:3
Alignment explanation
Indices: 103974990--103975036 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
103974980 ACAAAAAGAA
103974990 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
103975037 CAAAGCTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:103975717 original size:72 final size:72
Alignment explanation
Indices: 103975594--103975727 Score: 198
Period size: 72 Copynumber: 1.9 Consensus size: 72
103975584 TTCGGGTATA
* * * *
103975594 AAATAGAAGAATAGGTTGAGAAAGGCTGAGAAAGAAAAGGGAATTGGGAAAGAAAAGGGAATCGA
1 AAATAGAAGAACAGGCTGAGAAAGGCTGAGAAAGAAAAGGGAATCGAGAAAGAAAAGGGAATCGA
103975659 GAGAGAG
66 GAGAGAG
* *
103975666 AAATAGAAGTACAGGCTGAGAATGGCTGAGAAAG-AAAGTGGAATCGAGAAAGAAAAGGGAAT
1 AAATAGAAGAACAGGCTGAGAAAGGCTGAGAAAGAAAAG-GGAATCGAGAAAGAAAAGGGAAT
103975728 TGGGGGAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 4 0.07
72 51 0.93
ACGTcount: A:0.49, C:0.04, G:0.34, T:0.12
Consensus pattern (72 bp):
AAATAGAAGAACAGGCTGAGAAAGGCTGAGAAAGAAAAGGGAATCGAGAAAGAAAAGGGAATCGA
GAGAGAG
Found at i:103976333 original size:14 final size:14
Alignment explanation
Indices: 103976316--103976354 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
103976306 ATACAACATA
103976316 AACCCTAAACCCAT
1 AACCCTAAACCCAT
* *
103976330 AACCCTTAACCCTT
1 AACCCTAAACCCAT
103976344 AACACCTAAAC
1 AAC-CCTAAAC
103976355 GTTAAATCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (14 bp):
AACCCTAAACCCAT
Found at i:103976381 original size:28 final size:28
Alignment explanation
Indices: 103976336--103976408 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
103976326 CCATAACCCT
103976336 TAACCCTTAACACC-TAAA-CGTTAAATCC
1 TAACCCTTAAC-CCATAAATCG-TAAATCC
*
103976364 TAACCCTTAACCCATAAATCGTAATTCC
1 TAACCCTTAACCCATAAATCGTAAATCC
* * *
103976392 AAACCCATAATCCATAA
1 TAACCCTTAACCCATAA
103976409 TACATAAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 2 0.05
28 35 0.90
29 2 0.05
ACGTcount: A:0.41, C:0.32, G:0.03, T:0.25
Consensus pattern (28 bp):
TAACCCTTAACCCATAAATCGTAAATCC
Found at i:103976452 original size:14 final size:14
Alignment explanation
Indices: 103976433--103976486 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
103976423 AATAGTAACT
*
103976433 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
*
103976447 CCTAAACCATATAC
1 CCTAAACCATAAAC
* *
103976461 CCTAAGCCATAAAT
1 CCTAAACCATAAAC
*
103976475 CCTAAACTATAA
1 CCTAAACCATAA
103976487 TGATAATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.44, C:0.31, G:0.02, T:0.22
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:103976989 original size:40 final size:40
Alignment explanation
Indices: 103976924--103977088 Score: 195
Period size: 40 Copynumber: 4.1 Consensus size: 40
103976914 TTTTATGGCA
* * * * *
103976924 TTTTTTAAAAAGCGCCGTTATTGGTCGACCTATAGCAGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCG
* * * *
103976964 TTTTTCAAAAAGCGACGCTAATGGTCGACTTATAGCGGCC
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCG
* * * * *
103977004 TTTTTGAAAAAGCGCCGTTAATGCTTGATCTATAGCGACG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCG
*
103977044 TTTTTCAAAAAGTGCCGCTAATGCTCGACCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCG
103977084 TTTTT
1 TTTTT
103977089 TATCCAAACG
Statistics
Matches: 103, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCG
Found at i:103977063 original size:80 final size:80
Alignment explanation
Indices: 103976924--103977088 Score: 224
Period size: 80 Copynumber: 2.1 Consensus size: 80
103976914 TTTTATGGCA
* * * *
103976924 TTTTTTAAAAAGCGCCGTTATTGGTCGACCTATAGCAGCGTTTTTCAAAAAGCGACGCTAATGGT
1 TTTTTGAAAAAGCGCCGTTAATGCTCGACCTATAGCAGCGTTTTTCAAAAAGCGACGCTAATGCT
*
103976989 CGACTTATAGCGGCC
66 CGACCTATAGCGGCC
* * * *
103977004 TTTTTGAAAAAGCGCCGTTAATGCTTGATCTATAGC-GACGTTTTTCAAAAAGTGCCGCTAATGC
1 TTTTTGAAAAAGCGCCGTTAATGCTCGACCTATAGCAG-CGTTTTTCAAAAAGCGACGCTAATGC
*
103977068 TCGACCTATAGCGGCG
65 TCGACCTATAGCGGCC
103977084 TTTTT
1 TTTTT
103977089 TATCCAAACG
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
79 1 0.01
80 73 0.99
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (80 bp):
TTTTTGAAAAAGCGCCGTTAATGCTCGACCTATAGCAGCGTTTTTCAAAAAGCGACGCTAATGCT
CGACCTATAGCGGCC
Found at i:103984145 original size:15 final size:16
Alignment explanation
Indices: 103984115--103984153 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
103984105 GGCAATTTTG
103984115 TAAA-TAAATGTAAGT
1 TAAATTAAATGTAAGT
*
103984130 TTAATTAAAT-TAAGT
1 TAAATTAAATGTAAGT
103984145 TAAATTAAA
1 TAAATTAAA
103984154 GAATGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (16 bp):
TAAATTAAATGTAAGT
Found at i:103986510 original size:43 final size:43
Alignment explanation
Indices: 103986463--103986569 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
103986453 TCAACGCTAC
* * * *
103986463 TGTCCCAAACAGGGTCTTACACGAAATC-GATTAACAATGCCAA
1 TGTCCCAGACATGGTCTTACACGAAATCTCAAT-ACAATGCCAA
* *
103986506 TGTCCCAGACATGGTCTTACACGTAATCTCAATACAATGTCAA
1 TGTCCCAGACATGGTCTTACACGAAATCTCAATACAATGCCAA
103986549 TGTCCCAGACATGGTCTTACA
1 TGTCCCAGACATGGTCTTACA
103986570 TGTAATCACA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 55 0.96
44 2 0.04
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGAAATCTCAATACAATGCCAA
Found at i:103988086 original size:21 final size:21
Alignment explanation
Indices: 103988060--103988123 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
103988050 ATTGGGTGAA
*
103988060 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTTTTACGAGCTTCTGT
103988081 TCAGCTTTTACGAGCTTCTGT
1 TCAGCTTTTACGAGCTTCTGT
*
103988102 TCAGCTTTTATGAGCTTCTGT
1 TCAGCTTTTACGAGCTTCTGT
103988123 T
1 T
103988124 GGCTTATTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (21 bp):
TCAGCTTTTACGAGCTTCTGT
Found at i:103994811 original size:25 final size:27
Alignment explanation
Indices: 103994750--103994813 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 27
103994740 AGTTACTTAA
*
103994750 TTTAGAAAATATTAAATTAATTTATTT
1 TTTAGAAAATATGAAATTAATTTATTT
*
103994777 TATTAAAAAAT-TGAAA-TAA-TTATTAT
1 T-TTAGAAAATATGAAATTAATTTATT-T
103994803 TTTAGAAAATA
1 TTTAGAAAATA
103994814 ATATATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 13 0.42
26 5 0.16
27 5 0.16
28 8 0.26
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (27 bp):
TTTAGAAAATATGAAATTAATTTATTT
Found at i:103994811 original size:26 final size:27
Alignment explanation
Indices: 103994750--103994813 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
103994740 AGTTACTTAA
103994750 TTTAGAAAATATTAAATTAATTTATTT
1 TTTAGAAAATATTAAATTAATTTATTT
103994777 TATTA-AAAA-ATTGAAA-TAA-TTATTAT
1 T-TTAGAAAATATT-AAATTAATTTATT-T
103994803 TTTAGAAAATA
1 TTTAGAAAATA
103994814 ATATATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
25 8 0.25
26 12 0.38
27 9 0.28
28 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (27 bp):
TTTAGAAAATATTAAATTAATTTATTT
Found at i:103995603 original size:3 final size:3
Alignment explanation
Indices: 103995595--103995620 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
103995585 TTACATCCAA
103995595 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
103995621 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Done.