Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 170 of 378
Found at i:49418714 original size:3 final size:3
Alignment explanation
Indices: 49418706--49418768 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
49418696 AATTGTTTCT
49418706 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49418754 TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA T
49418769 CATTGAGTCT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:49421252 original size:17 final size:17
Alignment explanation
Indices: 49421207--49421253 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
49421197 AATGAAGTAA
49421207 AATTTAGATTAA-TTTGT
1 AATTTA-ATTAATTTTGT
*
49421224 AATAT-ATGTAATTTTGT
1 AATTTAAT-TAATTTTGT
49421241 AATTTAATTAATT
1 AATTTAATTAATT
49421254 AAAATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 2 0.08
16 3 0.12
17 18 0.72
18 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (17 bp):
AATTTAATTAATTTTGT
Found at i:49427521 original size:22 final size:22
Alignment explanation
Indices: 49427492--49427539 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
49427482 AAATGAGAGA
49427492 TAAG-AAAGGTCAAAACCCAAC
1 TAAGTAAAGGTCAAAACCCAAC
49427513 TAAGTAAAGGTCAAAACCCAAC
1 TAAGTAAAGGTCAAAACCCAAC
49427535 TAAGT
1 TAAGT
49427540 GAAGAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.50, C:0.21, G:0.15, T:0.15
Consensus pattern (22 bp):
TAAGTAAAGGTCAAAACCCAAC
Found at i:49428588 original size:18 final size:16
Alignment explanation
Indices: 49428565--49428602 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
49428555 ATCCTTATTT
49428565 AAATAAAATAAAGTAGTA
1 AAATAAAATAAA--AGTA
49428583 AAATAAAATAAAAGTA
1 AAATAAAATAAAAGTA
49428599 AAAT
1 AAAT
49428603 CCATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
18 12 0.60
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (16 bp):
AAATAAAATAAAAGTA
Found at i:49428762 original size:41 final size:41
Alignment explanation
Indices: 49428712--49428794 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
49428702 ATCTTACTAC
49428712 ACCCTATTAGAATATGATTTTACAAGCCTATAAATAGACAT
1 ACCCTATTAGAATATGATTTTACAAGCCTATAAATAGACAT
49428753 ACCCTATTAGAATATGATTTTACAAGCCTATAAATAGACAT
1 ACCCTATTAGAATATGATTTTACAAGCCTATAAATAGACAT
49428794 A
1 A
49428795 GTCTACTCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (41 bp):
ACCCTATTAGAATATGATTTTACAAGCCTATAAATAGACAT
Found at i:49430779 original size:18 final size:19
Alignment explanation
Indices: 49430756--49430795 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
49430746 GATTGCTTGT
49430756 TTAAATGAATT-GTTTTA-A
1 TTAAATG-ATTAGTTTTAGA
49430774 TTAAATGATTAGTTTTAGA
1 TTAAATGATTAGTTTTAGA
49430793 TTA
1 TTA
49430796 TTGAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.15
18 13 0.65
19 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (19 bp):
TTAAATGATTAGTTTTAGA
Found at i:49431443 original size:14 final size:14
Alignment explanation
Indices: 49431424--49431454 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
49431414 ACATTTACTG
49431424 ACCTAATTAGAATA
1 ACCTAATTAGAATA
49431438 ACCTAATTAGAATA
1 ACCTAATTAGAATA
49431452 ACC
1 ACC
49431455 AAATGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.26
Consensus pattern (14 bp):
ACCTAATTAGAATA
Found at i:49433159 original size:46 final size:44
Alignment explanation
Indices: 49433014--49433228 Score: 157
Period size: 46 Copynumber: 4.7 Consensus size: 44
49433004 TGTGTGAGCT
* * *
49433014 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATTATGAGATCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCATCA-AATGTG--CC
* * * * * * *
49433060 AGTATAAGACCATATCTGGGACATGGTATCGA-CATTGAGACGAGCGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCA-TCAAATGTGC-C
* *
49433107 TAGTGTAAGACATGTCTGAGACATGCATTGACC-TCAAGATGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGACCATCAA-ATGT--GCC
* * *
49433154 AGTGTAAGACATGTCTGGGACATGCATCGGCCATGAAATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCATCAAATGTGCC
49433198 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
49433229 GCACCTTACC
Statistics
Matches: 135, Mismatches: 21, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 55 0.41
47 33 0.24
48 19 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCATCAAATGTGCC
Found at i:49436477 original size:47 final size:49
Alignment explanation
Indices: 49436385--49436478 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 49
49436375 ATCCATGATA
* * * *
49436385 AATGGATGTCCATAACCCCCTCAAATTTATCCTATTGTAATCCCTAAAG
1 AATGAATGTCCATAACCCCCTCAAATTCATCATATTGTAACCCCTAAAG
*
49436434 AATGAATGTCCATAA-CCCCT-AAATTCATTATATTGTAACCCCTAA
1 AATGAATGTCCATAACCCCCTCAAATTCATCATATTGTAACCCCTAA
49436479 GTCATTTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 21 0.52
48 5 0.12
49 14 0.35
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.31
Consensus pattern (49 bp):
AATGAATGTCCATAACCCCCTCAAATTCATCATATTGTAACCCCTAAAG
Found at i:49441324 original size:3 final size:3
Alignment explanation
Indices: 49441316--49441348 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
49441306 ACCTTTCATG
49441316 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49441349 AGAAAACCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:49453242 original size:15 final size:15
Alignment explanation
Indices: 49453224--49453257 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
49453214 ATTCCTTGTA
49453224 AAATGAAATTTGAAT
1 AAATGAAATTTGAAT
* *
49453239 AAATTAAATTTTAAT
1 AAATGAAATTTGAAT
49453254 AAAT
1 AAAT
49453258 ACTCTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
AAATGAAATTTGAAT
Found at i:49454517 original size:19 final size:20
Alignment explanation
Indices: 49454489--49454534 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
49454479 ATATCCTACC
*
49454489 TTTAAATTAAT-ACATTTCT
1 TTTAAATTAATAACATTTAT
*
49454508 TTTAATTTAATAAACATTTAT
1 TTTAAATTAAT-AACATTTAT
49454529 TTTAAA
1 TTTAAA
49454535 ATAGTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 10 0.45
21 12 0.55
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTAAATTAATAACATTTAT
Found at i:49454542 original size:21 final size:21
Alignment explanation
Indices: 49454500--49454542 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
49454490 TTAAATTAAT
* **
49454500 ACATTTCTTTTAATTTAATAA
1 ACATTTATTTTAAAATAATAA
*
49454521 ACATTTATTTTAAAATAGTAA
1 ACATTTATTTTAAAATAATAA
49454542 A
1 A
49454543 TAATTAATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (21 bp):
ACATTTATTTTAAAATAATAA
Found at i:49455296 original size:53 final size:52
Alignment explanation
Indices: 49455232--49455333 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 52
49455222 ATTTTAAAAA
* * *
49455232 TTTATATAAAATTTAACATTTTTAAA-TAATGTTAAAATAATTTTAAAATAAAC
1 TTTATACAAAATTTAAAAGTTTTAAATTAATGTTAAAA-AA-TTTAAAATAAAC
* *
49455285 TTTATACAAAATTTAAAAGTTTTAAATTATTTTTAAAAAATTTAAAATA
1 TTTATACAAAATTTAAAAGTTTTAAATTAATGTTAAAAAATTTAAAATA
49455334 TATATTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
52 9 0.21
53 25 0.58
54 9 0.21
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (52 bp):
TTTATACAAAATTTAAAAGTTTTAAATTAATGTTAAAAAATTTAAAATAAAC
Found at i:49455332 original size:21 final size:21
Alignment explanation
Indices: 49455296--49455364 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 21
49455286 TTATACAAAA
**
49455296 TTTAAAAGTTTTAAAT-TATT
1 TTTAAAAAATTTAAATATATT
*
49455316 TTTAAAAAATTTAAAATATATA
1 TTTAAAAAATTT-AAATATATT
* *
49455338 TTT-AAATATTTAAATATACT
1 TTTAAAAAATTTAAATATATT
49455358 TTTAAAA
1 TTTAAAA
49455365 TATATTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 20 0.50
21 14 0.35
22 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (21 bp):
TTTAAAAAATTTAAATATATT
Found at i:49455361 original size:12 final size:11
Alignment explanation
Indices: 49455304--49455374 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
49455294 AATTTAAAAG
49455304 TTTTAAAT-TA
1 TTTTAAATATA
*
49455314 TTTTTAAA-AAA
1 -TTTTAAATATA
*
49455325 TTTAAAATATA
1 TTTTAAATATA
49455336 TATTT-AA-ATA
1 T-TTTAAATATA
49455346 -TTTAAATATA
1 TTTTAAATATA
49455356 CTTTTAAAATATA
1 -TTTT-AAATATA
49455369 TTTTAA
1 TTTTAA
49455375 TGTTGTTTAC
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
8 3 0.06
9 2 0.04
10 12 0.25
11 15 0.31
12 9 0.19
13 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTTAAATATA
Found at i:49457051 original size:16 final size:16
Alignment explanation
Indices: 49457005--49457051 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
49456995 AATTAAATAC
49457005 TAAATGATAAATACAAA
1 TAAATGATAAATA-AAA
*
49457022 TAAA-GATAATTAAAGA
1 TAAATGATAAATAAA-A
49457038 TAAATGA-AAATAAA
1 TAAATGATAAATAAA
49457052 TCCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
TAAATGATAAATAAAA
Found at i:49458765 original size:21 final size:21
Alignment explanation
Indices: 49458739--49458803 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
49458729 AATAATTAAG
* *
49458739 TAATAAATCATTAAGATAAAA
1 TAATAAATAATTAAAATAAAA
49458760 TAATAAATAATTAAAATAAAA
1 TAATAAATAATTAAAATAAAA
** *
49458781 TAATAAGGAA-AAAAATAAAA
1 TAATAAATAATTAAAATAAAA
49458801 TAA
1 TAA
49458804 AGAGAAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 12 0.31
21 27 0.69
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (21 bp):
TAATAAATAATTAAAATAAAA
Found at i:49458815 original size:20 final size:21
Alignment explanation
Indices: 49458754--49458815 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
49458744 AATCATTAAG
** *
49458754 ATAAAATAATAAATAATTAAA
1 ATAAAATAATAAGGAAATAAA
49458775 ATAAAATAATAAGGAAA-AAA
1 ATAAAATAATAAGGAAATAAA
49458795 ATAAAAT-A-AAGAGAAATAAA
1 ATAAAATAATAAG-GAAATAAA
49458815 A
1 A
49458816 ATTGGGTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 3 0.08
19 5 0.14
20 14 0.39
21 14 0.39
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (21 bp):
ATAAAATAATAAGGAAATAAA
Found at i:49462525 original size:16 final size:16
Alignment explanation
Indices: 49462479--49462525 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
49462469 AATCAAATAC
49462479 TAAATGATAAATACAAA
1 TAAATGATAAATA-AAA
*
49462496 TAAA-GATAATTAAAGA
1 TAAATGATAAATAAA-A
49462512 TAAATGA-AAATAAA
1 TAAATGATAAATAAA
49462526 TCCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
TAAATGATAAATAAAA
Found at i:49464294 original size:21 final size:21
Alignment explanation
Indices: 49464261--49464309 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
49464251 AATAATTAAG
* *
49464261 TAATAAATCATTAAGATAAAA
1 TAATAAATAATTAAAATAAAA
*
49464282 TAGTAAATAATTAAAATAAAA
1 TAATAAATAATTAAAATAAAA
49464303 TAATAAA
1 TAATAAA
49464310 GGCAAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (21 bp):
TAATAAATAATTAAAATAAAA
Found at i:49467297 original size:17 final size:18
Alignment explanation
Indices: 49467277--49467310 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49467267 AAGTGAATTG
49467277 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
49467294 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
49467311 ATGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:49468049 original size:26 final size:26
Alignment explanation
Indices: 49468020--49468072 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
49468010 ATTCCTAATT
49468020 AAATA-CTAAATGATAAAT-ACAAATAA
1 AAATAGCTAAA-GATAAATGA-AAATAA
*
49468046 AAATAGTTAAAGATAAATGAAAATAA
1 AAATAGCTAAAGATAAATGAAAATAA
49468072 A
1 A
49468073 TCCTAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.23
Consensus pattern (26 bp):
AAATAGCTAAAGATAAATGAAAATAA
Found at i:49471221 original size:28 final size:28
Alignment explanation
Indices: 49471181--49471237 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
49471171 TAATGTGTTA
49471181 TAGAAGGTTTTGATGGAGAAAACGACAT
1 TAGAAGGTTTTGATGGAGAAAACGACAT
49471209 TAGAAGGTTTTGATGGAGAAAACGACAT
1 TAGAAGGTTTTGATGGAGAAAACGACAT
49471237 T
1 T
49471238 CACATATGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.28, T:0.26
Consensus pattern (28 bp):
TAGAAGGTTTTGATGGAGAAAACGACAT
Found at i:49473436 original size:61 final size:60
Alignment explanation
Indices: 49473371--49473530 Score: 202
Period size: 61 Copynumber: 2.6 Consensus size: 60
49473361 TTTTAATAAG
* *
49473371 ATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATCATA-TTTTCACATA
1 ATTATTATTAAATATAATTTAATAAAAAT--AAATAAATAATTTAATAATATTTTTAACATA
* *
49473432 ATTATTATTAAATATAATTTAAT-AAAAT-AATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAAATAAATAATTTAATAATATTTTTAACATA
*
49473490 ATTATTATTAAAATATGAA-TTAATAAAAATATAATATATAA
1 ATTATTATT-AAATAT-AATTTAATAAAAATA-AATAAATAA
49473531 AATTAGAAAA
Statistics
Matches: 89, Mismatches: 4, Indels: 11
0.86 0.04 0.11
Matches are distributed among these distances:
57 17 0.19
58 17 0.19
59 11 0.12
60 12 0.13
61 23 0.26
62 9 0.10
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (60 bp):
ATTATTATTAAATATAATTTAATAAAAATAAATAAATAATTTAATAATATTTTTAACATA
Found at i:49477310 original size:19 final size:19
Alignment explanation
Indices: 49477288--49477333 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
49477278 TAGAATATAG
*
49477288 AATAAAATAAATTTTAAAT
1 AATAAAATAAAATTTAAAT
* *
49477307 AATAGAACAAAATTTAAAT
1 AATAAAATAAAATTTAAAT
*
49477326 AATGAAAT
1 AATAAAAT
49477334 TGACAGTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
AATAAAATAAAATTTAAAT
Found at i:49478952 original size:16 final size:16
Alignment explanation
Indices: 49478917--49478951 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
49478907 ATTTTATTTG
49478917 AAAATAGCTTACCTTC
1 AAAATAGCTTACCTTC
49478933 AAAATAGCTTACC-TC
1 AAAATAGCTTACCTTC
49478948 AAAA
1 AAAA
49478952 ACCTAGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAATAGCTTACCTTC
Found at i:49485285 original size:28 final size:28
Alignment explanation
Indices: 49485224--49485321 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
49485214 TCACAAATTG
** * *
49485224 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
49485253 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
49485281 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
49485309 GCACTAAGTGTGC
1 GCACTAAGTGTGC
49485322 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:49492965 original size:28 final size:28
Alignment explanation
Indices: 49492904--49493001 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
49492894 TCACAAATTG
** * *
49492904 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
49492933 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
49492961 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
49492989 GCACTAAGTGTGC
1 GCACTAAGTGTGC
49493002 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:49495050 original size:17 final size:18
Alignment explanation
Indices: 49495033--49495086 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 18
49495023 TATTTTATTT
49495033 ATTAAATTATTATTTTTA
1 ATTAAATTATTATTTTTA
*
49495051 ATT-AATTTTTA-TTTTA
1 ATTAAATTATTATTTTTA
* *
49495067 A--AATTTATTATTTTTC
1 ATTAAATTATTATTTTTA
49495083 ATTA
1 ATTA
49495087 TCTCGGCCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 6 0.21
16 11 0.39
17 7 0.25
18 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTAAATTATTATTTTTA
Found at i:49495064 original size:32 final size:32
Alignment explanation
Indices: 49495025--49495086 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
49495015 TTCCAGTTTA
*
49495025 TTTTATTTATTAAA-TTATTATTTTTAATTAAT
1 TTTTATTT-TAAAATTTATTATTTTTAATTAAT
*
49495057 TTTTATTTTAAAATTTATTATTTTTCATTA
1 TTTTATTTTAAAATTTATTATTTTTAATTA
49495087 TCTCGGCCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (32 bp):
TTTTATTTTAAAATTTATTATTTTTAATTAAT
Found at i:49496410 original size:24 final size:23
Alignment explanation
Indices: 49496383--49496437 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
49496373 AGTACTACAG
49496383 AATTTAATTAAAATTAATATAAAT
1 AATTTAATTAAAATTAATA-AAAT
* * *
49496407 AATTTATAATAAATTTAGTAAAAT
1 AATTTA-ATTAAAATTAATAAAAT
49496431 -ATTTAAT
1 AATTTAAT
49496438 AGATCCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 5 0.19
24 10 0.38
25 10 0.38
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AATTTAATTAAAATTAATAAAAT
Found at i:49499322 original size:18 final size:19
Alignment explanation
Indices: 49499301--49499339 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
49499291 AAATAAAATG
*
49499301 TGTACAATAAA-ATTAAAA
1 TGTACAAAAAATATTAAAA
*
49499319 TGTATAAAAAATATTAAAA
1 TGTACAAAAAATATTAAAA
49499338 TG
1 TG
49499340 AAGTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (19 bp):
TGTACAAAAAATATTAAAA
Found at i:49499336 original size:19 final size:20
Alignment explanation
Indices: 49499294--49499339 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
49499284 ATAAAATAAA
*
49499294 TAAAATGTGTACAATAAAAT
1 TAAAATGTATACAATAAAAT
49499314 TAAAATGTATA-AA-AAATAT
1 TAAAATGTATACAATAAA-AT
49499333 TAAAATG
1 TAAAATG
49499340 AAGTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 11 0.46
20 10 0.42
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (20 bp):
TAAAATGTATACAATAAAAT
Found at i:49499746 original size:2 final size:2
Alignment explanation
Indices: 49499739--49499764 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49499729 ACGCGAAGGG
49499739 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
49499765 TTATGAGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49506509 original size:16 final size:17
Alignment explanation
Indices: 49506478--49506510 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49506468 TTCATAAGTA
49506478 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
49506495 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
49506511 GCACCATCAT
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:49506858 original size:46 final size:46
Alignment explanation
Indices: 49506796--49507251 Score: 639
Period size: 46 Copynumber: 10.0 Consensus size: 46
49506786 TTTGACATGA
* * * * * *
49506796 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * * * *
49506842 TGCCATGGTATTTTTCAACCATGGTCCTACACATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** * * *
49506888 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* ** *** *
49506934 TGCCATGGTATCTTTCAACCATCGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
49506980 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
49507026 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
49507072 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
49507118 TGCCATGGTATCTTTCAACTATGGTCTT--ACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
49507162 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
49507208 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
49507252 AGAGCACACT
Statistics
Matches: 379, Mismatches: 28, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
44 42 0.11
45 4 0.01
46 333 0.88
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:49509408 original size:13 final size:12
Alignment explanation
Indices: 49509386--49509445 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
49509376 TTTATACTAA
49509386 ATAAATAATAAT
1 ATAAATAATAAT
49509398 ATAATATAATAAT
1 ATAA-ATAATAAT
* *
49509411 AATAAATATCTCAT
1 -ATAAATA-ATAAT
* *
49509425 AAAAATATTAAT
1 ATAAATAATAAT
49509437 A-AAATAATA
1 ATAAATAATA
49509446 TTTATCTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
11 7 0.18
12 8 0.21
13 17 0.44
14 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:49514505 original size:22 final size:22
Alignment explanation
Indices: 49514480--49514522 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
49514470 TGTACCCTTT
*
49514480 TGACTTAGGTACAATTTACTTC
1 TGACTTAAGTACAATTTACTTC
49514502 TGACTTAAGTACAATTTACTT
1 TGACTTAAGTACAATTTACTT
49514523 GATTTTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (22 bp):
TGACTTAAGTACAATTTACTTC
Found at i:49517727 original size:6 final size:5
Alignment explanation
Indices: 49517706--49517740 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
49517696 CCAATTTGTG
49517706 AAAAT AAAAT AAAAT AAAAAT AAAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAA
49517741 GAACACACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:49517727 original size:11 final size:11
Alignment explanation
Indices: 49517706--49517740 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
49517696 CCAATTTGTG
49517706 AAAATAAAAT-
1 AAAATAAAATA
49517716 AAAATAAAAATA
1 AAAAT-AAAATA
49517728 AAAATAAAATA
1 AAAATAAAATA
49517739 AA
1 AA
49517741 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.22
11 13 0.57
12 5 0.22
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:49520112 original size:6 final size:6
Alignment explanation
Indices: 49520097--49520128 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
49520087 TAATTAAGAA
49520097 AAAAATG AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG A
49520129 GTAAACGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:49531376 original size:28 final size:28
Alignment explanation
Indices: 49531330--49531396 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
49531320 TTTAAAACCC
* *
49531330 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
49531357 TAGGGGTAATTTCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
49531385 TAGGGGTAATTT
1 TAGGGGTAATTT
49531397 GTGATCTACG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
27 7 0.19
28 30 0.81
ACGTcount: A:0.21, C:0.09, G:0.25, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:49533046 original size:20 final size:20
Alignment explanation
Indices: 49533023--49533060 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49533013 CGCATCCAAA
*
49533023 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
49533043 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
49533061 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:49533372 original size:28 final size:28
Alignment explanation
Indices: 49533332--49533389 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
49533322 TATATACAAA
* *
49533332 GAATGGTTATATCCGTCTAAGTAATGAT
1 GAATGCTTATATCAGTCTAAGTAATGAT
49533360 GAATGCTTATATCAGTCTAAGTAATGAT
1 GAATGCTTATATCAGTCTAAGTAATGAT
49533388 GA
1 GA
49533390 GTTTGTGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (28 bp):
GAATGCTTATATCAGTCTAAGTAATGAT
Found at i:49536918 original size:26 final size:25
Alignment explanation
Indices: 49536866--49536919 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
49536856 CATGGAATGG
** *
49536866 AAATTTTATTTTATTTTACTTAGTT
1 AAATTTTATTTTAAATTACTTACTT
*
49536891 AAATTTTAGTTTTAAATTACTTCCTT
1 AAATTTTA-TTTTAAATTACTTACTT
49536917 AAA
1 AAA
49536920 ATCAAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
AAATTTTATTTTAAATTACTTACTT
Found at i:49539897 original size:49 final size:49
Alignment explanation
Indices: 49539844--49540311 Score: 727
Period size: 49 Copynumber: 9.7 Consensus size: 49
49539834 GATTTTACAC
* * *
49539844 GATGAATGTGAATGTGTATATATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
49539893 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
49539942 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
*
49539991 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
*
49540040 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
*
49540089 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* *
49540138 GATGAATGTGAAAGTGGATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* * *
49540187 GATGAATGTG-AAG-GTGTATATATGTGACAAGGCCGAATGGCC-AATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAA-GT
* * *
49540234 GATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCC-AACGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAA-GT
*
49540281 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
49540312 TCCCGAAGGG
Statistics
Matches: 394, Mismatches: 20, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 88 0.22
48 7 0.02
49 298 0.76
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
Found at i:49545031 original size:19 final size:19
Alignment explanation
Indices: 49545007--49545044 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
49544997 TGGAACATAG
49545007 GCGTGTGACTTGGCCGTGT
1 GCGTGTGACTTGGCCGTGT
49545026 GCGTGTGACTTGGCCGTGT
1 GCGTGTGACTTGGCCGTGT
49545045 CACCCCAAAT
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:0.05, C:0.21, G:0.42, T:0.32
Consensus pattern (19 bp):
GCGTGTGACTTGGCCGTGT
Found at i:49546445 original size:43 final size:44
Alignment explanation
Indices: 49546396--49546562 Score: 189
Period size: 43 Copynumber: 3.9 Consensus size: 44
49546386 GATTACCGAG
*
49546396 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * *
49546440 -TGTGATTACGTGTAAGACCATTTTTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * * * * **
49546482 ATATGATTTCATATAAGACTATGTCTAAGACATTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *
49546525 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCAT
49546563 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 7 0.07
43 92 0.93
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:49552290 original size:16 final size:15
Alignment explanation
Indices: 49552263--49552296 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
49552253 ATAACTAGTA
*
49552263 TATAATTATATTTAT
1 TATAATTATATTAAT
49552278 TATAATATATATTAAT
1 TATAAT-TATATTAAT
49552294 TAT
1 TAT
49552297 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:49553039 original size:25 final size:24
Alignment explanation
Indices: 49553011--49553069 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
49553001 AGTTTTCTCC
* *
49553011 TAAATTTTAATTTTATTTAATTATT
1 TAAATTTTAAATTTATTGAATTA-T
*
49553036 TAAAATTTAAATTTATTGAATTAT
1 TAAATTTTAAATTTATTGAATTAT
49553060 TAATATTTTA
1 TAA-ATTTTA
49553070 TACTCATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TAAATTTTAAATTTATTGAATTAT
Found at i:49553949 original size:12 final size:12
Alignment explanation
Indices: 49553932--49553963 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
49553922 CACCAGACAC
49553932 GGCCGTGTCATA
1 GGCCGTGTCATA
49553944 GGCCGTGTCATA
1 GGCCGTGTCATA
49553956 GGCCGTGT
1 GGCCGTGT
49553964 GGAAATAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (12 bp):
GGCCGTGTCATA
Found at i:49555347 original size:20 final size:19
Alignment explanation
Indices: 49555295--49555347 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
49555285 CCAGTTGTTC
49555295 ATCCGTATAACCAATAATTT
1 ATCCGTATAA-CAATAATTT
* *
49555315 ATCAGTAGTAACAGTAATTT
1 ATCCGTA-TAACAATAATTT
49555335 ATCCGTATCAACA
1 ATCCGTAT-AACA
49555348 TAGCTTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 24 0.86
21 3 0.11
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (19 bp):
ATCCGTATAACAATAATTT
Found at i:49555532 original size:24 final size:23
Alignment explanation
Indices: 49555505--49555660 Score: 176
Period size: 23 Copynumber: 6.7 Consensus size: 23
49555495 TGATAAACAA
*
49555505 TAAGCTGTATTGAGCTGAAAACGG
1 TAAGCTCTATTGAGCTG-AAACGG
*
49555529 TAAGCTCCATTGAGCTGAAAACGG
1 TAAGCTCTATTGAGCTG-AAACGG
49555553 TAAGCTCTATTGAGCTGAATA--G
1 TAAGCTCTATTGAGCTGAA-ACGG
* *
49555575 TAAGCTCTATCGAGCTGAATCGG
1 TAAGCTCTATTGAGCTGAAACGG
* *
49555598 TAAGTTCTAATGAGCTGAAACGG
1 TAAGCTCTATTGAGCTGAAACGG
*
49555621 TAAGCTCT-TATGAGCTGAATCGG
1 TAAGCTCTAT-TGAGCTGAAACGG
49555644 TAAGCTC-ATATGAGCTG
1 TAAGCTCTAT-TGAGCTG
49555661 TGGTGATTCC
Statistics
Matches: 115, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
22 19 0.17
23 57 0.50
24 39 0.34
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (23 bp):
TAAGCTCTATTGAGCTGAAACGG
Found at i:49557614 original size:24 final size:24
Alignment explanation
Indices: 49557584--49557922 Score: 588
Period size: 24 Copynumber: 14.1 Consensus size: 24
49557574 GAATGTGACT
* *
49557584 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
49557608 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49557632 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49557656 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49557680 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49557704 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49557728 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49557752 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49557776 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49557800 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49557824 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49557848 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49557872 ATGGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49557896 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49557920 ATA
1 ATA
49557923 TGGTCTTTGC
Statistics
Matches: 305, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 305 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:49565715 original size:24 final size:24
Alignment explanation
Indices: 49565685--49566022 Score: 588
Period size: 24 Copynumber: 14.1 Consensus size: 24
49565675 GAATGTGACT
* *
49565685 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
49565709 ATAGCAAATCGCACACATAGTG-C
1 ATAGTAAATCGCACACATAGTGCC
49565732 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49565756 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49565780 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49565804 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49565828 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49565852 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49565876 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49565900 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49565924 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49565948 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49565972 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49565996 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49566020 ATA
1 ATA
49566023 TGGTCTTTGC
Statistics
Matches: 305, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
23 21 0.07
24 284 0.93
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:49571678 original size:23 final size:23
Alignment explanation
Indices: 49571652--49571698 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
49571642 ACTATGTGTG
*
49571652 TGCATGCATATGTGGAAGTTTCA
1 TGCATGCATACGTGGAAGTTTCA
49571675 TGCATGCATACGTGGAAGTTTCA
1 TGCATGCATACGTGGAAGTTTCA
49571698 T
1 T
49571699 TCTCTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (23 bp):
TGCATGCATACGTGGAAGTTTCA
Found at i:49571957 original size:25 final size:23
Alignment explanation
Indices: 49571917--49571964 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
49571907 TGCATTATGG
49571917 AAGGAAAATAAAGAAATGAAAAAAA
1 AAGGAAAATAAAGAAA--AAAAAAA
* *
49571942 AAGGAAAATGATGAAAAAAAAAA
1 AAGGAAAATAAAGAAAAAAAAAA
49571965 GAGTGTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (23 bp):
AAGGAAAATAAAGAAAAAAAAAA
Found at i:49573284 original size:29 final size:29
Alignment explanation
Indices: 49573251--49573410 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
49573241 GTGACGAGAT
49573251 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
49573280 TGGCACTAAGTGTGCATGCTTGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49573309 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
49573338 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
49573367 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
49573396 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
49573411 GAAATCGAGT
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
28 2 0.02
29 106 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:49576661 original size:22 final size:21
Alignment explanation
Indices: 49576621--49576661 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
49576611 CAATTATGAA
49576621 CTTACCATTTCATTACCTTTT
1 CTTACCATTTCATTACCTTTT
* *
49576642 CTTACCTATTTTATTTCCTT
1 CTTACC-ATTTCATTACCTT
49576662 AATACAAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (21 bp):
CTTACCATTTCATTACCTTTT
Found at i:49587566 original size:23 final size:23
Alignment explanation
Indices: 49587523--49587566 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
49587513 AGGGCAATTG
* *
49587523 TTATACCTTGTGTAGCGAGCCAC
1 TTATACCTTGTATAGCAAGCCAC
*
49587546 TTATACCTTGTATAGTAAGCC
1 TTATACCTTGTATAGCAAGCC
49587567 TCGTGAACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (23 bp):
TTATACCTTGTATAGCAAGCCAC
Found at i:49589718 original size:47 final size:46
Alignment explanation
Indices: 49589565--49589731 Score: 190
Period size: 47 Copynumber: 3.5 Consensus size: 46
49589555 TTACTTGTAT
* * * *
49589565 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACAATATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATA
* * * **
49589611 GCCAGTGTAAGACCATGCCTGGGACATGGCATCGGCGTAGAGAATGAGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG-ATGATA
* *
49589660 GCCATTCTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGATA
*
49589707 GCCAGTGTAAGACGTGTCTGGGACA
1 GCCAGTGTAAGACATGTCTGGGACA
49589732 CGTATCAGCT
Statistics
Matches: 98, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
46 12 0.12
47 49 0.50
48 23 0.23
49 14 0.14
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATA
Found at i:49590702 original size:54 final size:55
Alignment explanation
Indices: 49590639--49590745 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 55
49590629 TCAGTGCTGA
* *
49590639 ACACGGGCAGGCCACACGGGCGTGTGCCAT-GCCGTGTTTTAAAGTCAATGTTCT
1 ACACAGGCAGGCCACACGGGCGTGTGCCATGGCCATGTTTTAAAGTCAATGTTCT
* * *
49590693 ACACAGGCAGGCCACATGGGCGTGTGTCATGGCCATGTTTTAAAGTCAGTGTT
1 ACACAGGCAGGCCACACGGGCGTGTGCCATGGCCATGTTTTAAAGTCAATGTT
49590746 GCACATGGGC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 27 0.57
55 20 0.43
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.25
Consensus pattern (55 bp):
ACACAGGCAGGCCACACGGGCGTGTGCCATGGCCATGTTTTAAAGTCAATGTTCT
Found at i:49594956 original size:27 final size:28
Alignment explanation
Indices: 49594926--49595025 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 28
49594916 TTTAGTTTAC
49594926 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* ** *
49594953 TAAAAATATTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
49594980 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
49595007 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
49595026 CGATTTACAG
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:49595060 original size:27 final size:27
Alignment explanation
Indices: 49595021--49595284 Score: 293
Period size: 27 Copynumber: 9.8 Consensus size: 27
49595011 ATTACCAAAG
49595021 TACCC-CGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTATCGTTT
* * *
49595047 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTATCGTTT
* * *
49595074 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTATCGTTT
49595101 TACCCTCGATTTACAGAATTA-CTGTTT
1 TACCCTCGATTTACAGAATTATC-GTTT
* * *
49595128 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTATCGTTT
* *
49595155 TACCCTTGATTTATAGAATTA-CTGTTT
1 TACCCTCGATTTACAGAATTATC-GTTT
*
49595182 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTATCGTTT
* * **
49595209 TACCGTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAGAATTATCGTTT
* * *
49595236 TACCCTTGATTTACAGATTTA-CTATTT
1 TACCCTCGATTTACAGAATTATC-GTTT
*
49595263 TACCCTCGATTTACAAAATTAT
1 TACCCTCGATTTACAGAATTAT
49595285 AAAAATACCC
Statistics
Matches: 204, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
26 7 0.03
27 195 0.96
28 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTATCGTTT
Found at i:49595094 original size:54 final size:54
Alignment explanation
Indices: 49595021--49595283 Score: 339
Period size: 54 Copynumber: 4.9 Consensus size: 54
49595011 ATTACCAAAG
* * * * *
49595021 TACCC-CGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
*
49595074 TACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * *
49595128 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * * *
49595182 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * ** *
49595236 TACCCTTGATTTACAGATTTACTATTTTACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTA
49595284 TAAAAATACC
Statistics
Matches: 184, Mismatches: 25, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
53 5 0.03
54 179 0.97
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
Found at i:49595138 original size:81 final size:81
Alignment explanation
Indices: 49595021--49595284 Score: 370
Period size: 81 Copynumber: 3.3 Consensus size: 81
49595011 ATTACCAAAG
* * * *
49595021 TACCC-CGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
* *
49595085 TACAAAATTACCGTTT
66 TACAGAATTACTGTTT
*
49595101 TACCCTCGATTTACAGAATTA-CTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGAT
1 TACCCTCGATTTACAAAATTATC-GTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGAT
*
49595165 TTATAGAATTACTGTTT
65 TTACAGAATTACTGTTT
* * ***
49595182 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTATTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
* *
49595247 TACAGATTTACTATTT
66 TACAGAATTACTGTTT
49595263 TACCCTCGATTTACAAAATTAT
1 TACCCTCGATTTACAAAATTAT
49595285 AAAAATACCC
Statistics
Matches: 166, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
80 6 0.04
81 159 0.96
82 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
TACAGAATTACTGTTT
Found at i:49595293 original size:27 final size:27
Alignment explanation
Indices: 49595263--49595457 Score: 101
Period size: 27 Copynumber: 7.1 Consensus size: 27
49595253 TTTACTATTT
*
49595263 TACCCTCGATTTACAAAATTATAAAAA
1 TACCCTCGATTTATAAAATTATAAAAA
* * **
49595290 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTATAAAAA
* * **
49595317 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTATAAAAA
* * * *
49595344 TACCACT-GGTTTGTGAAATTACT-GAAA
1 TACC-CTCGATTTATAAAATTA-TAAAAA
* * **
49595371 TACCCTCAATTTTTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTATAAAAA
* * *
49595398 TACCC-CTGATTTACAAAGTTATAGAAA
1 TACCCTC-GATTTATAAAATTATAAAAA
* * *
49595425 TACCCTTGACTTTGTAAAAATTATAGAAA
1 TACCCTCGA-TTTAT-AAAATTATAAAAA
49595454 TACC
1 TACC
49595458 ATTGGTTTAC
Statistics
Matches: 130, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
26 5 0.04
27 105 0.81
28 4 0.03
29 16 0.12
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTATAAAAA
Found at i:49595357 original size:54 final size:55
Alignment explanation
Indices: 49595304--49595507 Score: 175
Period size: 54 Copynumber: 3.7 Consensus size: 55
49595294 CTCAATTTGT
* **
49595304 AAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACTAAAATACCCCTCAGTTTGTAAAATTACCAAAATACCACTGGTTTAC
* * * * * *
49595358 GAAATTACTGAAATA-CCCTCAATTTTTAAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTAAAATACCCCTCAGTTTGTAAAATTACCAAAATACCACTGGTTTAC
* * * * * *
49595412 AAAGTTA-TAGAAATACCCTTGACTTTGTAAAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACTA-AAATACCCCTCAGTTTGT-AAAATTACCA-AAATACCACTGGTTTAC
* * * *
49595468 AAAATTACTGAAATA-CCCTTAGTTTGTAGATTTACCAAAA
1 AAAATTACTAAAATACCCCTCAGTTTGTAAAATTACCAAAA
49595508 CACCCTTGTA
Statistics
Matches: 115, Mismatches: 28, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
53 5 0.04
54 58 0.50
55 19 0.17
56 32 0.28
57 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (55 bp):
AAAATTACTAAAATACCCCTCAGTTTGTAAAATTACCAAAATACCACTGGTTTAC
Found at i:49595492 original size:27 final size:27
Alignment explanation
Indices: 49595359--49595492 Score: 87
Period size: 27 Copynumber: 4.9 Consensus size: 27
49595349 CTGGTTTGTG
* * **
49595359 AAATTACTGAAATACCCTCAATTTTTA
1 AAATTACTGAAATACCCTTAGTTTACA
** *
49595386 AAATTACCAAAATACCCCT-GATTTACA
1 AAATTACTGAAATACCCTTAG-TTTACA
* *
49595413 AAGTTA-TAGAAATACCCTTGACTTTGTA-A
1 AAATTACT-GAAATACCCTT-A-GTT-TACA
* *
49595442 AAATTA-TAGAAATACCATTGGTTTACA
1 AAATTACT-GAAATACCCTTAGTTTACA
49595469 AAATTACTGAAATACCCTTAGTTT
1 AAATTACTGAAATACCCTTAGTTT
49595493 GTAGATTTAC
Statistics
Matches: 81, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
26 2 0.02
27 56 0.69
28 1 0.01
29 20 0.25
30 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTAGTTTACA
Found at i:49595576 original size:27 final size:27
Alignment explanation
Indices: 49595545--49595637 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
49595535 TACCCCTATT
*
49595545 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* * *
49595572 GGGTAAAGTGACCGTAAAGCCCCTGCA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
**
49595599 AGGTAATGTGACCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
49595626 TGGTAAAATGAC
1 AGGTAAAATGAC
49595638 GAATATGCCC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:49596896 original size:9 final size:9
Alignment explanation
Indices: 49596884--49596940 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
49596874 TTTGATAAAC
49596884 ATGATATGT
1 ATGATATGT
*
49596893 ATGATATGCAC
1 ATGATATG--T
*
49596904 ATGACATGT
1 ATGATATGT
*
49596913 ATGATATGCAC
1 ATGATATG--T
49596924 ATGATATGT
1 ATGATATGT
49596933 ATGATATG
1 ATGATATG
49596941 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:49596907 original size:20 final size:20
Alignment explanation
Indices: 49596882--49596944 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
49596872 ATTTTGATAA
49596882 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
49596902 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
49596922 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49596942 ACA
1 ACA
49596945 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49597055 original size:24 final size:23
Alignment explanation
Indices: 49596999--49597189 Score: 258
Period size: 24 Copynumber: 8.0 Consensus size: 23
49596989 GAGGAAGTGA
49596999 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
49597022 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
49597045 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
49597069 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
49597093 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
49597116 AAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
49597140 AAAAAGGGATTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
49597165 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
49597189 A
1 A
49597190 TGATAAAGCA
Statistics
Matches: 152, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
23 43 0.28
24 99 0.65
25 10 0.07
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:49597068 original size:47 final size:47
Alignment explanation
Indices: 49596999--49597189 Score: 260
Period size: 47 Copynumber: 4.0 Consensus size: 47
49596989 GAGGAAGTGA
*
49596999 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
49597045 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
*
49597093 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * * *
49597140 AAAAAGGGATTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAG-GGCTTATGCC-CCAGTTAT
49597189 A
1 A
49597190 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
47 67 0.52
48 52 0.40
49 11 0.08
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:49597115 original size:71 final size:71
Alignment explanation
Indices: 49596998--49597189 Score: 296
Period size: 71 Copynumber: 2.7 Consensus size: 71
49596988 GGAGGAAGTG
*
49596998 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
49597063 AGTTAT
66 AGTTAT
* *
49597069 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
49597134 AGTTAT
66 AGTTAT
* * *
49597140 AAAAAGGGATTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAAGGGCTTATGCCCCAGTTATT-AAAG-GGCTTATGCC-CCAGTTATA
49597190 TGATAAAGCA
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
71 89 0.81
72 9 0.08
73 12 0.11
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
AGTTAT
Found at i:49597415 original size:31 final size:31
Alignment explanation
Indices: 49597380--49597443 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49597370 CGTTTACAGT
*
49597380 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
49597411 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
49597442 AA
1 AA
49597444 TATGAAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:49600251 original size:29 final size:29
Alignment explanation
Indices: 49600217--49600377 Score: 83
Period size: 29 Copynumber: 5.6 Consensus size: 29
49600207 TACTCGATTT
* * *
49600217 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
49600246 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
49600275 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * *** * *
49600304 TGCACACTCAGTGCCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
49600333 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
49600362 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49600378 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 108 0.98
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:49600309 original size:58 final size:59
Alignment explanation
Indices: 49600216--49600377 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 59
49600206 ATACTCGATT
** * ** * *
49600216 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACACAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTCAGTGCCATACCCTTCCAGCA
***
49600274 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATACCCTTCCAGCA
*
49600333 T-GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCA
49600378 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATACCCTTCCAGCA
Found at i:49606521 original size:28 final size:28
Alignment explanation
Indices: 49606460--49606557 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
49606450 TCACAAATTG
** * *
49606460 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
49606489 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
49606517 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
49606545 GCACTAAGTGTGC
1 GCACTAAGTGTGC
49606558 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:49614187 original size:28 final size:28
Alignment explanation
Indices: 49614126--49614223 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
49614116 TCACAAATTG
** * *
49614126 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
49614155 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
49614183 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
49614211 GCACTAAGTGTGC
1 GCACTAAGTGTGC
49614224 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:49619616 original size:40 final size:40
Alignment explanation
Indices: 49619531--49619681 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
49619521 AATTGAATGA
* * *
49619531 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
49619571 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
49619612 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
49619651 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
49619682 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:49619695 original size:40 final size:40
Alignment explanation
Indices: 49619568--49619697 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
49619558 ATGCTGGAAA
* * * *
49619568 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
49619608 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
49619648 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
49619688 TTATATCCGG
1 TTATATCCGG
49619698 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:49621745 original size:71 final size:71
Alignment explanation
Indices: 49621657--49621820 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
49621647 TGATTTGTCT
*
49621657 CGTAGCTCTCTTATCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
49621722 CTTTCA
66 CTTTCA
* *
49621728 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
49621793 CTTTCA
66 CTTTCA
49621799 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
49621821 GATACATCTC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:49621858 original size:71 final size:70
Alignment explanation
Indices: 49621657--49621854 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
49621647 TGATTTGTCT
* * * * * *
49621657 CGTAGCTCTCTTATCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
49621722 CTTTCA
65 CTTTCA
* * * *
49621728 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
49621793 CTTTCA
65 CTTTCA
* *
49621799 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
49621855 TACAAGGTGT
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 93 0.79
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:49626468 original size:23 final size:22
Alignment explanation
Indices: 49626412--49626513 Score: 84
Period size: 22 Copynumber: 4.5 Consensus size: 22
49626402 CTGAGCAGAC
*
49626412 AAACGGTAAGCTCAATTA-AGCT
1 AAACGGTAAGCTCCA-TAGAGCT
* *
49626434 GAACAGTAAGCTCCATAGAGCT
1 AAACGGTAAGCTCCATAGAGCT
* *
49626456 AAAAAGGTAAGCTTCGA-AGAGCT
1 -AAACGGTAAGC-TCCATAGAGCT
*
49626479 AAACGGTAAGCT-CATAAAAGCT
1 AAACGGTAAGCTCCAT-AGAGCT
49626501 GAAACGGTAAGCT
1 -AAACGGTAAGCT
49626514 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
20 1 0.02
21 3 0.05
22 31 0.48
23 26 0.41
24 3 0.05
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (22 bp):
AAACGGTAAGCTCCATAGAGCT
Found at i:49626523 original size:23 final size:23
Alignment explanation
Indices: 49626450--49626524 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
49626440 TAAGCTCCAT
* *
49626450 AGAGCTAAAAAGGTAAGCTTCG-A
1 AGAGCTGAAACGGTAAGCTT-GTA
**
49626473 AGAGCT-AAACGGTAAGCTCATA
1 AGAGCTGAAACGGTAAGCTTGTA
*
49626495 AAAGCTGAAACGGTAAGCTTGTA
1 AGAGCTGAAACGGTAAGCTTGTA
*
49626518 CGAGCTG
1 AGAGCTG
49626525 TGGTGAGTCT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 17 0.40
23 25 0.60
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.19
Consensus pattern (23 bp):
AGAGCTGAAACGGTAAGCTTGTA
Found at i:49629766 original size:40 final size:40
Alignment explanation
Indices: 49629647--49629814 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
49629637 CGGATGATAA
* * **
49629647 CCGGACTAAGATCCGAAGGCATTCCTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * * * *
49629687 CCGAGCTATGTCCCGAAGGCATTTATACTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
* *
49629727 TCGGGATAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
49629767 CCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
49629807 CC-GGCTAA
1 CCGGGCTAA
49629815 ATCCTGAAGA
Statistics
Matches: 103, Mismatches: 23, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
39 8 0.08
40 93 0.90
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:49630091 original size:22 final size:22
Alignment explanation
Indices: 49630051--49630092 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
49630041 GAATGTGCAT
*
49630051 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
49630073 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
49630093 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:49641906 original size:40 final size:39
Alignment explanation
Indices: 49641862--49642015 Score: 191
Period size: 39 Copynumber: 3.9 Consensus size: 39
49641852 GTTCAAAACA
* * ** * *
49641862 CCTTCGGGACGTAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
49641902 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
49641942 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
49641981 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
49642016 TTCATTCACA
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 60 0.60
40 40 0.40
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:49641973 original size:39 final size:39
Alignment explanation
Indices: 49641892--49642015 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
49641882 TATGGTAACC
* *
49641892 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
49641932 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
49641971 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
49642010 CGCACA
1 CGCACA
49642016 TTCATTCACA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 60 0.78
40 17 0.22
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:49646178 original size:30 final size:30
Alignment explanation
Indices: 49646132--49646191 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
49646122 TTCCCGAGCC
*
49646132 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* * *
49646162 TAGGGGTAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
49646192 CATATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:49653728 original size:30 final size:30
Alignment explanation
Indices: 49653694--49653750 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
49653684 TCCCAGCCTA
*
49653694 GGGCAAAAGTGTAATTATGCAAAAGTTTAG
1 GGGCAAAAATGTAATTATGCAAAAGTTTAG
* *
49653724 GGGCAAAAATGTAATTTTGCCAAAGTT
1 GGGCAAAAATGTAATTATGCAAAAGTT
49653751 CGTATTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.28
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGCAAAAGTTTAG
Found at i:49657496 original size:13 final size:13
Alignment explanation
Indices: 49657478--49657503 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49657468 CAGAAAACAT
49657478 GAAAAATTTTGAA
1 GAAAAATTTTGAA
49657491 GAAAAATTTTGAA
1 GAAAAATTTTGAA
49657504 AATAAGGGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
GAAAAATTTTGAA
Found at i:49662586 original size:23 final size:23
Alignment explanation
Indices: 49662560--49662608 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
49662550 ATTCAATCTA
49662560 ATAGGACATAATGAGTTGATTTC
1 ATAGGACATAATGAGTTGATTTC
49662583 ATAGGACATAATGAGTTGATTTC
1 ATAGGACATAATGAGTTGATTTC
49662606 ATA
1 ATA
49662609 AGATATGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (23 bp):
ATAGGACATAATGAGTTGATTTC
Found at i:49663643 original size:47 final size:47
Alignment explanation
Indices: 49663589--49663782 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
49663579 TTAGGATTTT
** * *
49663589 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
49663636 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49663683 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCG
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
49663730 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
49663777 ATGTGA
1 ATGTGA
49663783 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49663664 original size:25 final size:25
Alignment explanation
Indices: 49663636--49663714 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
49663626 CGAATGGCCA
49663636 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
49663661 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
49663683 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
49663708 ATGTGAT
1 ATGTGAT
49663715 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 8 0.20
23 8 0.20
24 9 0.22
25 15 0.38
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:49663689 original size:22 final size:22
Alignment explanation
Indices: 49663618--49663689 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
49663608 GTATATATGA
49663618 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
49663640 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
49663665 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
49663687 GAT
1 GAT
49663690 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:49663911 original size:98 final size:96
Alignment explanation
Indices: 49663753--49663950 Score: 317
Period size: 98 Copynumber: 2.0 Consensus size: 96
49663743 GAACATGCAT
*
49663753 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
*
49663818 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTAGGAGATATGC
49663849 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
* * *
49663913 CGAATGGCTAGTGTGAAATATGTAGGCGATGTGC
63 CGAATGGCTAATGTGAAATATGTAGGAGATATGC
49663947 ATAT
1 ATAT
49663951 ATTGTGGCCG
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.29
97 2 0.02
98 64 0.68
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTAGGAGATATGC
Found at i:49663912 original size:50 final size:48
Alignment explanation
Indices: 49663752--49663936 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
49663742 TGAACATGCA
49663752 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
49663800 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
49663848 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
49663898 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
49663937 GGCGATGTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:49664191 original size:37 final size:37
Alignment explanation
Indices: 49664083--49664191 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
49664073 GGAAATATAT
*
49664083 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
49664120 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * **
49664157 TCCGGGCAAGACCCGATAACTTTGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
49664192 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:49680303 original size:43 final size:42
Alignment explanation
Indices: 49680233--49680393 Score: 175
Period size: 42 Copynumber: 3.8 Consensus size: 42
49680223 CACACGGTAC
* *
49680233 CATACCAATGCCATATCCCAGATATGGTCTTACATGAGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCT
* *
49680275 CGTATCAATGCCAATAGCCCAGGA-ATGGTCTTACATGAAATCT
1 CATATCAATGCC-ATATCCCA-GATATGGTCTTACATGAAATCT
* * *
49680318 CATATCGATGCCATATCTCAGATATGGTCTTACA-CAAAGTCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGAAA-TCT
* * *
49680360 CATAT-AGATTCCTTATCCCATATATGGTCTTACA
1 CATATCA-ATGCCATATCCCAGATATGGTCTTACA
49680394 CATAGTCTTA
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
41 5 0.05
42 58 0.58
43 35 0.35
44 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCT
Found at i:49685552 original size:30 final size:30
Alignment explanation
Indices: 49685516--49685675 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
49685506 GACAAGATTG
* * * * *
49685516 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
49685546 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
49685574 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49685603 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
49685633 GCACTAAGTGTGCCAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49685662 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49685676 GATTCACTAT
Statistics
Matches: 118, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 48 0.41
30 44 0.37
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:49685643 original size:59 final size:57
Alignment explanation
Indices: 49685516--49685675 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
49685506 GACAAGATTG
* * * * * *
49685516 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
49685574 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
*
49685633 GCACTAAGTGTGCCAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
49685676 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:49687402 original size:29 final size:29
Alignment explanation
Indices: 49687369--49687528 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
49687359 GTGACGAGAT
49687369 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49687398 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49687427 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
49687456 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
49687485 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
49687514 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
49687529 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:49695493 original size:29 final size:29
Alignment explanation
Indices: 49695460--49695590 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
49695450 GTGACGAGAT
49695460 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49695489 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
49695518 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
49695547 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
49695576 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
49695591 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:49700764 original size:17 final size:18
Alignment explanation
Indices: 49700722--49700770 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
49700712 AGTTGAAAAG
49700722 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
49700741 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
49700758 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
49700771 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:49701659 original size:40 final size:40
Alignment explanation
Indices: 49701593--49701759 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
49701583 AAATTGAATG
* * *
49701593 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
49701632 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
49701672 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49701712 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49701752 ATATCCGG
1 ATATCCGG
49701760 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49708760 original size:17 final size:18
Alignment explanation
Indices: 49708718--49708766 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
49708708 AGTTGAAAAG
49708718 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
49708737 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
49708754 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
49708767 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:49709652 original size:40 final size:39
Alignment explanation
Indices: 49709586--49709751 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
49709576 AAATTGAATG
* * *
49709586 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
49709625 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
49709664 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
49709704 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
49709744 ATATCCGG
1 ATATCCGG
49709752 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:49711966 original size:28 final size:28
Alignment explanation
Indices: 49711905--49712002 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
49711895 TCACAAATTG
** * *
49711905 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
49711934 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
49711962 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
49711990 GCACTAAGTGTGC
1 GCACTAAGTGTGC
49712003 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:49719628 original size:28 final size:28
Alignment explanation
Indices: 49719567--49719664 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
49719557 TCACAAATTG
** * *
49719567 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
49719596 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
49719624 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
49719652 GCACTAAGTGTGC
1 GCACTAAGTGTGC
49719665 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:49727296 original size:28 final size:28
Alignment explanation
Indices: 49727235--49727332 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
49727225 TCACAAATTG
** * *
49727235 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
49727264 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
49727292 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
49727320 GCACTAAGTGTGC
1 GCACTAAGTGTGC
49727333 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:49731194 original size:29 final size:29
Alignment explanation
Indices: 49731160--49731320 Score: 83
Period size: 29 Copynumber: 5.6 Consensus size: 29
49731150 TACTCGATTT
* * *
49731160 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
49731189 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
49731218 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * *** * *
49731247 TGCACACTCAGTGCCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
49731276 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
49731305 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49731321 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 108 0.98
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:49731252 original size:58 final size:59
Alignment explanation
Indices: 49731159--49731320 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 59
49731149 ATACTCGATT
** * ** * *
49731159 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACACAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTCAGTGCCATACCCTTCCAGCA
***
49731217 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATACCCTTCCAGCA
*
49731276 T-GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCA
49731321 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATACCCTTCCAGCA
Found at i:49734248 original size:28 final size:27
Alignment explanation
Indices: 49734216--49734271 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
49734206 TTAGAACACT
*
49734216 TTAGTTCACTAAAATTACCGAAATACCC
1 TTAGTT-ACTAAAAATACCGAAATACCC
** *
49734244 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTACTAAAAATACCGAAATACCC
49734271 T
1 T
49734272 CGATTTGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TTAGTTACTAAAAATACCGAAATACCC
Found at i:49734339 original size:27 final size:27
Alignment explanation
Indices: 49734320--49734584 Score: 251
Period size: 27 Copynumber: 9.8 Consensus size: 27
49734310 ATTACCAAAG
*
49734320 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
*
49734347 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
49734374 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* **
49734401 TACCCTCGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
49734428 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** *
49734455 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * * *
49734482 TACCCTCGATTTACAAAATTATCATTT
1 TACCCCCGATTTACAGAATTACCGTTT
*** * * ***
49734509 TACTGTCAATTTATAGAATTATTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
** **
49734536 TACCCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
49734563 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
49734585 AGAAATACCC
Statistics
Matches: 204, Mismatches: 34, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 204 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCGTTT
Found at i:49734367 original size:54 final size:54
Alignment explanation
Indices: 49734320--49734584 Score: 314
Period size: 54 Copynumber: 4.9 Consensus size: 54
49734310 ATTACCAAAG
* * * * * *
49734320 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
*
49734374 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* * **
49734428 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* * ** * * **
49734482 TACCCTCGATTTACAAAATTATCATTTTACTGTCAATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* * ** *
49734536 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTAC
49734585 AGAAATACCC
Statistics
Matches: 181, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 181 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
Found at i:49734482 original size:81 final size:81
Alignment explanation
Indices: 49734320--49734583 Score: 350
Period size: 81 Copynumber: 3.3 Consensus size: 81
49734310 ATTACCAAAG
* * * * * * *
49734320 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTATCATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
* *
49734385 TACAAAATTACCGTTT
66 TACAGAATTACTGTTT
*
49734401 TACCCTCGATTTACAGAATTA-CTATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGAT
1 TACCCTCGATTTACAAAATTATC-ATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGAT
49734465 TTACAGAATTACTGTTT
65 TTACAGAATTACTGTTT
** * * ***
49734482 TACCCTCGATTTACAAAATTATCATTTTACTGTCAATTTATAGAATTATTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTATCATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
*
49734547 TACAGAATTACTATTT
66 TACAGAATTACTGTTT
49734563 TACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAAAATTA
49734584 CAGAAATACC
Statistics
Matches: 164, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.01
81 162 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTATCATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
TACAGAATTACTGTTT
Found at i:49734599 original size:81 final size:80
Alignment explanation
Indices: 49734320--49734613 Score: 336
Period size: 81 Copynumber: 3.6 Consensus size: 80
49734310 ATTACCAAAG
* * * * * * * * *
49734320 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTA-CATTTTACCCTCAATTTATAAAATTACCATTTTACCCTTGATT
* *
49734385 TACAAAATTACCGTTT
65 TACAGAATTACTGTTT
* * *
49734401 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTAC-ATTTTACCCTCAATTTATAAAATTACCATTTTACCCTTGATT
49734466 TACAGAATTACTGTTT
65 TACAGAATTACTGTTT
** * **
49734482 TACCCTCGATTTACAAAATTATCATTTTACTGTCAATTTATAGAATTATTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTA-CATTTTACCCTCAATTTATAAAATTACCATTTTACCCTTGATT
*
49734547 TACAGAATTACTATTT
65 TACAGAATTACTGTTT
*** *
49734563 TACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCA
1 TACCCTCGATTTACAAAATTACA-TTTTACCCTCAATTTATAAAATTACCA
49734614 AAATACCCTA
Statistics
Matches: 184, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
80 3 0.02
81 180 0.98
82 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.39
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACATTTTACCCTCAATTTATAAAATTACCATTTTACCCTTGATTT
ACAGAATTACTGTTT
Done.