Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 159 of 770
Found at i:46818088 original size:29 final size:28
Alignment explanation
Indices: 46818042--46818097 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
46818032 TTTTTCATTT
*
46818042 ATTTCACATTTTAACCCCTAAATTTACAC
1 ATTTCACAATTTAACCCCT-AATTTACAC
*
46818071 ATTTCACAATTTAGCCCCTAATTTACA
1 ATTTCACAATTTAACCCCTAATTTACA
46818098 TTTTTACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.38
Consensus pattern (28 bp):
ATTTCACAATTTAACCCCTAATTTACAC
Found at i:46823538 original size:41 final size:39
Alignment explanation
Indices: 46823393--46823540 Score: 147
Period size: 40 Copynumber: 3.7 Consensus size: 39
46823383 GCGACTCGCT
* *
46823393 CAAAAGCCTTCGGGACATAGCCCGG-TTATAATAGCTTGCA
1 CAAAAGCCTTCGGGACTTAGCCCGGATT-TAGTA-CTTGCA
* * * * *
46823433 CAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCA
1 CAAAAGCCTTCGGGACTTAGCCCGGATTTAGT-ACTTGCA
* *
46823473 CAAATGCCTTCGGGAATT-GACCCGGATTTAGTCACTTAGCA
1 CAAAAGCCTTCGGGACTTAG-CCCGGATTTAGT-ACTT-GCA
46823514 CAAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAAGCCTTCGGGACTTAGCCCGGAT
46823541 ACCATTCGAA
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
40 59 0.66
41 29 0.33
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAAAGCCTTCGGGACTTAGCCCGGATTTAGTACTTGCA
Found at i:46832273 original size:29 final size:29
Alignment explanation
Indices: 46832239--46832370 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
46832229 TACTCGATTT
** * *
46832239 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
46832268 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
46832297 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
46832326 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
46832355 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
46832371 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:46834588 original size:40 final size:40
Alignment explanation
Indices: 46834539--46834652 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
46834529 GTTATAATAG
* * *
46834539 CTCGTACAAATGCCTTCGAGACTTAACCCGGTTTTGGTAA
1 CTCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAA
* * *
46834579 CTCGCACAAATGCCTTCGAGAATTGACCCGGATTTAGTCA
1 CTCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAA
* * * *
46834619 CTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 C-TCGCACAAATGCCTTCGAGACTTAACCCGGAT
46834653 ACCATTCGAA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 35 0.57
41 26 0.43
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAA
Found at i:46838476 original size:10 final size:10
Alignment explanation
Indices: 46838461--46838561 Score: 59
Period size: 10 Copynumber: 10.4 Consensus size: 10
46838451 ATATAAATAT
46838461 TTTTCTATAA
1 TTTTCTATAA
46838471 TTTTCTATAA
1 TTTTCTATAA
*
46838481 TTTT-AATAA
1 TTTTCTATAA
* *
46838490 TTTTTTATAT
1 TTTTCTATAA
* **
46838500 TTTTATATTT
1 TTTTCTATAA
*
46838510 TTTTCTAAAAA
1 TTTTCT-ATAA
*
46838521 TTTT-AATAAA
1 TTTTCTAT-AA
*
46838531 TTTTCTATAC
1 TTTTCTATAA
46838541 TTTTC-A-AA
1 TTTTCTATAA
*
46838549 TTTTTTAT-A
1 TTTTCTATAA
46838558 TTTT
1 TTTT
46838562 TATTCATTTT
Statistics
Matches: 70, Mismatches: 15, Indels: 13
0.71 0.15 0.13
Matches are distributed among these distances:
8 5 0.07
9 16 0.23
10 42 0.60
11 7 0.10
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTCTATAA
Found at i:46838553 original size:40 final size:39
Alignment explanation
Indices: 46838461--46838554 Score: 93
Period size: 41 Copynumber: 2.4 Consensus size: 39
46838451 ATATAAATAT
* * *
46838461 TTTTC-TATAATTTTCTATAATTTTAATAATTTTTTATA
1 TTTTCATATATTTTTCTAAAATTTTAATAATTTTCTATA
* *
46838499 TTTTTATATTTTTTTCTAAAAATTTTAATAAATTTTCTATA
1 TTTTCATATATTTTTCT-AAAATTTTAAT-AATTTTCTATA
*
46838540 CTTTTCAAAT-TTTTT
1 -TTTTCATATATTTTT
46838555 ATATTTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
38 4 0.09
39 9 0.20
40 10 0.22
41 15 0.33
42 7 0.16
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (39 bp):
TTTTCATATATTTTTCTAAAATTTTAATAATTTTCTATA
Found at i:46838562 original size:18 final size:18
Alignment explanation
Indices: 46838528--46838561 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46838518 AAATTTTAAT
46838528 AAATTTTCTATACTTTTC
1 AAATTTTCTATACTTTTC
*
46838546 AAATTTTTTATA-TTTT
1 AAATTTTCTATACTTTT
46838562 TATTCATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (18 bp):
AAATTTTCTATACTTTTC
Found at i:46838893 original size:12 final size:12
Alignment explanation
Indices: 46838876--46838901 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46838866 GACATTAACT
46838876 GAAAAAAAAAAG
1 GAAAAAAAAAAG
46838888 GAAAAAAAAAAG
1 GAAAAAAAAAAG
46838900 GA
1 GA
46838902 CTTCTTTTAA
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:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
GAAAAAAAAAAG
Found at i:46842997 original size:27 final size:26
Alignment explanation
Indices: 46842967--46843021 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
46842957 TTAAACTAAA
*
46842967 AATTATTAGAAAATATATAAAAATA-AT
1 AATTATTA-AAAA-ATAAAAAAATATAT
*
46842994 AATTTTTAAAAAATAAAAAAATATAT
1 AATTATTAAAAAATAAAAAAATATAT
46843020 AA
1 AA
46843022 ATGTGTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.40
26 8 0.32
27 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
AATTATTAAAAAATAAAAAAATATAT
Found at i:46843828 original size:18 final size:20
Alignment explanation
Indices: 46843786--46843822 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46843776 ATATTTTAAG
*
46843786 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
46843805 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
46843823 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:46843832 original size:3 final size:3
Alignment explanation
Indices: 46843820--46843866 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
46843810 TTTAATGAGA
*
46843820 TAT T-T TAT TAT TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
46843863 TAT T
1 TAT T
46843867 TAGTATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 5 0.13
3 30 0.79
4 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:46843846 original size:11 final size:10
Alignment explanation
Indices: 46843824--46843866 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
46843814 ATGAGATATT
46843824 TTATTA-TTA
1 TTATTATTTA
46843833 TTATTATTTCA
1 TTATTATTT-A
46843844 TTATTATTTTA
1 TTATTA-TTTA
*
46843855 TTATTAATTA
1 TTATTATTTA
46843865 TT
1 TT
46843867 TAGTATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 6 0.20
10 7 0.23
11 14 0.47
12 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTATTATTTA
Found at i:46843846 original size:14 final size:13
Alignment explanation
Indices: 46843827--46843868 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
46843817 AGATATTTTA
46843827 TTATTATTATTAT
1 TTATTATTATTAT
46843840 TTCATTATTA-T-T
1 TT-ATTATTATTAT
46843852 TTATTATTAATTAT
1 TTATTATT-ATTAT
46843866 TTA
1 TTA
46843869 GTATAAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
11 6 0.24
12 4 0.16
13 4 0.16
14 11 0.44
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:46843846 original size:17 final size:16
Alignment explanation
Indices: 46843820--46843856 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
46843810 TTTAATGAGA
*
46843820 TATTTTATTATTATTAT
1 TATTTCATTATTATT-T
46843837 TATTTCATTATTATTT
1 TATTTCATTATTATTT
46843853 TATT
1 TATT
46843857 ATTAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTCATTATTATTT
Found at i:46846053 original size:46 final size:46
Alignment explanation
Indices: 46846001--46846228 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
46845991 AGTGTGCTCT
46846001 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
46846047 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
46846093 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
46846139 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * * *
46846185 ATGATA-GAAAATAAGTAAGATCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
46846229 TCATGTCAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 168 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:46859735 original size:12 final size:12
Alignment explanation
Indices: 46859718--46859744 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46859708 GTTTCAGGTG
46859718 TAATGCAATTAC
1 TAATGCAATTAC
46859730 TAATGCAATTAC
1 TAATGCAATTAC
46859742 TAA
1 TAA
46859745 GTAGTTAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (12 bp):
TAATGCAATTAC
Found at i:46861044 original size:23 final size:23
Alignment explanation
Indices: 46861016--46861060 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
46861006 AATCACTTTA
*
46861016 ATATTAAATTTAATCTAATATTT
1 ATATTAAATTAAATCTAATATTT
* *
46861039 ATATTAGATTAAATTTAATATT
1 ATATTAAATTAAATCTAATATT
46861061 AATCTTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTAAATTAAATCTAATATTT
Found at i:46866654 original size:15 final size:15
Alignment explanation
Indices: 46866629--46866675 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
46866619 TATGCATGAA
46866629 AAATATAAAAGATAT
1 AAATATAAAAGATAT
* *
46866644 GAATATTAAAGATAT
1 AAATATAAAAGATAT
* *
46866659 AAATACAAAAGACAT
1 AAATATAAAAGATAT
46866674 AA
1 AA
46866676 TAGTGAGATG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.23
Consensus pattern (15 bp):
AAATATAAAAGATAT
Found at i:46869430 original size:43 final size:42
Alignment explanation
Indices: 46869352--46869432 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
46869342 TCTAAACTCA
* **
46869352 TTCACCGGCATTTCGCCTGCTAGGCTTGAAACCCGATATCAT
1 TTCACCGGCATTTAGCCTGCTAGGCCCGAAACCCGATATCAT
* *
46869394 TTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TTCACCGGCATT-TAGCCTGCTAGGCCCGAAACCCGATA
46869433 ATATTATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 11 0.33
43 22 0.67
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (42 bp):
TTCACCGGCATTTAGCCTGCTAGGCCCGAAACCCGATATCAT
Found at i:46869630 original size:28 final size:28
Alignment explanation
Indices: 46869592--46869693 Score: 150
Period size: 28 Copynumber: 3.6 Consensus size: 28
46869582 GAATCATTCG
* *
46869592 ATATTTTGCACACGAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
46869620 ATATCTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
46869648 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
46869676 ATATTTCGTACACTAAGT
1 ATATTTCGCACACTAAGT
46869694 ACCATATTTG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:46873388 original size:15 final size:16
Alignment explanation
Indices: 46873368--46873397 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46873358 CTATAAAGAT
46873368 TATACATT-TCATATA
1 TATACATTCTCATATA
46873383 TATACATTCTCATAT
1 TATACATTCTCATAT
46873398 CTCATACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:46873563 original size:42 final size:43
Alignment explanation
Indices: 46873463--46873568 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 43
46873453 CAATGCCTAC
** * * * **
46873463 GTCCCAGATGTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGAAATTAAATATCGATGCCAAT
* *
46873506 GTCCCAAACAGGGTCTTACACGAAATTAAATA-CGATGCCAAT
1 GTCCCAGACATGGTCTTACACGAAATTAAATATCGATGCCAAT
46873548 GTCCCAGACATGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
46873569 ATAAATCTCA
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 27 0.52
43 25 0.48
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATTAAATATCGATGCCAAT
Found at i:46876106 original size:21 final size:21
Alignment explanation
Indices: 46876049--46876106 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
46876039 AATAATTATT
*
46876049 TGTTTTATGAATGATAATGAAA
1 TGTTATATGAATGA-AATGAAA
46876071 TGTTGA-AT-AAGTGAAATGAAA
1 TGTT-ATATGAA-TGAAATGAAA
*
46876092 TGTTATATGATTGAA
1 TGTTATATGAATGAA
46876107 TTACTATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
20 1 0.03
21 19 0.63
22 10 0.33
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (21 bp):
TGTTATATGAATGAAATGAAA
Found at i:46878981 original size:414 final size:414
Alignment explanation
Indices: 46878208--46879038 Score: 1410
Period size: 414 Copynumber: 2.0 Consensus size: 414
46878198 CTTAGAATTT
*
46878208 AAGATTTAAGTTGTTAGTTGATAACAGAGTCATTTCCCTATCGTTACAGTAACTTGTTATTGACC
1 AAGATTTAAGTTGTTAATTGATAACAGAGTCATTTCCCTATCGTTACAGTAACTTGTTATTGACC
*
46878273 ATAAAAAATTAATATTTGTTATGAATATTTTATTATTAAGTGGATGTCCATCAATATCAAGATAA
66 ATAAAAAATTAATATTTGTTATGAATATTTTATTATTAAGTGGATGTCCATCAAGATCAAGATAA
* *
46878338 ATTTTGATGTATTTAAAACTCTAATAGTAATTAGAAGTAGAGCTCTATTTTATTTATACTTCTTA
131 ATTTTGATGTACTTAAAACTCTAATAGTAATTAGAAGTAGAGCTCTATTTCATTTATACTTCTTA
* * * * *
46878403 TGTCTATAAATATATACTTTGAAAAAGTATTGTAGACTATTCCGATTGATCAATAAAATATGTTC
196 TGTCTATAAATATAGACTTTGAAAAAGCATTGTAGACTATTCCAATTAATCAATAAAATATATTC
* *
46878468 TCTCTTTGCTCTCCCATTTTCTTTGTTATTTACTCTTTGTCTATTTATTTTATAACACAATATCA
261 TCTCTTTGCTCTCCCATTTTCTTTGTCATTTACTCTTTGTCTATTTACTTTATAACACAATATCA
*
46878533 GCACGATTCTTTTTTAAATATTATTCTGCTTAAACTATTTCCCATAACCCAAACAAAGTTCTTTA
326 GCACGATTCTCTTTTAAATATTATTCTGCTTAAACTATTTCCCATAACCCAAACAAAGTTCTTTA
* *
46878598 AAAAATCCCTTGAAAACTAAAATC
391 AAAAATCCCTTCAAAACAAAAATC
** * * *
46878622 AAGATTTAAGTTGTTAATTGATAACAGAGTCATTTCTTTATTGTTATAGTAACTTGTTATTTACC
1 AAGATTTAAGTTGTTAATTGATAACAGAGTCATTTCCCTATCGTTACAGTAACTTGTTATTGACC
*
46878687 ATAAAAAATTAATATTTGTTATGAATATTTTATTATTAAGTGGATGTCCATTAAGATCAAGATAA
66 ATAAAAAATTAATATTTGTTATGAATATTTTATTATTAAGTGGATGTCCATCAAGATCAAGATAA
*
46878752 ATTTTGATGTACTTAAAACTCTAATAGTAATTAGAAGTAGGGCTCTATTTCATTTATACTTCTTA
131 ATTTTGATGTACTTAAAACTCTAATAGTAATTAGAAGTAGAGCTCTATTTCATTTATACTTCTTA
* *
46878817 TGTCTATAAATATAGACTTTGGAAAAGCATTGTAGACTATTCCAATTAATGAATAAAATATATTC
196 TGTCTATAAATATAGACTTTGAAAAAGCATTGTAGACTATTCCAATTAATCAATAAAATATATTC
* * *
46878882 TCTTTTTGCTCTCCCATTTTCTTTGTCCTTTACTCTTTGTCTATTTACTTTATAACACATTATCA
261 TCTCTTTGCTCTCCCATTTTCTTTGTCATTTACTCTTTGTCTATTTACTTTATAACACAATATCA
*
46878947 GCACGATTCTCTTTTAAATATTATTCTTCTTAAACTATTTCCCATAACCCAAACAAAGTTCTTTA
326 GCACGATTCTCTTTTAAATATTATTCTGCTTAAACTATTTCCCATAACCCAAACAAAGTTCTTTA
*
46879012 AAACATCCCTTCAAAACAAAAATC
391 AAAAATCCCTTCAAAACAAAAATC
46879036 AAG
1 AAG
46879039 GCTTGAACCA
Statistics
Matches: 389, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
414 389 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (414 bp):
AAGATTTAAGTTGTTAATTGATAACAGAGTCATTTCCCTATCGTTACAGTAACTTGTTATTGACC
ATAAAAAATTAATATTTGTTATGAATATTTTATTATTAAGTGGATGTCCATCAAGATCAAGATAA
ATTTTGATGTACTTAAAACTCTAATAGTAATTAGAAGTAGAGCTCTATTTCATTTATACTTCTTA
TGTCTATAAATATAGACTTTGAAAAAGCATTGTAGACTATTCCAATTAATCAATAAAATATATTC
TCTCTTTGCTCTCCCATTTTCTTTGTCATTTACTCTTTGTCTATTTACTTTATAACACAATATCA
GCACGATTCTCTTTTAAATATTATTCTGCTTAAACTATTTCCCATAACCCAAACAAAGTTCTTTA
AAAAATCCCTTCAAAACAAAAATC
Found at i:46880755 original size:75 final size:75
Alignment explanation
Indices: 46880636--46880807 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
46880626 CATGGAAAAG
** *
46880636 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
46880695 CCATACTGAGC
65 CCATACCGAGC
46880706 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
46880771 CATACCGAGT
66 CATACCGAGC
***
46880781 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
46880808 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:46880774 original size:35 final size:35
Alignment explanation
Indices: 46880639--46880805 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
46880629 GGAAAAGTGT
* **
46880639 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
46880674 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
46880709 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
46880749 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
46880785 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
46880806 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:46880797 original size:36 final size:35
Alignment explanation
Indices: 46880735--46880805 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
46880725 ATTATCAAAT
* *
46880735 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
46880770 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
46880806 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:46900845 original size:58 final size:58
Alignment explanation
Indices: 46900731--46900845 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 58
46900721 TTAAAAAATA
******
46900731 TTATAGTGAAGATGCTCAAATTGGGTTAAAATAATTAAATTGGGTTTAATTATTTTTT
1 TTATAGTGAAGATGCTCAAATTGGGTTAAAATAATTAAATAAAAACTAATTATTTTTT
*
46900789 TTATAGTGGAGATGCTCAAATTGGGTTAAAATAATTAAATAAAAACT-ATT-TTTTTT
1 TTATAGTGAAGATGCTCAAATTGGGTTAAAATAATTAAATAAAAACTAATTATTTTTT
46900845 T
1 T
46900846 CGAATGTGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 7 0.14
57 3 0.06
58 40 0.80
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.43
Consensus pattern (58 bp):
TTATAGTGAAGATGCTCAAATTGGGTTAAAATAATTAAATAAAAACTAATTATTTTTT
Found at i:46904255 original size:80 final size:80
Alignment explanation
Indices: 46904160--46904341 Score: 211
Period size: 80 Copynumber: 2.3 Consensus size: 80
46904150 GCTCGATTGT
* * *** * * * **
46904160 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
46904225 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* * *
46904240 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCTGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
46904305 TACTAGCATAATTGC
66 AACTAGCACAAATGC
46904320 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
46904342 CATTCCAATG
Statistics
Matches: 84, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:46904303 original size:40 final size:40
Alignment explanation
Indices: 46904146--46904341 Score: 178
Period size: 40 Copynumber: 4.9 Consensus size: 40
46904136 GGATATAGCG
* * * * * * * *
46904146 ACTCGCTCGATTGTCTTCGGGACCTAGCCCGGTTATAGTG
1 ACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATA
* * * * **
46904186 ATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTA
1 ACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATA
* * *
46904226 ACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACA
1 ACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATA
* *
46904266 ACTCGCACGAATGCCTTCGGGTCTTAGCCCTGATATAATT
1 ACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATA
* * *
46904306 ACTAGCA-TAATTGCCTTCGGGACTTAGCCCGGATAT
1 ACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT
46904342 CATTCCAATG
Statistics
Matches: 127, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
39 2 0.02
40 125 0.98
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATA
Found at i:46908079 original size:58 final size:57
Alignment explanation
Indices: 46908016--46908180 Score: 172
Period size: 58 Copynumber: 2.9 Consensus size: 57
46908006 TTTTTATACT
* * * *
46908016 ATTATATATTATGATTT-TTTAATT-CATTTAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTAAATTACATTTAATAATAATCATATTAA-AATATGATTAA
* * *
46908074 ATTATATATTATTTTATTAAATTATATTTAGTAATAATCATGTTAAAATATGATTAA
1 ATTATATATTATTTTATTAAATTACATTTAATAATAATCATATTAAAATATGATTAA
* * ** *
46908131 ATTATTTATTATTTTTATTAAAATATTTTTAATAATAATCTTATTAAAAT
1 ATTATATATTA-TTTTATTAAATTACATTTAATAATAATCATATTAAAAT
46908181 TTAATAATAA
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
56 3 0.03
57 25 0.27
58 63 0.69
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (57 bp):
ATTATATATTATTTTATTAAATTACATTTAATAATAATCATATTAAAATATGATTAA
Found at i:46908379 original size:12 final size:11
Alignment explanation
Indices: 46908315--46908380 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 11
46908305 AATAATAATT
46908315 TTATATTAAAA
1 TTATATTAAAA
46908326 TTATTATT-AAA
1 TTA-TATTAAAA
46908337 -TATTATTAATAA
1 TTA-TATTAA-AA
46908349 TTATATTAATAA
1 TTATATTAA-AA
46908361 TGT-TATTAAAA
1 T-TATATTAAAA
46908372 TATATATTA
1 T-TATATTA
46908381 TTTTATTAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
10 7 0.15
11 11 0.23
12 27 0.56
13 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (11 bp):
TTATATTAAAA
Found at i:46908609 original size:39 final size:40
Alignment explanation
Indices: 46908553--46908658 Score: 99
Period size: 44 Copynumber: 2.5 Consensus size: 40
46908543 TTTTCTTATG
*
46908553 CTATTACAACATC-ATTCCATTCAACCAAACACAAGAATT-
1 CTATTACAGC-TCTATTCCATTCAACCAAACACAAGAATTA
***
46908592 CTATTACAGCTCTATTCCATTCCATTCAACCAAACAGTTGAATTA
1 CTATTACAGCTC---T--ATTCCATTCAACCAAACACAAGAATTA
46908637 CTGATTACAGCTCTATTCCATT
1 CT-ATTACAGCTCTATTCCATT
46908659 ACAGCTATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
38 2 0.04
39 9 0.16
41 8 0.15
43 1 0.02
44 23 0.42
45 2 0.04
46 10 0.18
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (40 bp):
CTATTACAGCTCTATTCCATTCAACCAAACACAAGAATTA
Found at i:46908635 original size:44 final size:46
Alignment explanation
Indices: 46908565--46908658 Score: 147
Period size: 44 Copynumber: 2.1 Consensus size: 46
46908555 ATTACAACAT
46908565 CATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
***
46908609 CATTCCATTCAACCAAACAGTTGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
46908655 CATT
1 CATT
46908659 ACAGCTATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 24 0.53
45 2 0.04
46 19 0.42
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (46 bp):
CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
Found at i:46908661 original size:16 final size:16
Alignment explanation
Indices: 46908640--46908694 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
46908630 TGAATTACTG
46908640 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
46908656 ATTACAGCTATATTCA
1 ATTACAGCTCTATTCC
*
46908672 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
46908688 ATTACAG
1 ATTACAG
46908695 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:46911630 original size:10 final size:10
Alignment explanation
Indices: 46911617--46911655 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
46911607 AACAAATATT
46911617 TTTAAAAAAA
1 TTTAAAAAAA
*
46911627 TTT-AAAAAT
1 TTTAAAAAAA
46911636 TATTAAAAAAA
1 T-TTAAAAAAA
46911647 TTTAAAAAA
1 TTTAAAAAA
46911656 CGTAGGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 6 0.24
10 13 0.52
11 6 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:46911703 original size:25 final size:25
Alignment explanation
Indices: 46911674--46911729 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
46911664 TAAGATAAAC
*
46911674 TTAAATAAATAACATCCAA-ATTTAT
1 TTAAAT-AAGAACATCCAATATTTAT
**
46911699 TTAAATGCGAACATCCAATATTTAT
1 TTAAATAAGAACATCCAATATTTAT
46911724 TTAAAT
1 TTAAAT
46911730 TCATTTTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (25 bp):
TTAAATAAGAACATCCAATATTTAT
Found at i:46913476 original size:11 final size:11
Alignment explanation
Indices: 46913447--46913489 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
46913437 CAAGGCTTCA
*
46913447 TTTTTTTTGTG
1 TTTTTTTTGTT
*
46913458 TTTGTTTTGTT
1 TTTTTTTTGTT
*
46913469 TTTTTTTTTTT
1 TTTTTTTTGTT
46913480 TTCTTTTTTG
1 TT-TTTTTTG
46913490 GGGTGTGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 20 0.77
12 6 0.23
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:46921358 original size:15 final size:15
Alignment explanation
Indices: 46921338--46921368 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
46921328 GCACTGTTGC
46921338 TGTTCAACACTATTT
1 TGTTCAACACTATTT
46921353 TGTTCAACACTATTT
1 TGTTCAACACTATTT
46921368 T
1 T
46921369 ACTACTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (15 bp):
TGTTCAACACTATTT
Found at i:46921687 original size:49 final size:49
Alignment explanation
Indices: 46921615--46921790 Score: 217
Period size: 49 Copynumber: 3.6 Consensus size: 49
46921605 TCTGGTATGT
* **
46921615 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTAGTACAC
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACAC
* * * * * * *
46921664 ATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGAACGC
1 ATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCCGGTACAC
46921715 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACAC
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACAC
* * *
46921764 GTAATAGCCTGCACTTAGTAATACACA
1 ATAGTAGCCTGCACTTAGTACTACACA
46921791 CGTGACTTCA
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 65 0.61
50 2 0.02
51 39 0.37
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACAC
Found at i:46921726 original size:100 final size:100
Alignment explanation
Indices: 46921615--46921795 Score: 308
Period size: 100 Copynumber: 1.8 Consensus size: 100
46921605 TCTGGTATGT
* *
46921615 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTAGTACACATAGTAGCCTGCACTT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACATAATAGCCTGCACTT
*
46921680 AGTACTACACACGTGATCACAGTTTTCGGGAACGC
66 AGTAATACACACGTGATCACAGTTTTCGGGAACGC
* * *
46921715 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAATAGCCTGCACTT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACATAATAGCCTGCACTT
46921780 AGTAATACACACGTGA
66 AGTAATACACACGTGA
46921796 CTTCACAATA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 75 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (100 bp):
ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACATAATAGCCTGCACTT
AGTAATACACACGTGATCACAGTTTTCGGGAACGC
Found at i:46933502 original size:40 final size:40
Alignment explanation
Indices: 46933428--46933599 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 40
46933418 GATAATCGGA
* ** *
46933428 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGGG
* * *
46933468 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTG-TTATATCCGGG
* *
46933508 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGGG
46933548 CTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGGG
46933587 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
46933600 ATGCTTGGGT
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 97 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGGG
Found at i:46933561 original size:80 final size:79
Alignment explanation
Indices: 46933428--46933599 Score: 258
Period size: 80 Copynumber: 2.2 Consensus size: 79
46933418 GATAATCGGA
* * * *
46933428 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTATGCTA
1 CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
46933493 G-TGATTATATCCGGG
66 GTTG-TTATATCC-GG
*
46933508 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
1 CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
46933573 GTTGTTATATCCGG
66 GTTGTTATATCCGG
46933587 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
46933600 ATGCTTGGGT
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 69 0.81
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
GTTGTTATATCCGG
Found at i:46935300 original size:47 final size:46
Alignment explanation
Indices: 46935238--46935451 Score: 183
Period size: 47 Copynumber: 4.6 Consensus size: 46
46935228 GACGAGGGTT
* * *
46935238 AGTGTAAGACATGTCTGGAACATGCATCAGC-CATACTATGA-TAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACAGA-GATGAGT-GCC
* *
46935284 AGTGTAAGACCGTGTCTGGGACATGGCATCGGCACAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAGAGATGAGTGCC
* *
46935332 AGTGTAAGACATGTCTGGGACATGCATCGGTCTTGACAGAGAT-A--GCT
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C---ACAGAGATGAGTGCC
* * * * *
46935379 AGTGTAAGACGTGTCTGGGTCACGCATCAGCTA-AGAG-T-TGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-ACAGAGATGAGTGCC
46935423 AGTGTAAGACATGTCTGGGACATGCATCA
1 AGTGTAAGACATGTCTGGGACATGCATCA
46935452 TGTAACGCCC
Statistics
Matches: 142, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 30 0.21
46 17 0.12
47 54 0.38
48 23 0.16
49 5 0.04
50 8 0.06
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACAGAGATGAGTGCC
Found at i:46935392 original size:94 final size:94
Alignment explanation
Indices: 46935144--46935451 Score: 288
Period size: 94 Copynumber: 3.3 Consensus size: 94
46935134 TTTGTGCGTC
* * * * * * * * * * *
46935144 AGTGTAAGAAATGTCTAGGACATGCTTCGGCCACATTATGAGAACCAGTGTAAGCCCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTAAGATAGCCAGTGTAAGACCGTGTCTGG
* * * * *
46935209 GACATGGTATCGGCATC-CAGACGAGGGTT
66 GACATGGCATCGGCA-CAGAGATGAGTGCT
* *
46935238 AGTGTAAGACATGTCTGGAACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCGTGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTAAGATAGCCAGTGTAAGACCGTGTCTGG
*
46935303 GACATGGCATCGGCACAGAGATGAGTGCC
66 GACATGGCATCGGCACAGAGATGAGTGCT
* * * *
46935332 AGTGTAAGACATGTCTGGGACATGCATCGGTCTTGAC-AGAGATAGCTAGTGTAAGA-CGTGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT-ACTA-AGATAGCCAGTGTAAGACCGTGTCT
* * * *
46935395 GGGTCA-CGCATCAGCTA-AGAG-T-TGTGCT
64 GGGACATGGCATCGGC-ACAGAGATGAGTGCT
46935423 AGTGTAAGACATGTCTGGGACATGCATCA
1 AGTGTAAGACATGTCTGGGACATGCATCA
46935452 TGTAACGCCC
Statistics
Matches: 181, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
91 32 0.18
92 1 0.01
93 12 0.07
94 119 0.66
95 17 0.09
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTAAGATAGCCAGTGTAAGACCGTGTCTGG
GACATGGCATCGGCACAGAGATGAGTGCT
Found at i:46937254 original size:47 final size:47
Alignment explanation
Indices: 46937184--46937309 Score: 216
Period size: 47 Copynumber: 2.7 Consensus size: 47
46937174 CCCTTCGGGA
* * *
46937184 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
46937231 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
46937278 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATTCATCA
46937310 ATTTCATCAT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:46937284 original size:22 final size:22
Alignment explanation
Indices: 46937212--46937287 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
46937202 TTTCACATCC
*
46937212 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
46937234 ATCACATATATACACATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
46937258 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
46937281 ATCACAT
1 ATCACAT
46937288 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 5 0.12
24 5 0.12
25 11 0.28
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:46940783 original size:28 final size:28
Alignment explanation
Indices: 46940751--46940844 Score: 82
Period size: 28 Copynumber: 3.3 Consensus size: 28
46940741 TTCACGCACT
* *
46940751 TAGTGCCCACTGACCGATCTCGCACACA
1 TAGTGCCCAATGACAGATCTCGCACACA
* * *
46940779 TAGTGCTCAGTTGA-AGAACTCGCACACA
1 TAGTGCCCA-ATGACAGATCTCGCACACA
* * * *
46940807 CAGTGCCTCAATTACTGATTTCGCACACA
1 TAGTGCC-CAATGACAGATCTCGCACACA
46940836 TAGTGCCCA
1 TAGTGCCCA
46940845 TATTCATTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
28 29 0.57
29 22 0.43
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (28 bp):
TAGTGCCCAATGACAGATCTCGCACACA
Found at i:46941032 original size:43 final size:43
Alignment explanation
Indices: 46940973--46941240 Score: 448
Period size: 43 Copynumber: 6.3 Consensus size: 43
46940963 CCTTGCTCGA
** **
46940973 ATCACCGGCATTAAGCCTGCTAGGCACGAAAACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* * *
46941016 ATTATCGGCACAAAGCCTGCTAGGCACGAAGGCCTGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
46941059 ATCATCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
46941102 ATCA-TGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
46941144 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
46941187 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
46941230 ATCACCGGCAC
1 ATCACCGGCAC
46941241 GAATGCTCTT
Statistics
Matches: 213, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
42 41 0.19
43 172 0.81
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.14
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:46941213 original size:128 final size:128
Alignment explanation
Indices: 46940985--46941233 Score: 444
Period size: 128 Copynumber: 1.9 Consensus size: 128
46940975 CACCGGCATT
* *
46940985 AAGCCTGCTAGGCACGAAAACCCGAATACATATTATCGGCACAAAGCCTGCTAGGCACGAAGGCC
1 AAGCCTGCTAGGCACGAAAACCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCC
* *
46941050 TGAATACATATCATCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCATGGCACA
66 CGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCATGGCACA
**
46941113 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCC
1 AAGCCTGCTAGGCACGAAAACCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCC
46941178 CGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCA
66 CGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCA
46941234 CCGGCACGAA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 115 1.00
ACGTcount: A:0.34, C:0.30, G:0.22, T:0.14
Consensus pattern (128 bp):
AAGCCTGCTAGGCACGAAAACCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCC
CGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCATGGCACA
Found at i:46943292 original size:47 final size:47
Alignment explanation
Indices: 46943222--46943394 Score: 283
Period size: 47 Copynumber: 3.7 Consensus size: 47
46943212 CCCTTCGGGA
* *
46943222 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
46943269 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
46943316 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
46943363 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATCCATCA
46943395 ATTTCATCAT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:46943369 original size:22 final size:22
Alignment explanation
Indices: 46943297--46943372 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
46943287 CTTCACATCC
*
46943297 ATCACATCGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
46943319 ATCACATATATACACATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
46943343 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
46943366 ATCACAT
1 ATCACAT
46943373 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:46947614 original size:40 final size:39
Alignment explanation
Indices: 46947449--46947632 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
46947439 AAATTGAATG
* * *
46947449 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
46947489 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
46947529 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
46947569 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
46947608 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
46947633 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:46947657 original size:80 final size:81
Alignment explanation
Indices: 46947489--46947677 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
46947479 GCTGGAAATT
* * * *
46947489 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
46947554 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
46947570 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
46947633 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
46947649 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
46947678 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:46955708 original size:40 final size:39
Alignment explanation
Indices: 46955544--46955726 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
46955534 AAATTGAATG
* * *
46955544 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * *
46955584 ATA-CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
46955623 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
46955663 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
46955702 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
46955727 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
36 4 0.04
37 2 0.02
38 2 0.02
39 21 0.19
40 84 0.74
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:46955709 original size:80 final size:80
Alignment explanation
Indices: 46955587--46955735 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
46955577 GGAAATTATA
* * * *
46955587 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
46955652 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
46955667 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
46955731 GTGCG
65 GTGCG
46955736 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:46960762 original size:30 final size:30
Alignment explanation
Indices: 46960717--46960776 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
46960707 ATTTAATACG
*
46960717 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
46960747 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
46960777 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:46965240 original size:40 final size:40
Alignment explanation
Indices: 46965181--46965387 Score: 204
Period size: 40 Copynumber: 5.2 Consensus size: 40
46965171 CAATTGAATG
* * * * *
46965181 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * **
46965221 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACCT
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGT-AGTT
* * *
46965262 -CATCC-GGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * *
46965300 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * * *
46965340 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
46965380 ATATCCGG
1 ATATCCGG
46965388 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
38 3 0.02
39 27 0.20
40 104 0.75
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
Found at i:46965319 original size:79 final size:80
Alignment explanation
Indices: 46965182--46965387 Score: 229
Period size: 79 Copynumber: 2.6 Consensus size: 80
46965172 AATTGAATGA
* * ** * ** * *
46965182 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGG-CA
*
46965247 -TTGTGCTAGT-GACC
65 TTTGTGCAAGTCGACC
* *
46965261 TCATCC-GGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCA
1 T-ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCA
**
46965325 TTTGTGCAAGTCGTTC
65 TTTGTGCAAGTCGACC
* *
46965341 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGG
46965388 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
78 2 0.02
79 60 0.56
80 45 0.42
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAT
TTGTGCAAGTCGACC
Found at i:46969887 original size:178 final size:178
Alignment explanation
Indices: 46969587--46969917 Score: 590
Period size: 178 Copynumber: 1.9 Consensus size: 178
46969577 GTGCAACCTA
46969587 CACAAGCCATGCTCAAGCAACAACAAAGGACCAATCTATAAAGAACGAAGGCTACAAATCGAGAA
1 CACAAGCCATGCTCAAGCAACAACAAAGGACCAATCTATAAAGAACGAAGGCTACAAATCGAGAA
* *
46969652 ACTAGATGAATGGCAGATACAGAAATTGAGAACACCTGATAAACCGAAACTAAGCCAGGACGAGC
66 ACTAGATGAATGGCAGATACAGAAATCGAGAACACCTGATAAACCGAAACCAAGCCAGGACGAGC
46969717 TCAATACATCACCAAATCAACTTTGTAGGAAATAAGTTTGAAGAACCG
131 TCAATACATCACCAAATCAACTTTGTAGGAAATAAGTTTGAAGAACCG
* * *
46969765 CACAAGCCATGTTCAAGCAACAACAAAGGACCTATCTATAAAGAACGAAGGCTACAAATTGAGAA
1 CACAAGCCATGCTCAAGCAACAACAAAGGACCAATCTATAAAGAACGAAGGCTACAAATCGAGAA
* *
46969830 ACTAGATGAATGGCGGATACAGAAATCGAGAACACCTGATAAATCGAAACCAAGCCAGGACGAGC
66 ACTAGATGAATGGCAGATACAGAAATCGAGAACACCTGATAAACCGAAACCAAGCCAGGACGAGC
*
46969895 TCAATACATCACCAAATTAACTT
131 TCAATACATCACCAAATCAACTT
46969918 AAGTTTGGAG
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
178 145 1.00
ACGTcount: A:0.44, C:0.22, G:0.18, T:0.16
Consensus pattern (178 bp):
CACAAGCCATGCTCAAGCAACAACAAAGGACCAATCTATAAAGAACGAAGGCTACAAATCGAGAA
ACTAGATGAATGGCAGATACAGAAATCGAGAACACCTGATAAACCGAAACCAAGCCAGGACGAGC
TCAATACATCACCAAATCAACTTTGTAGGAAATAAGTTTGAAGAACCG
Found at i:46974805 original size:40 final size:40
Alignment explanation
Indices: 46974742--46974895 Score: 184
Period size: 40 Copynumber: 3.9 Consensus size: 40
46974732 CATTGGAATG
* *
46974742 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTATT
* * * *
46974782 ATATCCGGGCTAAGACCCAAAGGC-ATTCATGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTTATT
* * **
46974822 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTATT
* *
46974862 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA
46974896 ATCACTATAA
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 3 0.03
40 90 0.95
41 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTATT
Found at i:46982824 original size:40 final size:40
Alignment explanation
Indices: 46982765--46982916 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
46982755 CATTGGAATG
* *
46982765 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTATT
* * *
46982805 ATATCTGGGCTAAGACCCGAAGGC-ATTCATG-TGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCT-AGTTATT
* * **
46982845 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTATT
* *
46982885 AAATCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
46982917 GAATCACTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
39 4 0.04
40 87 0.94
41 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTATT
Found at i:46982933 original size:40 final size:40
Alignment explanation
Indices: 46982769--46982951 Score: 140
Period size: 40 Copynumber: 4.6 Consensus size: 40
46982759 GGAATGATAT
* * * * *
46982769 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCACTATAA
* * *** *
46982809 CTGGGCTAAGACCCGAAGGCATTCATGTG--AGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAAT--TGTGCAAGTCACTATAA
* * *
46982849 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCA-AA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCACTATAA
*
46982888 TCCGGGTTAAGACCCGAAGGCAATTGTGCGAA-TCACTATAA
1 -CCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTCACTATAA
* * *
46982929 CCGGGCTATGTCCCGAAGACAAT
1 CCGGGCTAAGACCCGAAGGCAAT
46982952 CGAGTGAGTC
Statistics
Matches: 118, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
38 4 0.03
39 1 0.01
40 105 0.89
41 4 0.03
42 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCACTATAA
Found at i:46991996 original size:93 final size:93
Alignment explanation
Indices: 46991884--46992055 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
46991874 GCCCATAAGT
* *
46991884 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46991949 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
46991977 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46992042 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
46992056 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46992051 original size:46 final size:46
Alignment explanation
Indices: 46991876--46992051 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
46991866 TGTAACCCGC
* * *
46991876 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
46991922 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
46991972 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
46992015 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46992052 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:46994478 original size:30 final size:30
Alignment explanation
Indices: 46994434--46994522 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
46994424 CAAAGATAAC
46994434 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
46994463 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
46994493 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
46994523 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:46994482 original size:15 final size:15
Alignment explanation
Indices: 46994434--46994513 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
46994424 CAAAGATAAC
*
46994434 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
46994448 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
46994463 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
46994478 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
46994493 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
46994508 AAGAAA
1 AAGAAA
46994514 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:46994522 original size:15 final size:15
Alignment explanation
Indices: 46994445--46994522 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
46994435 AGAAAACCGA
46994445 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
46994460 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
46994474 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
46994489 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
46994505 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
46994520 ATA
1 ATA
46994523 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:46997550 original size:93 final size:93
Alignment explanation
Indices: 46997438--46997609 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
46997428 GCCCATAAGT
* *
46997438 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46997503 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
46997531 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46997596 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
46997610 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46997605 original size:46 final size:46
Alignment explanation
Indices: 46997430--46997605 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
46997420 TGTAACCCGC
* * *
46997430 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
46997476 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
46997526 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
46997569 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46997606 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:47003400 original size:21 final size:21
Alignment explanation
Indices: 47003358--47003409 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 21
47003348 TAGGGAACAT
* **
47003358 ATGCCCATGTAGTCCAGGGAC
1 ATGCCCGTGTAGTCCAAAGAC
*
47003379 ATGCCCGTGTGGTCCAAAGAC
1 ATGCCCGTGTAGTCCAAAGAC
* *
47003400 ACGCTCGTGT
1 ATGCCCGTGT
47003410 TGCAGGCCGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (21 bp):
ATGCCCGTGTAGTCCAAAGAC
Found at i:47007906 original size:46 final size:46
Alignment explanation
Indices: 47007719--47007896 Score: 266
Period size: 46 Copynumber: 3.9 Consensus size: 46
47007709 ATATATATAT
* * * *
47007719 ATATACATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
*
47007765 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
* * **
47007811 ATATCCATCTCATACACGTTTCGCATTAGCCATTTGAATTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
*
47007857 ATATCCATCTCATACACATTTCGTATTAGCCATTCGGCTT
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTT
47007897 CGCCACATAT
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 119 1.00
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (46 bp):
ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
Found at i:47007951 original size:47 final size:47
Alignment explanation
Indices: 47007920--47008160 Score: 437
Period size: 47 Copynumber: 5.1 Consensus size: 47
47007910 CACTTCCACG
**
47007920 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
47007967 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
47008014 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
47008061 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
47008108 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
47008155 TTCATC
1 TTCATC
47008161 TCATAAAATC
Statistics
Matches: 186, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 186 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:47013182 original size:17 final size:17
Alignment explanation
Indices: 47013160--47013205 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
47013150 TTCAAGATAT
47013160 ATCAATCAAAATCATAA
1 ATCAATCAAAATCATAA
47013177 ATCAATCAAAATCATAA
1 ATCAATCAAAATCATAA
47013194 ATCAATCAAAAT
1 ATCAATCAAAAT
47013206 TTATCCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (17 bp):
ATCAATCAAAATCATAA
Found at i:47013200 original size:11 final size:10
Alignment explanation
Indices: 47013160--47013205 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
47013150 TTCAAGATAT
47013160 ATCAATCAAA
1 ATCAATCAAA
47013170 ATC-AT--AA
1 ATCAATCAAA
47013177 ATCAATCAAA
1 ATCAATCAAA
47013187 ATC-AT--AA
1 ATCAATCAAA
47013194 ATCAATCAAA
1 ATCAATCAAA
47013204 AT
1 AT
47013206 TTATCCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 10 0.33
8 4 0.13
9 4 0.13
10 12 0.40
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (10 bp):
ATCAATCAAA
Found at i:47020865 original size:42 final size:42
Alignment explanation
Indices: 47020783--47020943 Score: 173
Period size: 43 Copynumber: 3.8 Consensus size: 42
47020773 GAAGTTTGAA
* * * *
47020783 CTCGTTGAGTGGTCCAGGTTCGTGATATG-TGTG-GCGTCCGAG
1 CTCGTTGAGTGGTCCA-GTTCATTATA-GATGCGAGCATCCGAG
*
47020825 CTTGTTGAGTGGTCCAGTTCATTATAGATGCGAGCATCCGAG
1 CTCGTTGAGTGGTCCAGTTCATTATAGATGCGAGCATCCGAG
* *
47020867 CTCGTTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCCAAG
1 CTCGTTGAGTGGTCC-AGTTCATTATAGATGCGAGCATCCGAG
* * * *
47020910 CTCATTGAGTGGTTCGAGTTCATAATTGATGCGA
1 CTCGTTGAGTGG-TCCAGTTCATTATAGATGCGA
47020944 TACATGTGAT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
40 1 0.01
41 11 0.11
42 37 0.36
43 52 0.50
44 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (42 bp):
CTCGTTGAGTGGTCCAGTTCATTATAGATGCGAGCATCCGAG
Found at i:47020901 original size:43 final size:43
Alignment explanation
Indices: 47020819--47020943 Score: 180
Period size: 43 Copynumber: 2.9 Consensus size: 43
47020809 ATGTGTGGCG
*
47020819 TCCGAGCTTGTTGAGTGGTCC-AGTTCATTATAGATGCGAGCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATTATAGATGCGAGCA
*
47020861 TCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCGAGCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATTATAGATGCGAGCA
* * * * *
47020904 TCCAAGCTCATTGAGTGGTTCGAGTTCATAATTGATGCGA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATTATAGATGCGA
47020944 TACATGTGAT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 20 0.27
43 55 0.73
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGTGGTCCGAGTTCATTATAGATGCGAGCA
Found at i:47024901 original size:23 final size:24
Alignment explanation
Indices: 47024870--47024926 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
47024860 TATAGCCCTG
**
47024870 ATAAGCTTCTTGAAA-GGCTCTTT
1 ATAAGCTTCCCGAAATGGCTCTTT
*
47024893 ATGAGCTTCCCGAAATGGCTCTTT
1 ATAAGCTTCCCGAAATGGCTCTTT
*
47024917 GTAAGCTTCC
1 ATAAGCTTCC
47024927 TGATTATGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (24 bp):
ATAAGCTTCCCGAAATGGCTCTTT
Found at i:47027551 original size:74 final size:74
Alignment explanation
Indices: 47027430--47027578 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
47027420 GTTGGATTGA
47027430 CCCAATAAGAATAGACCCTGAATCCATTTATGACTTTATTAAATTCTGACATTCAAATTTTGGCA
1 CCCAATAAGAATAGACCCTGAATCCATTTATGACTTTATTAAATTCTGACATTCAAATTTTGGCA
47027495 TACCTTAAT
66 TACCTTAAT
* *
47027504 CCCAATAAGAATAGAGCCTGAATCCATTTATGGCTTTATTAAATTCTGACATTCAAATTTTGGCA
1 CCCAATAAGAATAGACCCTGAATCCATTTATGACTTTATTAAATTCTGACATTCAAATTTTGGCA
47027569 TACCTTAAT
66 TACCTTAAT
47027578 C
1 C
47027579 TTGAGTGGAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (74 bp):
CCCAATAAGAATAGACCCTGAATCCATTTATGACTTTATTAAATTCTGACATTCAAATTTTGGCA
TACCTTAAT
Found at i:47028483 original size:20 final size:18
Alignment explanation
Indices: 47028460--47028501 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
47028450 GAGTTGAGAA
*
47028460 AATTATTTAATTAGGAAATT
1 AATTAATTAATTA-G-AATT
47028480 AATTAATTAATTAGAATT
1 AATTAATTAATTAGAATT
47028498 AATT
1 AATT
47028502 CTTGATGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 1 0.05
20 12 0.57
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (18 bp):
AATTAATTAATTAGAATT
Found at i:47031897 original size:40 final size:40
Alignment explanation
Indices: 47031770--47031899 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
47031760 ATGCTGGAAA
* * * * *
47031770 TTATATCCGGGTTAAGACCTGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
47031810 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
47031850 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
47031890 TTATATCCGG
1 TTATATCCGG
47031900 TTATATTCCG
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 2 0.03
40 68 0.97
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:47059647 original size:15 final size:15
Alignment explanation
Indices: 47059627--47059682 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
47059617 GTATCTTGGG
47059627 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
47059642 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
47059657 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
47059672 TTTCTTTATTC
1 TTTCTTTATTC
47059683 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:47078706 original size:46 final size:46
Alignment explanation
Indices: 47078653--47078781 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
47078643 TATTTGGGCA
*
47078653 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
47078699 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
47078745 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47078782 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:47081766 original size:15 final size:15
Alignment explanation
Indices: 47081727--47081805 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
47081717 GTATCTTGGG
*
47081727 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
47081742 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
47081757 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
47081771 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
47081786 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
47081800 TTTCTT
1 TTTCTT
47081806 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:47081790 original size:29 final size:29
Alignment explanation
Indices: 47081718--47081804 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
47081708 CATAGTATCG
* * * *
47081718 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
47081748 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
47081777 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
47081805 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:47084242 original size:46 final size:46
Alignment explanation
Indices: 47084189--47084364 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
47084179 TATTTGGGCA
47084189 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
47084235 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
47084282 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
47084328 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47084365 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:47084344 original size:93 final size:93
Alignment explanation
Indices: 47084185--47084356 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47084175 GGGATATTTG
* *
47084185 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
47084250 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
47084278 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
47084343 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
47084357 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:47088466 original size:35 final size:35
Alignment explanation
Indices: 47088427--47088496 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
47088417 GACCTGATAT
47088427 TACTTATGGTGAGGAATCGATCAAGATTTTAGCTA
1 TACTTATGGTGAGGAATCGATCAAGATTTTAGCTA
47088462 TACTTATGGTGAGGAATCGATCAAGATTTTAGCTA
1 TACTTATGGTGAGGAATCGATCAAGATTTTAGCTA
47088497 AGGAAGTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
TACTTATGGTGAGGAATCGATCAAGATTTTAGCTA
Found at i:47096713 original size:40 final size:40
Alignment explanation
Indices: 47096576--47096761 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
47096566 TTGAATGATG
* * *
47096576 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
47096616 TCCGGACTAAAAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47096656 TCCGGACTAAGAT-CCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47096696 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47096737 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47096762 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.02
40 113 0.89
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47096768 original size:80 final size:79
Alignment explanation
Indices: 47096629--47096784 Score: 194
Period size: 80 Copynumber: 2.0 Consensus size: 79
47096619 GGACTAAAAT
*
47096629 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTATGCGAGTTA-CT
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTATACGAG-TAGCT
47096693 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
47096709 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGA-ACGAGTAG
1 CCGAAGGCATTCGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTT-ATACGAGTAG
*
47096771 CTATATCCGGTTAA
63 CTAAATCCGGTTAA
47096785 ACTCCGAAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
79 9 0.13
80 55 0.82
81 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTATACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:47103449 original size:6 final size:6
Alignment explanation
Indices: 47103431--47103460 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
47103421 GCAAATATAT
47103431 CATTTC TCATTTC CATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTT
47103461 TAAGAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:47116510 original size:40 final size:39
Alignment explanation
Indices: 47116377--47116561 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
47116367 GCTACTCGTT
* *
47116377 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGTCCGGATT-TAGTAACTCGCA
**
47116417 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGTCCGGATTTAGTAACTCGCA
* *
47116457 TAAATGCCTTCGGATCTTAGTCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGTCCGGATTTAGTAACTCGCA
* * * *
47116497 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGTCCGGATTTAGTAAC-TCGCA
*
47116538 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGTCCGGA
47116562 CATCATTGAA
Statistics
Matches: 128, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 13 0.10
40 106 0.83
41 9 0.07
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGTCCGGATTTAGTAACTCGCA
Found at i:47118525 original size:2 final size:2
Alignment explanation
Indices: 47118518--47118552 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
47118508 CTTCGTTAGT
* *
47118518 GA GA GA GA GA TA GA GA GA AA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
47118553 TTACAAGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.46, T:0.03
Consensus pattern (2 bp):
GA
Found at i:47121382 original size:18 final size:18
Alignment explanation
Indices: 47121359--47121394 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
47121349 TTTGCCTGAG
47121359 TTAAACTTGTCTCTGGTT
1 TTAAACTTGTCTCTGGTT
47121377 TTAAACTTGTCTCTGGTT
1 TTAAACTTGTCTCTGGTT
47121395 GGTAGGTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (18 bp):
TTAAACTTGTCTCTGGTT
Found at i:47139253 original size:39 final size:39
Alignment explanation
Indices: 47139199--47139389 Score: 310
Period size: 39 Copynumber: 4.9 Consensus size: 39
47139189 AATGTTCGAG
47139199 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
47139238 TGATACCCGGGCTAAGCCCGAAGGCAATTGTACGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
47139277 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
47139316 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
47139355 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
47139390 GGTTACCATA
Statistics
Matches: 141, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 124 0.88
40 17 0.12
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:47143005 original size:29 final size:29
Alignment explanation
Indices: 47142972--47143103 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
47142962 GTGACGAGAT
47142972 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
47143001 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
47143030 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
47143059 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
47143088 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47143104 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:47150865 original size:29 final size:29
Alignment explanation
Indices: 47150832--47150962 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
47150822 GTGACGAGAT
47150832 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
47150861 TGGCACTAAGTGTGCATGCTGG-AATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
47150889 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
47150918 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
47150947 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47150963 AAATCGAGTA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 27 0.31
29 59 0.69
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:47150895 original size:28 final size:29
Alignment explanation
Indices: 47150832--47150903 Score: 128
Period size: 28 Copynumber: 2.5 Consensus size: 29
47150822 GTGACGAGAT
*
47150832 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47150861 TGGCACTAAGTGTGCATGCTGG-AATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47150889 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47150904 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:47156133 original size:40 final size:40
Alignment explanation
Indices: 47156083--47156270 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
47156073 TTGACGACAA
* *
47156083 TTCGGTTATGTATGGCACTTAGTGTGCTATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCTATTTGAGATAGC
47156123 TTCGGCTATGTATGGCACTTAGTGTGCTATTTGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCTATTTGAGATAGC
*
47156163 TTCGGCTATGTATGGCACTTAATGTG-TGATTTGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCT-ATTTGAGATAGC
* * * * * *
47156203 TTCGGCTATGTATTGCACTTAGTGTTCGAGATTAAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCTA-TTTGAGATAGC
* *
47156244 TCCGGCTATGTATTTGCACTTAGTGTG
1 TTCGGCTATGTA-TGGCACTTAGTGTG
47156271 AGAGAATTCG
Statistics
Matches: 132, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 99 0.75
41 19 0.14
42 13 0.10
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTGTGCTATTTGAGATAGC
Found at i:47156361 original size:24 final size:24
Alignment explanation
Indices: 47156333--47156382 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
47156323 TTGGTTCAAG
47156333 TATGTATATAAATCATACGAGATT
1 TATGTATATAAATCATACGAGATT
* *
47156357 TATGTATATGAATCATACGAGCTT
1 TATGTATATAAATCATACGAGATT
47156381 TA
1 TA
47156383 AATTGAAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (24 bp):
TATGTATATAAATCATACGAGATT
Found at i:47161323 original size:40 final size:40
Alignment explanation
Indices: 47161256--47161517 Score: 303
Period size: 40 Copynumber: 6.5 Consensus size: 40
47161246 ATTCAGTTAG
* * *
47161256 GTATGGCACTTAGTGTTCTATTCGAGATAACTTCGGCTAT
1 GTATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTAT
* * *
47161296 CTATGGCACTTAGTGTGCGATTTGAGATAGCTTCGCCTAT
1 GTATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTAT
* * * * *
47161336 GTATGCCATTTAGGGTACGATTCAAGATAGCTTCGGCTAT
1 GTATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTAT
* * *
47161376 ATACT-GCACTTAGTGTGTGATTCGAGATAGCTTCAGCTAT
1 GTA-TGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTAT
*
47161416 GTATTGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTAT
1 GTATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTAT
* * *
47161456 GTATGGCACTTAGTGTGCGAGATT-AAAATAGCTTCGGCAAT
1 GTATGGCACTTAGTGTGC--GATTCGAGATAGCTTCGGCTAT
*
47161497 GTATTGTCACTTAGTGTGCGA
1 GTA-TGGCACTTAGTGTGCGA
47161518 GAATTTGAGT
Statistics
Matches: 187, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 150 0.80
41 18 0.10
42 18 0.10
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (40 bp):
GTATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTAT
Found at i:47161615 original size:33 final size:33
Alignment explanation
Indices: 47161578--47161653 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
47161568 TGGTTCAGGT
47161578 ATGTATATGAATCTTACGAGATTTAAATTTAAG
1 ATGTATATGAATCTTACGAGATTTAAATTTAAG
47161611 ATGTATATGAATCTTACGAGATTTAAATTTAAG
1 ATGTATATGAATCTTACGAGATTTAAATTTAAG
*
47161644 AAGT-TATGAA
1 ATGTATATGAA
47161654 GTTTGCACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 6 0.14
33 36 0.86
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (33 bp):
ATGTATATGAATCTTACGAGATTTAAATTTAAG
Found at i:47162334 original size:22 final size:21
Alignment explanation
Indices: 47162309--47162359 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
47162299 TTTAGTCTTG
47162309 ATTTTGGT-TGAATTGGATGACC
1 ATTTTGGTATGAATTGG-TG-CC
* *
47162331 ATTTATGTTATGATTTGGTGCC
1 ATTT-TGGTATGAATTGGTGCC
47162353 ATTTTGG
1 ATTTTGG
47162360 GTTGTGTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 2 0.08
22 10 0.42
23 5 0.21
24 7 0.29
ACGTcount: A:0.20, C:0.08, G:0.25, T:0.47
Consensus pattern (21 bp):
ATTTTGGTATGAATTGGTGCC
Found at i:47162634 original size:53 final size:53
Alignment explanation
Indices: 47162571--47162679 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 53
47162561 TGATCAGCCA
* *
47162571 TGTGACATAAGTCAGTATACCCTCTAATTTGCACACGACCTAGCACACGGGCG
1 TGTGACATAAGTCAGTATACCCTCTAATTTGCACACGACCAAGCACACGAGCG
* * *
47162624 TGTGGCATAAGTCAGTATACCCTCTAATTTGCACACGGCCAAGCACATGAGCG
1 TGTGACATAAGTCAGTATACCCTCTAATTTGCACACGACCAAGCACACGAGCG
47162677 TGT
1 TGT
47162680 AACTTGGTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (53 bp):
TGTGACATAAGTCAGTATACCCTCTAATTTGCACACGACCAAGCACACGAGCG
Found at i:47162762 original size:12 final size:12
Alignment explanation
Indices: 47162728--47162762 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
47162718 TTTGGAATGG
*
47162728 CCTAGCACACAA
1 CCTAGCACACGA
47162740 CCTAGCACACGA
1 CCTAGCACACGA
47162752 CCTAGCACACG
1 CCTAGCACACG
47162763 GGTGTGTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.34, C:0.43, G:0.14, T:0.09
Consensus pattern (12 bp):
CCTAGCACACGA
Found at i:47166321 original size:26 final size:26
Alignment explanation
Indices: 47166285--47166334 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
47166275 CCGAAGGCCT
47166285 AAAACGTGAGCGTTTGATCGTGGAGG
1 AAAACGTGAGCGTTTGATCGTGGAGG
47166311 AAAACGTGAGCGTTTGATCGTGGA
1 AAAACGTGAGCGTTTGATCGTGGA
47166335 AGCTACCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.12, G:0.36, T:0.24
Consensus pattern (26 bp):
AAAACGTGAGCGTTTGATCGTGGAGG
Found at i:47171770 original size:80 final size:80
Alignment explanation
Indices: 47171686--47171834 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
47171676 TATGGTAACC
* * * *
47171686 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
47171750 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
47171766 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
47171831 CCGG
66 CCGG
47171835 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:47171776 original size:40 final size:38
Alignment explanation
Indices: 47171727--47171834 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
47171717 ATCACGATTT
*
47171727 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
47171767 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
47171807 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
47171835 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:47179888 original size:80 final size:80
Alignment explanation
Indices: 47179804--47179952 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
47179794 TATGGTAACC
* * * *
47179804 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
47179868 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
47179884 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
47179949 CCGG
66 CCGG
47179953 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:47179894 original size:40 final size:38
Alignment explanation
Indices: 47179845--47179952 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
47179835 ATCACGATTT
*
47179845 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
47179885 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
47179925 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
47179953 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:47188313 original size:40 final size:40
Alignment explanation
Indices: 47188268--47188434 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
47188258 CGGAATATAA
47188268 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
47188308 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
47188348 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
47188388 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
47188427 CCGGATAT
1 CCGGATAT
47188435 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47189280 original size:17 final size:19
Alignment explanation
Indices: 47189257--47189302 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
47189247 AAGAAGCATG
47189257 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
47189275 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
47189293 AATCATGCTC
1 AATCATGCTC
47189303 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:47196315 original size:40 final size:40
Alignment explanation
Indices: 47196270--47196436 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
47196260 CGGAATATAA
47196270 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
47196310 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
47196350 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
47196390 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
47196429 CCGGATAT
1 CCGGATAT
47196437 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47197277 original size:17 final size:19
Alignment explanation
Indices: 47197254--47197299 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
47197244 AAGAAGCATG
47197254 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
47197272 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
47197290 AATCATGCTC
1 AATCATGCTC
47197300 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:47201192 original size:18 final size:19
Alignment explanation
Indices: 47201166--47201206 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
47201156 CATAGAAGGA
*
47201166 TGAGGATG-AGGATCAAAG
1 TGAGGATGAAGCATCAAAG
*
47201184 TGAGTATGAAGCATCAAAG
1 TGAGGATGAAGCATCAAAG
47201203 -GAGG
1 TGAGG
47201207 GAGATGAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.39, C:0.07, G:0.37, T:0.17
Consensus pattern (19 bp):
TGAGGATGAAGCATCAAAG
Found at i:47204460 original size:38 final size:39
Alignment explanation
Indices: 47204364--47204576 Score: 269
Period size: 38 Copynumber: 5.5 Consensus size: 39
47204354 CAACCAAGTA
* *
47204364 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAG-TAACTCGCACAAATG
47204403 CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCACAAATG
47204443 CC-TC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCACAAATG
* *
47204481 CCTTCGGGAC-TAGCCC-GAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATG
* *
47204519 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATG
47204559 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47204577 TTATCATCCG
Statistics
Matches: 162, Mismatches: 5, Indels: 14
0.90 0.03 0.08
Matches are distributed among these distances:
37 1 0.01
38 63 0.39
39 43 0.27
40 55 0.34
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
Found at i:47204529 original size:78 final size:77
Alignment explanation
Indices: 47204364--47204575 Score: 265
Period size: 78 Copynumber: 2.7 Consensus size: 77
47204354 CAACCAAGTA
* *
47204364 CCTTCGGGATTTAG-CCGGACATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGACATAG
1 CCTTCGGGACTTAGCCCGGA-ATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCC-GACATAG
*
47204428 TAACTCGCACAAATG
63 TAACTAGCACAAATG
47204443 CC-TC-GGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC-TAGCCCGA-ATTAG
1 CCTTCGGGACTTAGCCCGGA-ATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGACA-TAG
*
47204504 TCACTAGCACAAATG
63 TAACTAGCACAAATG
*
47204519 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTC-GGACTTAGCCCG
1 CCTTCGGGACTTAGCCCGGAA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCG
47204576 GTTATCATCC
Statistics
Matches: 119, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
75 1 0.01
76 20 0.17
77 21 0.18
78 75 0.63
79 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (77 bp):
CCTTCGGGACTTAGCCCGGAATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGACATAGTAA
CTAGCACAAATG
Found at i:47212484 original size:40 final size:40
Alignment explanation
Indices: 47212414--47212591 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
47212404 CAACCAAGTA
* *
47212414 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGACATAG-TAACTCGCACAAATG
*
47212453 CCTTTGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
*
47212493 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
* * *
47212533 CCTTCGGGACTTAGCCCGTA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGACA-TAGTAACTCGCACAAATG
47212573 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47212592 TTATCATCCG
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 14 0.11
40 113 0.89
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
Found at i:47233708 original size:12 final size:12
Alignment explanation
Indices: 47233691--47233715 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47233681 TCATGTTTAC
47233691 CTAATTGGGACT
1 CTAATTGGGACT
47233703 CTAATTGGGACT
1 CTAATTGGGACT
47233715 C
1 C
47233716 CTTGACTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (12 bp):
CTAATTGGGACT
Found at i:47234569 original size:48 final size:48
Alignment explanation
Indices: 47234484--47234802 Score: 311
Period size: 48 Copynumber: 6.5 Consensus size: 48
47234474 TAAAGTACCA
* * * *
47234484 ATGCAATGTCTCC-AACATGGTCTTACA-T-GAATCCACATGTCATCACCG
1 ATGCCATGTC-CCAAACATGGTCTTACACTGGCA--CACATATCATCGCCG
* * *
47234532 ATGCCATGTCCCAAACATAGTCTTACGCTGGCACACATATCATCGCCA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGCCG
* * *
47234580 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGCCG
* **
47234628 ATGCTATGTGCTATGTCCCAAACATGGTCTTACACAGGCACACATATCATCGCTA
1 ATGC------C-ATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGCCG
* * * *
47234683 ATGCCATGTCCTAGACATGGTCTTACACTGGCACATATATCATCGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGCCG
* * * * **
47234731 ATGCCATATCCCAGACATGGTCTTACACTGGCACATATACCATCGTTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGCCG
*
47234779 ATGCCATGTACCAAACATGGTCTT
1 ATGCCATGTCCCAAACATGGTCTT
47234803 TGTAATATCC
Statistics
Matches: 232, Mismatches: 29, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
47 2 0.01
48 182 0.78
49 2 0.01
50 2 0.01
54 1 0.00
55 43 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGCCG
Done.