Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6483253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 29
Found at i:735839 original size:20 final size:20
Alignment explanation
Indices: 735623--735840 Score: 85
Period size: 20 Copynumber: 9.7 Consensus size: 20
735613 TAATTAAAGT
* *
735623 GCATGAACGAATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
735643 GAATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
* * *
735669 GCATGAAGGGATACGTTAAG
1 GCATGAAAGGATGCATTAAG
*
735689 GCATGAAATGATGCCATAATTAAAG
1 GCATGAAAGGATG-C---ATT-AAG
* *
735714 TGCATGAATGGATGCACTAAG
1 -GCATGAAAGGATGCATTAAG
*
735735 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
* *
735761 GCATGAACGGATACATTAAG
1 GCATGAAAGGATGCATTAAG
735781 GCATGAAAGGATGCCATAATTAAAG
1 GCATGAAAGGATG-C---ATT-AAG
* *
735806 TGCATGAACGGATGCACTAAG
1 -GCATGAAAGGATGCATTAAG
735827 GCATGAAAGGATGC
1 GCATGAAAGGATGC
735841 CATAATTGAA
Statistics
Matches: 147, Mismatches: 27, Indels: 48
0.66 0.12 0.22
Matches are distributed among these distances:
20 60 0.41
21 12 0.08
22 8 0.05
24 8 0.05
25 11 0.07
26 48 0.33
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:735905 original size:46 final size:46
Alignment explanation
Indices: 735564--735944 Score: 438
Period size: 46 Copynumber: 8.3 Consensus size: 46
735554 TAAACCAAAT
* * * *
735564 CCATAATTAAAGTGCATTAACGAATGCACTAAGGAATGAAAGGATG
1 CCATAATTAAAATGCATGAACGGATGCACTAAGGCATGAAAGGATG
* * * *
735610 CCATAATTAAAGTGCATGAACGAATGCATTAAGGAATGAAAGGATG
1 CCATAATTAAAATGCATGAACGGATGCACTAAGGCATGAAAGGATG
* * * ** *
735656 CCATAACTAAAATGCATGAAGGGATACGTTAAGGCATGAAATGATG
1 CCATAATTAAAATGCATGAACGGATGCACTAAGGCATGAAAGGATG
* *
735702 CCATAATTAAAGTGCATGAATGGATGCACTAAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAACGGATGCACTAAGGCATGAAAGGATG
* *
735748 CCATAATTAAAATGCATGAACGGATACATTAAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAACGGATGCACTAAGGCATGAAAGGATG
*
735794 CCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAACGGATGCACTAAGGCATGAAAGGATG
* * ** *
735840 CCATAATTGAAGTGCATGAACTAATGCACTAAAGCATGAAAGGATG
1 CCATAATTAAAATGCATGAACGGATGCACTAAGGCATGAAAGGATG
* * * ** * * * ** *
735886 TCGTAACTAAAATATATGAACAGATGCATTAAGGAATGAAAATATA
1 CCATAATTAAAATGCATGAACGGATGCACTAAGGCATGAAAGGATG
*
735932 CCATAACTAAAAT
1 CCATAATTAAAAT
735945 ATATTAACGA
Statistics
Matches: 290, Mismatches: 45, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 290 1.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAATTAAAATGCATGAACGGATGCACTAAGGCATGAAAGGATG
Found at i:737968 original size:166 final size:168
Alignment explanation
Indices: 737694--738029 Score: 658
Period size: 166 Copynumber: 2.0 Consensus size: 168
737684 TTCTTAGTGG
737694 AGCTTGTTTCCAATGTGGTGAGAATGGTCACTTTGCTCGAAATTGTCCTAAGAAATCTGGAGACA
1 AGCTTGTTTCCAATGTGGTGAGAATGGTCACTTTGCTCGAAATTGTCCTAAGAAATCTGGAGACA
737759 ATTTGCTACAATCTGAAAGATCGGTGGTAACCTTAAATAGAAGTAGAGAAAGGGACAGAT-CAGG
66 ATTTGCTACAATCTGAAAGATCGGTGGTAACCTTAAATAGAAGTAGAGAAAGGGACAGATCCAGG
737823 GGACAAATGGATTCAATGTAGAGATAAGA-ACTCGGGC
131 GGACAAATGGATTCAATGTAGAGATAAGAGACTCGGGC
737860 AGCTTGTTTCCAATGTGGTGAGAATGGTCACTTTGCTCGAAATTGTCCTAAGAAATCTGGAGACA
1 AGCTTGTTTCCAATGTGGTGAGAATGGTCACTTTGCTCGAAATTGTCCTAAGAAATCTGGAGACA
737925 ATTTGCTACAATCTGAAAGATCGGTGGTAACCTTAAATAGAAGTAGAGAAAGGGACAGATCCAGG
66 ATTTGCTACAATCTGAAAGATCGGTGGTAACCTTAAATAGAAGTAGAGAAAGGGACAGATCCAGG
737990 GGACAAATGGATTCAATGTAGAGATAAGAGACTCGGGC
131 GGACAAATGGATTCAATGTAGAGATAAGAGACTCGGGC
738028 AG
1 AG
738030 TCACTAGAAT
Statistics
Matches: 168, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
166 125 0.74
167 33 0.20
168 10 0.06
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (168 bp):
AGCTTGTTTCCAATGTGGTGAGAATGGTCACTTTGCTCGAAATTGTCCTAAGAAATCTGGAGACA
ATTTGCTACAATCTGAAAGATCGGTGGTAACCTTAAATAGAAGTAGAGAAAGGGACAGATCCAGG
GGACAAATGGATTCAATGTAGAGATAAGAGACTCGGGC
Found at i:742834 original size:46 final size:46
Alignment explanation
Indices: 742763--743125 Score: 492
Period size: 46 Copynumber: 7.9 Consensus size: 46
742753 TAAACTGAAT
* *
742763 CCATAATTAAAGTGCATGAACGGATGCACTAAGCCATGAAAGGATG
1 CCATAATTAAAGTGCATGAACGGATGCATTAAGGCATGAAAGGATG
* * *
742809 CCATAATTAAAATGCATGAATGGATGCATTAAGGAATGAAAGGATG
1 CCATAATTAAAGTGCATGAACGGATGCATTAAGGCATGAAAGGATG
* * * *
742855 CCATAACTAAACTGCATAAACGGATACATTAAGGCATGAAAGGATG
1 CCATAATTAAAGTGCATGAACGGATGCATTAAGGCATGAAAGGATG
*
742901 CCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATG
1 CCATAATTAAAGTGCATGAACGGATGCATTAAGGCATGAAAGGATG
** *
742947 AAATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
1 CCATAATTAAAGTGCATGAACGGATGCATTAAGGCATGAAAGGATG
* * *
742993 CCATAATTAAAGTGCATAAACGGATGCACTAAAGCATGAAAGGATG
1 CCATAATTAAAGTGCATGAACGGATGCATTAAGGCATGAAAGGATG
* * * * * *
743039 ACATAATTAAAGTGCATGGATGGATGCATGAAGGAATAAAAGGATG
1 CCATAATTAAAGTGCATGAACGGATGCATTAAGGCATGAAAGGATG
* * * *
743085 CCATAACTAAAATGTATGAACGAATGCATTAAGGCATGAAA
1 CCATAATTAAAGTGCATGAACGGATGCATTAAGGCATGAAA
743126 AGGTACTATA
Statistics
Matches: 272, Mismatches: 45, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 272 1.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (46 bp):
CCATAATTAAAGTGCATGAACGGATGCATTAAGGCATGAAAGGATG
Found at i:742899 original size:20 final size:20
Alignment explanation
Indices: 742876--742991 Score: 52
Period size: 20 Copynumber: 5.2 Consensus size: 20
742866 CTGCATAAAC
742876 GGATACATTAAGGCATGAAA
1 GGATACATTAAGGCATGAAA
* *
742896 GGATGCCATAATTAAAGTGCATGAAC
1 GGAT---A-CATT-AAG-GCATGAAA
* *
742922 GGATGCACTAAGGCATGAAA
1 GGATACATTAAGGCATGAAA
* * *
742942 GGATGAAATAATTAAAATGCATGAAC
1 GGAT---A-CATT--AAGGCATGAAA
*
742968 GGATGCATTAAGGCATGAAA
1 GGATACATTAAGGCATGAAA
742988 GGAT
1 GGAT
742992 GCCATAATTA
Statistics
Matches: 69, Mismatches: 15, Indels: 24
0.64 0.14 0.22
Matches are distributed among these distances:
20 28 0.41
21 3 0.04
22 5 0.07
23 1 0.01
24 5 0.07
25 3 0.04
26 24 0.35
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (20 bp):
GGATACATTAAGGCATGAAA
Found at i:743011 original size:138 final size:138
Alignment explanation
Indices: 742763--743125 Score: 548
Period size: 138 Copynumber: 2.6 Consensus size: 138
742753 TAAACTGAAT
*
742763 CCATAATTAAAGTGCATGAACGGATGCACTAAGCCATGAAAGGATGCCATAATTAAAATGCATGA
1 CCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAATTAAAATGCATGA
* * * *
742828 ATGGATGCATTAAGGAATGAAAGGATGCCATAACTAAACTGCATAAACGGATACATTAAGGCATG
66 ACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAACTGCATAAACGGATACACTAAAGCATG
742893 AAAGGATG
131 AAAGGATG
**
742901 CCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGAAATAATTAAAATGCATGA
1 CCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAATTAAAATGCATGA
* * *
742966 ACGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAGTGCATAAACGGATGCACTAAAGCATG
66 ACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAACTGCATAAACGGATACACTAAAGCATG
743031 AAAGGATG
131 AAAGGATG
* * * * * * *
743039 ACATAATTAAAGTGCATGGATGGATGCA-TGAAGGAATAAAAGGATGCCATAACTAAAATGTATG
1 CCATAATTAAAGTGCATGAACGGATGCACT-AAGGCATGAAAGGATGCCATAATTAAAATGCATG
*
743103 AACGAATGCATTAAGGCATGAAA
65 AACGGATGCATTAAGGCATGAAA
743126 AGGTACTATA
Statistics
Matches: 204, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
137 1 0.00
138 203 1.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (138 bp):
CCATAATTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAATTAAAATGCATGA
ACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAACTGCATAAACGGATACACTAAAGCATG
AAAGGATG
Found at i:744179 original size:15 final size:17
Alignment explanation
Indices: 744153--744184 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
744143 TATAATATTT
744153 TAAAAAATTATT-TAAA
1 TAAAAAATTATTCTAAA
744169 TAAAAAA-TATTCTAAA
1 TAAAAAATTATTCTAAA
744185 ATTTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAAATTATTCTAAA
Found at i:771130 original size:10 final size:9
Alignment explanation
Indices: 771090--771127 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
771080 ATATTTATAA
*
771090 TTAATCATT
1 TTAATGATT
771099 TTAATGATT
1 TTAATGATT
771108 TTAATGATT
1 TTAATGATT
771117 TTAATGATT
1 TTAATGATT
771126 TT
1 TT
771128 TAAAATGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (9 bp):
TTAATGATT
Found at i:776109 original size:16 final size:16
Alignment explanation
Indices: 776088--776118 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
776078 GAAAAAAATA
*
776088 TAAAATATACAATATT
1 TAAAATATAAAATATT
776104 TAAAATATAAAATAT
1 TAAAATATAAAATAT
776119 ACAAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAATATAAAATATT
Found at i:776376 original size:25 final size:26
Alignment explanation
Indices: 776339--776387 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
776329 AATCATAAAA
*
776339 AATAAAAATAAATT-AGGAATAAATG
1 AATAAAAATAAATTAAGAAATAAATG
776364 AATAAATAA-AAATTAAGAAATAAA
1 AATAAA-AATAAATTAAGAAATAAA
776388 ATCTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.22
Consensus pattern (26 bp):
AATAAAAATAAATTAAGAAATAAATG
Found at i:780418 original size:19 final size:20
Alignment explanation
Indices: 780391--780428 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
780381 ATGTCACGTA
*
780391 AATCTATGCAAGT-ATACAT
1 AATCAATGCAAGTAATACAT
780410 AATCAATGCAAGTAATACA
1 AATCAATGCAAGTAATACA
780429 ACAGTGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (20 bp):
AATCAATGCAAGTAATACAT
Found at i:781605 original size:19 final size:19
Alignment explanation
Indices: 781551--781605 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
781541 AACTAATAAT
781551 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
781570 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
781589 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
781606 AAAGATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 18 0.62
20 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:781740 original size:22 final size:22
Alignment explanation
Indices: 781697--781771 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 22
781687 AATATAATGA
*
781697 AAAT-AAATAAATAAATA-GTAT
1 AAATAAAAT-AATAAATATATAT
781718 AAATAAAATAATAAATATATAT
1 AAATAAAATAATAAATATATAT
* * *
781740 ATA-AAAATAA-AAATGTATGT
1 AAATAAAATAATAAATATATAT
*
781760 ATAATATAATAA
1 A-AATAAAATAA
781772 AATACTAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
20 9 0.20
21 20 0.45
22 15 0.34
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
AAATAAAATAATAAATATATAT
Found at i:781809 original size:29 final size:27
Alignment explanation
Indices: 781777--781864 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 27
781767 AATAAAATAC
781777 TAAATAGTAATAATAATAATAAATGAAAA
1 TAAATAGTAAT-ATAATAATAAAT-AAAA
* *
781806 TAAATA-T-ATATAATATTAACTAAAA
1 TAAATAGTAATATAATAATAAATAAAA
*
781831 -AAATAGTAATCATAGAAATATAAAATAAAA
1 TAAATAGTAAT-ATA-ATA-AT-AAATAAAA
781861 TAAA
1 TAAA
781865 GTAAGAATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
24 5 0.11
25 5 0.11
26 12 0.26
27 5 0.11
28 3 0.06
29 7 0.15
30 7 0.15
31 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (27 bp):
TAAATAGTAATATAATAATAAATAAAA
Found at i:781831 original size:26 final size:25
Alignment explanation
Indices: 781701--781831 Score: 85
Period size: 26 Copynumber: 5.1 Consensus size: 25
781691 TAATGAAAAT
*
781701 AAATAAATA-A-ATAGTATAAATAAA
1 AAATAAATATATATAATATAAAT-AA
*
781725 ATAATAAATATATAT-ATAAAAATAA
1 A-AATAAATATATATAATATAAATAA
* *
781750 AAAT--GTATGTATAATAT-AATAA
1 AAATAAATATATATAATATAAATAA
*
781772 AATACTAAATAGTAATAATAATAATAAATGA
1 AA-A-TAAATA-T-AT-ATAAT-ATAAATAA
*
781803 AAATAAATATATATAATATTAACTAA
1 AAATAAATATATATAATA-TAAATAA
781829 AAA
1 AAA
781832 AATAGTAATC
Statistics
Matches: 83, Mismatches: 10, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
22 13 0.16
23 4 0.05
24 5 0.06
25 12 0.14
26 22 0.27
27 5 0.06
28 2 0.02
29 11 0.13
30 3 0.04
31 6 0.07
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (25 bp):
AAATAAATATATATAATATAAATAA
Found at i:782468 original size:37 final size:37
Alignment explanation
Indices: 782427--782519 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
782417 ATGCTTGTGG
* *
782427 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAA-CTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCA-AATCTCT
* ** *
782464 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAATTTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAATCTCT
782501 ATCCTATTTTTAGGAGTTT
1 ATCCTATTTTTAGGAGTTT
782520 GAATCCTAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
36 2 0.04
37 47 0.96
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATAATAGCAAATCTCT
Found at i:783462 original size:106 final size:106
Alignment explanation
Indices: 783270--783519 Score: 340
Period size: 106 Copynumber: 2.4 Consensus size: 106
783260 CAAGTAAGTA
* * * *
783270 GCATTGT-TCTGAGTCTAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTG
1 GCATTGTCTC-GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATCGGGAAATTG
* *
783334 TTTGTTGACAACCAACCATCCCTTCATTGTGAAGTTGAACTT
65 TTTGTTGACAACCAACCATCCCTTCATCGTAAAGTTGAACTT
* * *
783376 GTATTGTCTCGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGT
1 GCATTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATCGGGAAATTGT
* * ** *
783441 TTGTTGACAAGCAGCGGTCCCTTCGTCGTAAAGTTGAACTT
66 TTGTTGACAACCAACCATCCCTTCATCGTAAAGTTGAACTT
* *
783482 GCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTG
1 GCATTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTG
783520 TTTGTTGACA
Statistics
Matches: 125, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
106 123 0.98
107 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (106 bp):
GCATTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATCGGGAAATTGT
TTGTTGACAACCAACCATCCCTTCATCGTAAAGTTGAACTT
Found at i:783570 original size:80 final size:80
Alignment explanation
Indices: 783437--783599 Score: 290
Period size: 80 Copynumber: 2.0 Consensus size: 80
783427 AATTGGGAAA
* *
783437 TTGTTTGTTGACAAGCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTCGAGTCCAATA
1 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTAGAGTCCAATA
783502 TCCTTCGCTGTGAAG
66 TCCTTCGCTGTGAAG
*
783517 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATA
1 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTAGAGTCCAATA
*
783582 TCCTTCGTTGTGAAG
66 TCCTTCGCTGTGAAG
783597 TTG
1 TTG
783600 AAATTGGCTC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.35
Consensus pattern (80 bp):
TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTAGAGTCCAATA
TCCTTCGCTGTGAAG
Found at i:783601 original size:43 final size:43
Alignment explanation
Indices: 783460--783601 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 43
783450 AGCAGCGGTC
* *
783460 CCTTCGTCGTAAAGTTGAACTTGCGTTGTCTCGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
* * ***
783503 CCTTCG-CTGTGAAGTTG---TT-TGTTGAC-A-A--CCAGCGGT
1 CCTTCGTC-GTGAAGTTGAACTTGCGTTGTCTAGAGTCCA-ATAT
783539 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
*
783583 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
783602 ATTGGCTCTG
Statistics
Matches: 74, Mismatches: 13, Indels: 24
0.67 0.12 0.22
Matches are distributed among these distances:
35 3 0.04
36 1 0.01
37 16 0.22
38 1 0.01
39 5 0.07
40 4 0.05
41 5 0.07
42 2 0.03
43 33 0.45
44 1 0.01
45 3 0.04
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
Found at i:783648 original size:106 final size:106
Alignment explanation
Indices: 783513--784529 Score: 1590
Period size: 106 Copynumber: 9.6 Consensus size: 106
783503 CCTTCGCTGT
*
783513 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCC
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
783578 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
*
783619 GAAGTTGTTTGTTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
783684 AATATCCTTTC-CTGTGAAGTTGAAATTGGCTCCGAAATTGG
66 AATATCC-TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
* *
783725 GAAATTGTTTGTTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
** * * *
783790 AATATGTTTTGCTGTGCAGTTGAAATTGGCTCCGAAATT-A
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
* * * *
783830 GGAAATTGTTTGTTAACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTCGAGTC
1 -GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* *
783895 CAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGG
65 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
783937 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
784002 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
*
784043 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCCTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
784108 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
* * * *
784149 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGAGTTGTCTTGAGTCC
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
784214 AATATCCTTCGCTGTGAAGTTAAAATTGGCTCTAAAATT-A
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
* * * *
784254 GGAAATTGTTTATTGACAACCAACGGTCCGTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1 -GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* *
784319 CAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGA
65 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
* *
784361 GAAGTTGTTTGTTGACAACTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCC
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * * *
784426 AATATCCTTCGTTGTGAAGTTGAAATTGCCTCTGAATTTGG
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
** * * *
784467 GAAGTTGTTTGTTGACAACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
784530 GGCACGATAT
Statistics
Matches: 841, Mismatches: 64, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
105 2 0.00
106 835 0.99
107 4 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
Found at i:783650 original size:186 final size:186
Alignment explanation
Indices: 783331--783705 Score: 590
Period size: 186 Copynumber: 2.0 Consensus size: 186
783321 AATCGGGAAA
* * *
783331 TTGTTTGTTGACAACCAACCATCCCTTCATTGTGAAGTTGAACTTGTATTGTCTCGAGTCCAATA
1 TTGTTTGTTGACAACCAACCATCCCTTCATCGTGAAGTTGAACTTGCATTGTCTAGAGTCCAATA
* * * *
783396 TCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAAGCAGCGGTCC
66 TCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAGAAATTGTTTGTTGACAACCAGCGATCC
783461 CTTCGTCGTAAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCC-TTCGCTGTGAAG
131 CTTCGTCGTAAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTTC-CTGTGAAG
* ** * *
783517 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATA
1 TTGTTTGTTGACAACCAACCATCCCTTCATCGTGAAGTTGAACTTGCATTGTCTAGAGTCCAATA
* *
783582 TCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGATCC
66 TCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAGAAATTGTTTGTTGACAACCAGCGATCC
* *
783647 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTTCCTGTGAAG
131 CTTCGTCGTAAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTTCCTGTGAAG
783703 TTG
1 TTG
783706 AAATTGGCTC
Statistics
Matches: 172, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
186 169 0.98
187 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (186 bp):
TTGTTTGTTGACAACCAACCATCCCTTCATCGTGAAGTTGAACTTGCATTGTCTAGAGTCCAATA
TCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAGAAATTGTTTGTTGACAACCAGCGATCC
CTTCGTCGTAAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTTCCTGTGAAG
Found at i:786140 original size:7 final size:7
Alignment explanation
Indices: 786128--786194 Score: 57
Period size: 7 Copynumber: 9.6 Consensus size: 7
786118 TTTTTATCCC
786128 TTTTTCT
1 TTTTTCT
786135 TTTTTC-
1 TTTTTCT
*
786141 TTTTTGT
1 TTTTTCT
*
786148 TCTTTCT
1 TTTTTCT
786155 TTTTT-T
1 TTTTTCT
786161 TTTCTTCT
1 TTT-TTCT
*
786169 TTTTGCT
1 TTTTTCT
*
786176 TCTTTTAT
1 T-TTTTCT
*
786184 TTTTTGT
1 TTTTTCT
786191 TTTT
1 TTTT
786195 GCCCTTTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
6 9 0.19
7 30 0.62
8 9 0.19
ACGTcount: A:0.01, C:0.12, G:0.04, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:786145 original size:13 final size:13
Alignment explanation
Indices: 786127--786187 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
786117 TTTTTTATCC
786127 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
* *
786140 CTTTTTGTTCTTT
1 CTTTTTCTTTTTT
*
786153 CTTTTTTTTTTCTT
1 CTTTTTCTTTT-TT
786167 CTTTTTGCTTCTTTT
1 CTTTTT-CTT-TTTT
*
786182 ATTTTT
1 CTTTTT
786188 TGTTTTTGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 20 0.51
14 8 0.21
15 9 0.23
16 2 0.05
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:786157 original size:18 final size:18
Alignment explanation
Indices: 786136--786170 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
786126 CCTTTTTCTT
*
786136 TTTTCTTTTTGTTCTTTC
1 TTTTCTTTTTCTTCTTTC
*
786154 TTTTTTTTTTCTTCTTT
1 TTTTCTTTTTCTTCTTT
786171 TTGCTTCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTTCTTTTTCTTCTTTC
Found at i:786161 original size:24 final size:25
Alignment explanation
Indices: 786129--786195 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 25
786119 TTTTATCCCT
*
786129 TTTTCTTTTTTCTTTTTGTT-CTTTC
1 TTTTATTTTTTCTTTTTGTTGC-TTC
786154 TTTT-TTTTTTCTTCTTT-TTGCTTC
1 TTTTATTTTTTCTT-TTTGTTGCTTC
*
786178 TTTTATTTTTTGTTTTTG
1 TTTTATTTTTTCTTTTTG
786196 CCCTTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
24 21 0.57
25 16 0.43
ACGTcount: A:0.01, C:0.12, G:0.06, T:0.81
Consensus pattern (25 bp):
TTTTATTTTTTCTTTTTGTTGCTTC
Found at i:786172 original size:28 final size:27
Alignment explanation
Indices: 786127--786194 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
786117 TTTTTTATCC
*
786127 CTTTTTCTTTTTTCTTTTTG-TTCTTT
1 CTTTTTTTTTTTTCTTTTTGCTTCTTT
786153 CTTTTTTTTTTCTTCTTTTTGCTTCTTT
1 CTTTTTTTTTT-TTCTTTTTGCTTCTTT
786181 -TATTTTTTGTTTTT
1 CT-TTTTTT-TTTTT
786195 GCCCTTTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 10 0.27
27 10 0.27
28 14 0.38
29 3 0.08
ACGTcount: A:0.01, C:0.13, G:0.04, T:0.81
Consensus pattern (27 bp):
CTTTTTTTTTTTTCTTTTTGCTTCTTT
Found at i:790671 original size:15 final size:15
Alignment explanation
Indices: 790651--790682 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
790641 TAAATAGTAT
*
790651 AAATAAAATAATAAA
1 AAATAAAAAAATAAA
790666 AAATAAAAAAATAAA
1 AAATAAAAAAATAAA
790681 AA
1 AA
790683 TGTATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAATAAAAAAATAAA
Found at i:790682 original size:57 final size:57
Alignment explanation
Indices: 790620--790742 Score: 128
Period size: 57 Copynumber: 2.1 Consensus size: 57
790610 GCAAAGAAAC
790620 TAAAAATATAATG-AAAATA-AAT-AAATAGTATAAATA-AAATAATAAAAAATAAAAAAA
1 TAAAAATAT-ATGTAAAATATAATAAAATA-T-TAAATAGAAATAAT-AAAAATAAAAAAA
* * * * *
790677 TAAAAATGTATGTATAATATAATAAAATATTAAATAGTAATAATAATAATAAATAAA
1 TAAAAATATATGTAAAATATAATAAAATATTAAATAGAAATAATAAAAATAAAAAAA
790734 TGAAAAATA
1 T-AAAAATA
790743 AATATACATA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
56 3 0.05
57 31 0.56
58 16 0.29
59 5 0.09
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (57 bp):
TAAAAATATATGTAAAATATAATAAAATATTAAATAGAAATAATAAAAATAAAAAAA
Found at i:793638 original size:110 final size:110
Alignment explanation
Indices: 793500--793791 Score: 478
Period size: 110 Copynumber: 2.7 Consensus size: 110
793490 CATCTGCCAT
* * *
793500 TTCACTGTGAAGTTGAGCTTGTGATGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGA
1 TTCATTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGA
* *
793565 CTCTGAATGAAACTGACAAGATT-TTTGTTGATAATCAGCCGCCCC
66 CTCTGAATGAAACTGA-AAAATTGTTTGTTGACAATCAGCCGCCCC
*
793610 TTCATTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGA
1 TTCATTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGA
793675 CTCTGAATGAAACTGAAAAATTGTTTGTTGACAATCAGCCGCCCC
66 CTCTGAATGAAACTGAAAAATTGTTTGTTGACAATCAGCCGCCCC
* * * *
793720 TTCGTTGTGAAGTTGAGCTTGTGTTGTATTGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGG
1 TTCATTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGA
793785 CTCTGAA
66 CTCTGAA
793792 ATTGGGAAGC
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
109 5 0.03
110 165 0.97
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (110 bp):
TTCATTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGA
CTCTGAATGAAACTGAAAAATTGTTTGTTGACAATCAGCCGCCCC
Found at i:793881 original size:34 final size:36
Alignment explanation
Indices: 793802--793890 Score: 110
Period size: 37 Copynumber: 2.5 Consensus size: 36
793792 ATTGGGAAGC
793802 CCTTCGTCGTGAAGTTGAGCCTCAAATGGCACGATAT
1 CCTTCGTCGTGAAGTTGAGCCTCAAATGGCAC-ATAT
* ** * *
793839 CCTCCGTCGTGAAGTTGAGCCTTGACTTG-A-ATAT
1 CCTTCGTCGTGAAGTTGAGCCTCAAATGGCACATAT
793873 CCTTCGTCGTGAAGTTGA
1 CCTTCGTCGTGAAGTTGA
793891 AATCTAAGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 21 0.46
36 1 0.02
37 24 0.52
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (36 bp):
CCTTCGTCGTGAAGTTGAGCCTCAAATGGCACATAT
Found at i:794841 original size:6 final size:6
Alignment explanation
Indices: 794830--794869 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
794820 TGAACACACC
*
794830 TTTTCT TTTTCT TTTTCT TTTT-T TTCTCT TTTTCCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT-CT TTTT
794870 TTCAATTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
5 4 0.13
6 20 0.67
7 6 0.20
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:794859 original size:17 final size:17
Alignment explanation
Indices: 794829--794872 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
794819 TTGAACACAC
794829 CTTTTCTTTT-TCTTTTT
1 CTTTT-TTTTCTCTTTTT
794846 CTTTTTTTTCTCTTTTT
1 CTTTTTTTTCTCTTTTT
*
794863 CCTTTTTTTC
1 CTTTTTTTTC
794873 AATTTAGGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
CTTTTTTTTCTCTTTTT
Found at i:794934 original size:7 final size:7
Alignment explanation
Indices: 794908--794951 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
794898 ACCCTAAATA
794908 TTTTTCT
1 TTTTTCT
*
794915 CTTTT-T
1 TTTTTCT
*
794921 TTGTTCT
1 TTTTTCT
794928 TTTTTCT
1 TTTTTCT
794935 TTTTTCTT
1 TTTTTC-T
794943 TTTTTCT
1 TTTTTCT
794950 TT
1 TT
794952 CTTCGACTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 4 0.13
7 20 0.65
8 7 0.23
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:794976 original size:84 final size:86
Alignment explanation
Indices: 794829--794988 Score: 211
Period size: 84 Copynumber: 1.9 Consensus size: 86
794819 TTGAACACAC
* * * *
794829 CTTTTCTTTTTCTTTTTCTTTTTTTTCTCTTTTTCCTTTTTTTCAATTTAGGCGTCCTTTCGGGT
1 CTTTTCTTTTTCTTTTTCTCTTTTTTCTCTTTTTCCTTTTCTTCAACTTAGGCGCCCTTTCGGGT
794894 TTTCACCCTAAATATTTTTCT
66 TTTCACCCTAAATATTTTTCT
* *
794915 CTTTT-TTTGTTCTTTTT-TCTTTTTTCT-TTTTTTC-TTTCTTCGACTTAGGACGCCCTTTCGG
1 CTTTTCTTT-TTCTTTTTCTCTTTTTTCTCTTTTTCCTTTTCTTCAACTTAGG-CGCCCTTTCGG
*
794976 GTTTTCATCCTAA
64 GTTTTCACCCTAA
794989 GCGAAGTATT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
83 12 0.18
84 28 0.43
85 12 0.18
86 13 0.20
ACGTcount: A:0.09, C:0.21, G:0.09, T:0.61
Consensus pattern (86 bp):
CTTTTCTTTTTCTTTTTCTCTTTTTTCTCTTTTTCCTTTTCTTCAACTTAGGCGCCCTTTCGGGT
TTTCACCCTAAATATTTTTCT
Found at i:800065 original size:30 final size:30
Alignment explanation
Indices: 800029--800089 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
800019 ATTAATATTA
* * *
800029 TGCATCGATACGCTAGAGTAACTGCTACAG
1 TGCATCGATACACTACAATAACTGCTACAG
*
800059 TGCATCGATACACTACAATTACTGCTACAG
1 TGCATCGATACACTACAATAACTGCTACAG
800089 T
1 T
800090 AATTTCAGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (30 bp):
TGCATCGATACACTACAATAACTGCTACAG
Found at i:800532 original size:44 final size:44
Alignment explanation
Indices: 800452--800609 Score: 210
Period size: 44 Copynumber: 3.6 Consensus size: 44
800442 GATTTCTTAT
* * *
800452 CAATATACATACCATTTAATCAATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTAC
*
800497 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTA-TTTAG
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* *
800540 AAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAT
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * * *
800584 CAATCTACTTACTATAATTTCATAAG
1 CAATATACTTACCATTATTCCATAAG
800610 AAATTTGTAC
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
43 41 0.41
44 47 0.47
45 13 0.13
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (44 bp):
CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:800559 original size:43 final size:43
Alignment explanation
Indices: 800453--800580 Score: 193
Period size: 43 Copynumber: 2.9 Consensus size: 43
800443 ATTTCTTATC
* * * *
800453 AATATACATACCATTTAATCAATAAGCTCGTAAGCTTATTTTACC
1 AATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTA-TTTACA
*
800498 AATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTAGA
1 AATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTACA
800541 AATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTT
1 AATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTT
800581 TATCAATCTA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
43 44 0.56
44 22 0.28
45 12 0.15
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.38
Consensus pattern (43 bp):
AATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTACA
Found at i:800750 original size:59 final size:60
Alignment explanation
Indices: 800685--800813 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 60
800675 ATATACTTAA
* * *
800685 TATGATTTCCTCCT-CA-TTTTAGCACACGAAGTGCCCTATGCGAGAATCCGTACCATTAG
1 TATGATTTCCT-CTACATTTTTAGCACACGAAGTGCCCTATACGAAAATCCATACCATTAG
* * * * *
800744 TATGA-TTCCTTTACCATTTTTAGCACATGCAGTGCCCTATATGAAAATCCATACTATTAG
1 TATGATTTCCTCTA-CATTTTTAGCACACGAAGTGCCCTATACGAAAATCCATACCATTAG
800804 TATGATTTCC
1 TATGATTTCC
800814 ATATCCTTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
57 1 0.02
58 5 0.09
59 7 0.12
60 41 0.71
61 4 0.07
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (60 bp):
TATGATTTCCTCTACATTTTTAGCACACGAAGTGCCCTATACGAAAATCCATACCATTAG
Found at i:800905 original size:59 final size:58
Alignment explanation
Indices: 800699--801124 Score: 353
Period size: 59 Copynumber: 7.2 Consensus size: 58
800689 ATTTCCTCCT
** * * * *
800699 CATTTTAGCACACGAAGTGCCC-TATGCGAGAATCCGTAC-CATTAGTATGATTCCTTTAC
1 CATTTTAGCACACTCAGTGCCCATATG-GA-AATTCATACAC-TCAGTATGATTCCCTTAC
* * * * *
800758 CATTTTTAGCACA-TGCAGTGCCCTATATGAAAATCCATACTA-TTAGTATGATTTCCATATC
1 CA-TTTTAGCACACT-CAGTGCCC-ATATGGAAATTCATAC-ACTCAGTATGATTCCCTTA-C
* * * *** * * * *
800819 C-TTGTAGCACCCTTAGTGCTTTTTCTGGAAATCCATACACTCAATATGATCCCCTTAC
1 CATTTTAGCACACTCAGTGC-CCATATGGAAATTCATACACTCAGTATGATTCCCTTAC
* * * * * * * * * *
800877 CATTTTAGCCCA-TATAATGCCCTCTCTGGAAA-TCAATATATTCAATATGATTTCCTTAT
1 CATTTTAGCACACT-CAGTGCCC-ATATGGAAATTC-ATACACTCAGTATGATTCCCTTAC
* *
800936 CATTTTAGCACACTCAATGCTCTATATGGAAATTCATACACTCAGTATGATTCCCTTAC
1 CATTTTAGCACACTCAGTGC-CCATATGGAAATTCATACACTCAGTATGATTCCCTTAC
*
800995 CATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACACAGTATGATTCCCTTAC
1 CATTTTAGCACACTCAGTGC-CCATATGGAAATTCATACACTCAGTATGATTCCCTTAC
*
801054 CATTTTAGCACACTCAGTGCTCCATATGGGAATTCATACACTCAGTATGATTCCCTTAC
1 CATTTTAGCACACTCAGTGC-CCATATGGAAATTCATACACTCAGTATGATTCCCTTAC
801113 CATTTTAGCACA
1 CATTTTAGCACA
801125 TATAGTGCCA
Statistics
Matches: 302, Mismatches: 48, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
58 5 0.02
59 246 0.81
60 44 0.15
61 3 0.01
62 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (58 bp):
CATTTTAGCACACTCAGTGCCCATATGGAAATTCATACACTCAGTATGATTCCCTTAC
Found at i:800945 original size:118 final size:116
Alignment explanation
Indices: 800742--801152 Score: 405
Period size: 118 Copynumber: 3.5 Consensus size: 116
800732 CCGTACCATT
* ** * * ** *
800742 AGTATGATTCCTTTACCATTTTTAGCACATGCAGTGCCCTATATGAAAATCCATACTA-TTAGTA
1 AGTATGATTCCCTTACCA-TTTTAGCACATATAGTGCCCT-T-TGGAAATCAATA-TACACAATA
* * * * * * * * *
800806 TGATTTCCATATCCTTGTAGCACCCTTAGTGCTTTTTCTGGAAATCCATACACTC
62 TGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATTCATACACTC
* * * * **
800861 AATATGATCCCCTTACCATTTTAGCCCATATAATGCCCTCTCTGGAAATCAATATATTCAATATG
1 AGTATGATTCCCTTACCATTTTAGCACATATAGTGCCCT-T-TGGAAATCAATATACACAATATG
*
800926 ATTTCCTTATCATTTTAGCACACTCAATGCTCTATATGGAAATTCATACACTC
64 ATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATTCATACACTC
* * * *
800979 AGTATGATTCCCTTACCATTTTAGCACACT-CAGTGCTCCATATGGAAATTC-ATACACACAGTA
1 AGTATGATTCCCTTACCATTTTAGCACA-TATAGTGC-CC-TTTGGAAA-TCAATATACACAATA
* * * *
801042 TGATTCCCTTACCATTTTAGCACACTCAGTGCTCCATATGGGAATTCATACACTC
62 TGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATTCATACACTC
* *
801097 AGTATGATTCCCTTACCATTTTAGCACATATAGTGCCATTTGGAAATCACTATACA
1 AGTATGATTCCCTTACCATTTTAGCACATATAGTGCCCTTTGGAAATCAATATACA
801153 TACATTAATA
Statistics
Matches: 242, Mismatches: 43, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
115 2 0.01
116 12 0.05
117 4 0.02
118 203 0.84
119 20 0.08
120 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (116 bp):
AGTATGATTCCCTTACCATTTTAGCACATATAGTGCCCTTTGGAAATCAATATACACAATATGAT
TTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATTCATACACTC
Found at i:801011 original size:31 final size:31
Alignment explanation
Indices: 800973--801071 Score: 80
Period size: 31 Copynumber: 3.3 Consensus size: 31
800963 GGAAATTCAT
800973 ACACTCAGTATGATTCCCTTACCATTTTAGC
1 ACACTCAGTATGATTCCCTTACCATTTTAGC
* * *** * * *
801004 ACACTCAG--TG-CTCCATATGGAAATTCA-T
1 ACACTCAGTATGATTCCCT-TACCATTTTAGC
*
801032 ACACACAGTATGATTCCCTTACCATTTTAGC
1 ACACTCAGTATGATTCCCTTACCATTTTAGC
801063 ACACTCAGT
1 ACACTCAGT
801072 GCTCCATATG
Statistics
Matches: 45, Mismatches: 18, Indels: 10
0.62 0.25 0.14
Matches are distributed among these distances:
28 11 0.24
29 7 0.16
30 7 0.16
31 20 0.44
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.31
Consensus pattern (31 bp):
ACACTCAGTATGATTCCCTTACCATTTTAGC
Found at i:801132 original size:59 final size:60
Alignment explanation
Indices: 800742--801132 Score: 356
Period size: 59 Copynumber: 6.6 Consensus size: 60
800732 CCGTACCATT
* * * * *
800742 AGTATGATTCCTTTACCATTTTTAGCACA-TGCAGTGC-CCTATATGAAAATCCATACTA-TT
1 AGTATGATTCCCTTACCA-TTTTAGCACACTACAGTGCTCC-ATATGGAAATTCATAC-ACTC
* * * * * *** * *
800802 AGTATGATTTCCATATCC-TTGTAGCACCCT-TAGTGCTTTTTCTGGAAATCCATACACTC
1 AGTATGATTCCCTTA-CCATTTTAGCACACTACAGTGCTCCATATGGAAATTCATACACTC
* * * * * * * * *
800861 AATATGATCCCCTTACCATTTTAGCCCA-TATAATGC-CCTCTCTGGAAA-TCAATATATTC
1 AGTATGATTCCCTTACCATTTTAGCACACTACAGTGCTCC-ATATGGAAATTC-ATACACTC
* * * * *
800920 AATATGATTTCCTTATCATTTTAGCACACT-CAATGCTCTATATGGAAATTCATACACTC
1 AGTATGATTCCCTTACCATTTTAGCACACTACAGTGCTCCATATGGAAATTCATACACTC
*
800979 AGTATGATTCCCTTACCATTTTAGCACACT-CAGTGCTCCATATGGAAATTCATACACAC
1 AGTATGATTCCCTTACCATTTTAGCACACTACAGTGCTCCATATGGAAATTCATACACTC
*
801038 AGTATGATTCCCTTACCATTTTAGCACACT-CAGTGCTCCATATGGGAATTCATACACTC
1 AGTATGATTCCCTTACCATTTTAGCACACTACAGTGCTCCATATGGAAATTCATACACTC
*
801097 AGTATGATTCCCTTACCATTTTAGCACA-TATAGTGC
1 AGTATGATTCCCTTACCATTTTAGCACACTACAGTGC
801133 CATTTGGAAA
Statistics
Matches: 274, Mismatches: 45, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
58 6 0.02
59 249 0.91
60 17 0.06
61 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (60 bp):
AGTATGATTCCCTTACCATTTTAGCACACTACAGTGCTCCATATGGAAATTCATACACTC
Found at i:808782 original size:30 final size:30
Alignment explanation
Indices: 808746--808806 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
808736 AATAATATTA
* *
808746 TGCATCGATACGCTACAGTAACTGCTGCAG
1 TGCATCGATACACTACAGTAACTGCTACAG
*
808776 TGCATCGATACACTACAGTATCTGCTACAG
1 TGCATCGATACACTACAGTAACTGCTACAG
808806 T
1 T
808807 AATTTCAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (30 bp):
TGCATCGATACACTACAGTAACTGCTACAG
Found at i:809205 original size:44 final size:44
Alignment explanation
Indices: 809124--809268 Score: 209
Period size: 44 Copynumber: 3.3 Consensus size: 44
809114 GATTTCTTAT
* * *
809124 CAATATACATACCATTTAATCTATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTT-TTCCATAAGCTCGTAAGCTTATTTTAC
809169 CAATATACTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTAC
* * * *
809213 CAATATACTTACCATTATTCCATAAGCTTGTAAGATTATTTTAT
1 CAATATACTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTAC
*
809257 CAATCTACTTAC
1 CAATATACTTAC
809269 TATAATTTCA
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
44 76 0.83
45 16 0.17
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (44 bp):
CAATATACTTACCATTTTTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:809441 original size:60 final size:61
Alignment explanation
Indices: 809365--809479 Score: 189
Period size: 60 Copynumber: 1.9 Consensus size: 61
809355 TTCCTCCTCA
*
809365 TTTTAGCACACGAAGTGCCCTATATGAGAATCCATACCT-TTAGTATGA-TTCCTTTACCAT
1 TTTTAGCACACGAAGTGCCCTATATGAAAATCCATA-CTATTAGTATGATTTCCTTTACCAT
*
809425 TTTTAGCACATGAAGTGCCCTATATGAAAATCCATACTATTAGTATGATTTCCTT
1 TTTTAGCACACGAAGTGCCCTATATGAAAATCCATACTATTAGTATGATTTCCTT
809480 ATCCTTGTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
59 2 0.04
60 43 0.84
61 6 0.12
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (61 bp):
TTTTAGCACACGAAGTGCCCTATATGAAAATCCATACTATTAGTATGATTTCCTTTACCAT
Found at i:809531 original size:59 final size:58
Alignment explanation
Indices: 809308--809713 Score: 288
Period size: 59 Copynumber: 6.9 Consensus size: 58
809298 TCTTATAATA
* * * * * * * *
809308 TTAGCACTCTTAGTGCTCTATCTGGAATAT-CATATACTTAATATGATTTCCTCCT-CATT
1 TTAGCACACTCAGTGCTCCATATGGAA-ATCCATACACTCAATATGA-TTCC-CTTACCTT
** * * *
809367 TTAGCACACGAAGTGC-CCTATAT-GAGAATCCATAC-CTTTAGTATGATTCCTTTACCATTT
1 TTAGCACACTCAGTGCTCC-ATATGGA-AATCCATACAC-TCAATATGATTCCCTTACC--TT
* * * * *
809427 TTAGCACA-TGAAGTGC-CCTATATGAAAATCCATACTA-TTAGTATGATTTCCTTATCCTT
1 TTAGCACACT-CAGTGCTCC-ATATGGAAATCCATAC-ACTCAATATGATTCCCTTA-CCTT
* * * * *** * *
809486 GTAGAACCCTTAGTGCTTTTTCTGGAAATCCATACACTCAATATGAGTCCCTTACCATT
1 TTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAATATGATTCCCTTACC-TT
* * * *
809545 TTAGCACACTCAATGCTCCATATGGAAATCCATACACTCAGTATGATTCCATTAACATT
1 TTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAATATGATTCCCTT-ACCTT
*
809604 TTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAATATGATTCCCTTACCATT
1 TTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAATATGATTCCCTTACC-TT
* * * *
809663 TTGGCACACTCAGTGCTCCATATGGGAATTCATACACTCAGTATGAGTTCC
1 TTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAATATGA-TTCC
809714 ATTTGGAAAT
Statistics
Matches: 280, Mismatches: 48, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
57 1 0.00
58 16 0.06
59 206 0.74
60 54 0.19
61 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (58 bp):
TTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAATATGATTCCCTTACCTT
Found at i:809619 original size:118 final size:119
Alignment explanation
Indices: 809408--809716 Score: 358
Period size: 118 Copynumber: 2.6 Consensus size: 119
809398 ATACCTTTAG
* * * *
809408 TATGATTCCTTTACCATTTTTAGCACA-TGAAGTGC-CCTATATGAAAATCCATACTA-TTAGTA
1 TATGATTCCCTTACCA-TTTTAGCACACTCAA-TGCTCC-ATATGGAAATCCATAC-ACTCAGTA
* * * * * *** *
809470 TGATTTCC-TTATCCTTGTAGAACCCTTAGTGCTTTTTCTGGAAATCCATACACTCAA
62 TGAGTTCCATTAACATTGTAGAACACTCAGTGCTCCATATGGAAATCCATACACTCAA
*
809527 TATGAGTCCCTTACCATTTTAGCACACTCAATGCTCCATATGGAAATCCATACACTCAGTATGA-
1 TATGATTCCCTTACCATTTTAGCACACTCAATGCTCCATATGGAAATCCATACACTCAGTATGAG
* * *
809591 TTCCATTAACATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAA
66 TTCCATTAACATTGTAGAACACTCAGTGCTCCATATGGAAATCCATACACTCAA
* * * *
809645 TATGATTCCCTTACCATTTTGGCACACTCAGTGCTCCATATGGGAATTCATACACTCAGTATGAG
1 TATGATTCCCTTACCATTTTAGCACACTCAATGCTCCATATGGAAATCCATACACTCAGTATGAG
809710 TTCCATT
66 TTCCATT
809717 TGGAAATCAC
Statistics
Matches: 164, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
117 5 0.03
118 133 0.81
119 26 0.16
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (119 bp):
TATGATTCCCTTACCATTTTAGCACACTCAATGCTCCATATGGAAATCCATACACTCAGTATGAG
TTCCATTAACATTGTAGAACACTCAGTGCTCCATATGGAAATCCATACACTCAA
Found at i:821276 original size:18 final size:18
Alignment explanation
Indices: 821253--821307 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 18
821243 AATTAATAAA
821253 AATATATATTTATTATAT
1 AATATATATTTATTATAT
* *
821271 AATATA-GTTTA-TAAAT
1 AATATATATTTATTATAT
821287 AA-A-ATATTTATTATAT
1 AATATATATTTATTATAT
821303 AATAT
1 AATAT
821308 CAATGGTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 1 0.03
15 5 0.17
16 12 0.41
17 5 0.17
18 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AATATATATTTATTATAT
Found at i:829890 original size:45 final size:45
Alignment explanation
Indices: 829835--830194 Score: 474
Period size: 45 Copynumber: 8.0 Consensus size: 45
829825 AATGAATGAA
829835 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
829880 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAATGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
829925 CAAAATAATAATACATATGGGTGCATTATTGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* * * *
829970 CAAAATAATAATGCATATGGGTACATTATCGACATGAAAGGATAC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
830015 CAAAATAATAATGCATATGGGTGCATTATAGGCGTGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
830060 CAAAATAAAAATGCATATGGGTGCATTATCA-GCATGAAAGTATGC
1 CAAAATAATAATGCATATGGGTGCATTAT-AGGCATGAAAGGATGC
* * ** **
830105 CAAAATAATAATCCATATGGGTGCATTATTGTTATGAAAATATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* * * * *
830150 CATAATTGA-AATGCTTATGGGTTCATTATCA-GCATAAAAGGATGC
1 CA-AAATAATAATGCATATGGGTGCATTAT-AGGCATGAAAGGATGC
830195 TATAATTGAA
Statistics
Matches: 276, Mismatches: 35, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
45 271 0.98
46 5 0.02
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
Found at i:836324 original size:45 final size:45
Alignment explanation
Indices: 836257--837152 Score: 1184
Period size: 45 Copynumber: 20.0 Consensus size: 45
836247 AACGAATGAA
* *
836257 CAAATTAATAATGCATATGGGTGCATTATAGG-ATTGAAAGGATGG
1 CAAAATAATAATGCATATGGGTGCATTATAGGCA-TGAAAGGATGC
* **
836302 CAAAATAATAATGCATATGGGTGCATTATCGTAATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
836347 CAAAATAATAATGCATATGGGTGTATTATAGGCATGAAAAGATG-
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* * * *
836391 CAAAATAGTAATGCATATGGGTGCATTATCGGTATGAAAGGATAC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
836436 CAAAATAATAATGCATATGGGTGCATTATAGACATGAAA-GATTGT
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGA-TGC
* * * *
836481 TAAAATAATAATGCATATGGGTTCATTATCGGCCTGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
836526 CAAAATAATAATGCATATGGGTGCATTGTAGGCATGATAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* **
836571 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATTT
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
836616 CAAAATAATAATGCATATGAGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
836661 CAAAATAATAATGCATATGGGTGCATTATCA-ACATGAAAGTATGC
1 CAAAATAATAATGCATATGGGTGCATTAT-AGGCATGAAAGGATGC
* * *
836706 CAAAATAATAATGCAT-TTGG-G-ATTATTGGCATGAAA-TAGTGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGA-TGC
* *
836748 CAAAATAATAATGCATATGGGTACATTATAGGCAGGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
836793 CAAAATAATAATGTATATGGGTGCATTATTA-GCATGAAAAGATGC
1 CAAAATAATAATGCATATGGGTGCATTA-TAGGCATGAAAGGATGC
* * *
836838 CAAAATAATAATGCATATGAGAGCATTATAGGCATGAAAAGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* * *
836883 CAAAATAATAATGCAAATGGGCGCATTATTGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
836928 CAAAATAATAATGCATATGAGTGCATTACAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
836973 CAAAATAATAATGCATATAGGTGCATTATAGGCATGAAATGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* * * *
837018 AAAAATAATAATGCATATGGGTGCATTATCGGCATAAAAGGATGA
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
837063 CAAAATAATAATGCATATGGGTGCATTATTGGTATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* * * *
837108 CATAATTGA-AATGCTTATGGGTGCATTATCA-GCATAAAAGGATGC
1 CA-AAATAATAATGCATATGGGTGCATTAT-AGGCATGAAAGGATGC
837153 TATAATTGAA
Statistics
Matches: 745, Mismatches: 91, Indels: 30
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.00
42 31 0.04
43 4 0.01
44 45 0.06
45 652 0.88
46 11 0.01
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
Found at i:843899 original size:20 final size:20
Alignment explanation
Indices: 843863--843900 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
843853 ATCCTATTCC
**
843863 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
843883 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
843901 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:845564 original size:23 final size:23
Alignment explanation
Indices: 845538--845584 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
845528 TGGTATCACC
845538 ATTA-AAGAAAAAATATAAAATAT
1 ATTATAAG-AAAAATATAAAATAT
* *
845561 ATTATATGTAAAATATAAAATAT
1 ATTATAAGAAAAATATAAAATAT
845584 A
1 A
845585 CAAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
ATTATAAGAAAAATATAAAATAT
Found at i:848607 original size:24 final size:24
Alignment explanation
Indices: 848542--848621 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
848532 TTTGGATTGA
* * *
848542 ATTCTGTTCTAAAACCTGACCTGG
1 ATTCTGTTCTAATATCTGATCTGG
*
848566 ATTCTGTTCTAATTTCTGATCTGG
1 ATTCTGTTCTAATATCTGATCTGG
* *
848590 ATTCTGTTCTGATATCTGATCTGA
1 ATTCTGTTCTAATATCTGATCTGG
848614 ATTCTGTT
1 ATTCTGTT
848622 TTGATTTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (24 bp):
ATTCTGTTCTAATATCTGATCTGG
Found at i:848630 original size:12 final size:12
Alignment explanation
Indices: 848567--848630 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
848557 CTGACCTGGA
*
848567 TTCTGTTCTAAT
1 TTCTGTTCTGAT
*
848579 TTCTGATCTGGA-
1 TTCTGTTCT-GAT
848591 TTCTGTTCTGAT
1 TTCTGTTCTGAT
* * *
848603 ATCTGATCTGAA
1 TTCTGTTCTGAT
*
848615 TTCTGTTTTGAT
1 TTCTGTTCTGAT
848627 TTCT
1 TTCT
848631 TATTTCTTCG
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
11 2 0.05
12 37 0.93
13 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (12 bp):
TTCTGTTCTGAT
Found at i:856242 original size:19 final size:19
Alignment explanation
Indices: 856218--856258 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
856208 AGATTTGATA
*
856218 AAAT-AAAATGGATAATAAT
1 AAATAAAAAGGGA-AATAAT
856237 AAATAAAAAGGGAAATAAT
1 AAATAAAAAGGGAAATAAT
856256 AAA
1 AAA
856259 ATAATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (19 bp):
AAATAAAAAGGGAAATAAT
Found at i:856260 original size:20 final size:21
Alignment explanation
Indices: 856215--856262 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
856205 AAAAGATTTG
*
856215 ATAAAAT-AAAATGGATAATA
1 ATAAAATAAAAAGGGATAATA
856235 AT-AAATAAAAAGGGA-AATA
1 ATAAAATAAAAAGGGATAATA
856254 ATAAAATAA
1 ATAAAATAA
856263 TAAATATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (21 bp):
ATAAAATAAAAAGGGATAATA
Found at i:856340 original size:4 final size:4
Alignment explanation
Indices: 856331--856360 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
856321 AGATAAAAAT
856331 TAAA TAAA TAAA TAAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA T-AAA TAAA TAAA TAAA T
856361 TGAGATAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:856348 original size:13 final size:13
Alignment explanation
Indices: 856327--856359 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
856317 AATGAGATAA
*
856327 AAATTAAATAAAT
1 AAATAAAATAAAT
856340 AAATAAAATAAAT
1 AAATAAAATAAAT
856353 AAATAAA
1 AAATAAA
856360 TTGAGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:856353 original size:17 final size:18
Alignment explanation
Indices: 856326--856360 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
856316 TAATGAGATA
856326 AAAATTAAATAAATAAAT
1 AAAATTAAATAAATAAAT
856344 AAAA-TAAATAAATAAAT
1 AAAATTAAATAAATAAAT
856361 TGAGATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATTAAATAAATAAAT
Found at i:860320 original size:105 final size:108
Alignment explanation
Indices: 859903--860300 Score: 425
Period size: 105 Copynumber: 3.6 Consensus size: 108
859893 GCGTTGGATT
* *
859903 GAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTC-CTT-TAGGACGAGTTCTTCTCATTATGAACTC
* * * *
859968 TTCACTGAAAATGTTG-ATCCACCTCCTTCTGTGATGGAATCGAACGAAGG
64 TCCACTGAAAATGTTGAAT-CACCTCATTCTGTGGT-GAATTG-A--AA-G
* *
860018 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATT-TGATGAGTTCTTCTCATTATGAA
1 --GAACAAGTTCTTCTCATTATGAACTTCTTC-TCCT--TTAGGACGAGTTCTTCTCATTATGAA
* * * *
860082 CTCTCCACTGAAAATGTTGAGTCACCTCCTTCTGCGGTGGACTTGAAAG
61 CTCTCCACTGAAAATGTTGAATCACCTCATTCTGTGGT-GAATTGAAAG
* *
860131 GAATAAGTTCTTCTCATTATGAAC-T-TTCTCCTTTAGGACGAGTTCTTCTTATTATGAACTCT-
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTC
** * **
860193 -TTTGGAAATGTTGGTTCACCTCATTCTGTGGTGAATTTGAAAG
66 CACTGAAAATGTTGAATCACCTCATTCTGTGGTGAA-TTGAAAG
*
860236 GAACAAGTTCTTCTCATTATGAAC-T-TTCTCCTTTAGGACGGGTTCTTCTCATTATGAACTCTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTC
860299 CA
66 CA
860301 TTAGAAATGT
Statistics
Matches: 250, Mismatches: 23, Indels: 26
0.84 0.08 0.09
Matches are distributed among these distances:
104 2 0.01
105 91 0.36
106 2 0.01
107 24 0.10
108 4 0.02
109 3 0.01
110 1 0.00
111 23 0.09
113 1 0.00
114 2 0.01
116 1 0.00
117 91 0.36
118 4 0.02
119 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (108 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTC
CACTGAAAATGTTGAATCACCTCATTCTGTGGTGAATTGAAAG
Found at i:860573 original size:105 final size:111
Alignment explanation
Indices: 860367--860573 Score: 309
Period size: 105 Copynumber: 1.9 Consensus size: 111
860357 GTAATAGGTC
* * *
860367 GAACAAGCTCTTCTTATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTAGGACGAGTTCTTCTCATTATGAACT
860432 CTCCATTGAAAATGTTGATCCACCTCCTTTTGCGATGGACTCGAAAG
66 CT-CATTGAAAATGTTGATCCACCTCCTTTTGCGATGGACTCGAAAG
*
860479 GAACAAGTTCTTCTCATTATGAAC-T-TTCT-CCT-T-TAGGACGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTAGGACGAGTTCTTCTCATTATGAACT
* *
860539 CT-TTTGGAAATGTTGATCCACCTCCTTTTGCGATG
66 CTCATTGAAAATGTTGATCCACCTCCTTTTGCGATG
860574 AATATTAATT
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
105 31 0.35
107 27 0.30
108 1 0.01
109 3 0.03
110 4 0.04
111 1 0.01
112 22 0.25
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.38
Consensus pattern (111 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTAGGACGAGTTCTTCTCATTATGAACT
CTCATTGAAAATGTTGATCCACCTCCTTTTGCGATGGACTCGAAAG
Found at i:876741 original size:5 final size:5
Alignment explanation
Indices: 876731--876838 Score: 58
Period size: 5 Copynumber: 20.8 Consensus size: 5
876721 TGTTCAGAGA
* * * * *
876731 AAAAT AAAAT AAAAT TAATT AAAAT AAAAT -ATAT AGAAT GAAAAT AAAGTTTT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA---AT
* * * * *
876784 CAAA- AAAAT AAAAT AAAAAT AAAAC GAAAT AAAACG AAAAT AAAAT GAAAT
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT
876835 AAAA
1 AAAA
876839 AATAGAACGA
Statistics
Matches: 75, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
4 6 0.08
5 53 0.71
6 13 0.17
8 3 0.04
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:876815 original size:21 final size:21
Alignment explanation
Indices: 876789--876838 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
876779 GTTTTCAAAA
*
876789 AAATAAAATAAAAATAAAACG
1 AAATAAAACAAAAATAAAACG
* *
876810 AAATAAAACGAAAATAAAATG
1 AAATAAAACAAAAATAAAACG
876831 AAATAAAA
1 AAATAAAA
876839 AATAGAACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (21 bp):
AAATAAAACAAAAATAAAACG
Found at i:882440 original size:17 final size:17
Alignment explanation
Indices: 882415--882448 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
882405 AATGAGATAA
*
882415 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
882432 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
882449 TGAGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:883837 original size:18 final size:16
Alignment explanation
Indices: 883799--883830 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
883789 TAGATATAAG
883799 GGTGTGAATTTTTTTT
1 GGTGTGAATTTTTTTT
883815 GGTGTGAATTTTTTTT
1 GGTGTGAATTTTTTTT
883831 TTGGTGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (16 bp):
GGTGTGAATTTTTTTT
Found at i:886484 original size:2 final size:2
Alignment explanation
Indices: 886477--886504 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
886467 CTATAATTAC
886477 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
886505 GTAATTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:891982 original size:41 final size:40
Alignment explanation
Indices: 891896--892010 Score: 115
Period size: 41 Copynumber: 2.8 Consensus size: 40
891886 ATGTACTCTA
* * * * *
891896 TTGCGGCGTTTGTTTAAAAACGGCACTAAAGAATGATTCTT
1 TTGCGGCGTTT-TTTTAAAACGCCACTAAAGTAGGATTCTG
891937 TTGCGGCGTTTTTTTAGAAACGCCACTAAAGTAGGACTT-TG
1 TTGCGGCGTTTTTTTA-AAACGCCACTAAAGTAGGA-TTCTG
* * *
891978 TTGCGGCCTTTGTTTTAAAATGCCACTGAAGTA
1 TTGCGGCGTTT-TTTTAAAACGCCACTAAAGTA
892011 CTTATATGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 4 0.06
41 52 0.83
42 7 0.11
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.35
Consensus pattern (40 bp):
TTGCGGCGTTTTTTTAAAACGCCACTAAAGTAGGATTCTG
Found at i:891990 original size:123 final size:124
Alignment explanation
Indices: 891769--892002 Score: 276
Period size: 123 Copynumber: 1.9 Consensus size: 124
891759 ACGTTCCAAA
891769 CTATTGCGGCATTTGTTAGAAAAACGCCAATAAAAAATGATTCTATTGCAACATTTATTTAGAAA
1 CTATTGCGGCATTTGTTAGAAAAACGCCAATAAAAAATGATTCTATTGCAACATTTATTTAGAAA
* ** * *
891834 CGCCATTAAAGTATTAGGTTTTATCGGCGTTTGTCTAAAAATGCCATAATATATGTACT
66 CGCCACTAAAGTAGGAGCTTTTATCGGCCTTTGTCTAAAAATGCCATAATATATGTACT
* * * * * * ** * *
891893 CTATTGCGGCGTTTGTT-TAAAAACGGCACTAAAGAATGATTCTTTTGCGGCGTTTTTTTAGAAA
1 CTATTGCGGCATTTGTTAGAAAAACGCCAATAAAAAATGATTCTATTGCAACATTTATTTAGAAA
* *
891957 CGCCACTAAAGTAGGA-CTTTGT-TGCGGCCTTTGTTTTAAAATGCCA
66 CGCCACTAAAGTAGGAGCTTT-TAT-CGGCCTTTGTCTAAAAATGCCA
892003 CTGAAGTACT
Statistics
Matches: 91, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
122 4 0.04
123 71 0.78
124 16 0.18
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (124 bp):
CTATTGCGGCATTTGTTAGAAAAACGCCAATAAAAAATGATTCTATTGCAACATTTATTTAGAAA
CGCCACTAAAGTAGGAGCTTTTATCGGCCTTTGTCTAAAAATGCCATAATATATGTACT
Found at i:896459 original size:13 final size:13
Alignment explanation
Indices: 896443--896489 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
896433 TAAAAAATAT
896443 ATAATATAAATTA
1 ATAATATAAATTA
896456 ATAATATAAA-TA
1 ATAATATAAATTA
896468 ATAATATTAAATATTA
1 ATAATA-T-AA-ATTA
896484 ATAATA
1 ATAATA
896490 ACCTGGACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.27
13 11 0.37
14 2 0.07
15 1 0.03
16 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATATAAATTA
Found at i:896480 original size:19 final size:19
Alignment explanation
Indices: 896436--896490 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
896426 TGGTCTGTAA
896436 AAAATATATAAT-ATAAATT
1 AAAATATA-AATAATAAATT
896455 AATAATATAAATAATAATATT
1 AA-AATATAAATAATAA-ATT
*
896476 -AAATATTAATAATAA
1 AAAATATAAATAATAA
896491 CCTGGACAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 18 0.56
20 11 0.34
21 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATATAAATAATAAATT
Found at i:897014 original size:24 final size:24
Alignment explanation
Indices: 896982--897032 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
896972 TTCTTCTTTT
896982 TCTTATTGGTATTTATATACAGAC
1 TCTTATTGGTATTTATATACAGAC
897006 TCTTATTGGTATTTATATACAGAC
1 TCTTATTGGTATTTATATACAGAC
897030 TCT
1 TCT
897033 CTTTGCATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (24 bp):
TCTTATTGGTATTTATATACAGAC
Found at i:898607 original size:13 final size:13
Alignment explanation
Indices: 898570--898609 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
898560 TCTTCATTGA
898570 AAAATAAATA-TT
1 AAAATAAATATTT
*
898582 AAAATAATTTATTT
1 AAAATAA-ATATTT
898596 AAAATAAATATTT
1 AAAATAAATATTT
898609 A
1 A
898610 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:899779 original size:19 final size:19
Alignment explanation
Indices: 899757--899802 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
899747 GGGTCTTCTG
* **
899757 GAGGCGGCTGGAAGCTGTT
1 GAGGCGGCTGGAAACCATT
899776 GAGGCGGCTGGAAACCATT
1 GAGGCGGCTGGAAACCATT
899795 GAGGCGGC
1 GAGGCGGC
899803 GGCACACGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.46, T:0.15
Consensus pattern (19 bp):
GAGGCGGCTGGAAACCATT
Found at i:899933 original size:3 final size:3
Alignment explanation
Indices: 899925--900002 Score: 111
Period size: 3 Copynumber: 26.0 Consensus size: 3
899915 TTAATGTATT
* * *
899925 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
899973 TAA TAA TAA TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
900003 ATAAATTAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:900012 original size:15 final size:16
Alignment explanation
Indices: 899928--900013 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 16
899918 ATGTATTTAA
*
899928 TAATAAT-AATAATAA
1 TAATAATAAATAATAT
899943 TAATAAT-AATAATAT
1 TAATAATAAATAATAT
* *
899958 TTATAATAATTATAATAA
1 TAATAATAA--ATAATAT
* *
899976 TAATAATTATAATTATAA
1 TAATAA-TA-AATAATAT
899994 TAATAATAAATAA-AT
1 TAATAATAAATAATAT
900009 TAATA
1 TAATA
900014 TGGGTAAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
15 26 0.44
16 5 0.08
17 2 0.03
18 23 0.39
19 2 0.03
20 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAATAAATAATAT
Found at i:900992 original size:451 final size:451
Alignment explanation
Indices: 900225--901457 Score: 2120
Period size: 451 Copynumber: 2.7 Consensus size: 451
900215 GTGACAGAGT
* ** * * *
900225 CAAAAGGTTGAATAAGCTCTTCTTATTATGAACTTC--C-T-CTTCTTCAGATGAGTTCTTTTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* *** * *
900286 TTAAGAACTTTCTCTGGAAATTTTAATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAATAAAT
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAACAAAT
*
900351 TCTTCTCATTATGAATTTCTTATTCC-TCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
131 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
900415 AAAAGATAATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAATAAATTCTTCTCATTATGAATT
196 AAAAGATAATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAATAAATTCTTCTCATTATGAATT
900480 TCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAG
261 TCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAG
900545 TGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGA
326 TGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGA
900610 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATAGATTTGAG
391 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATAGATTTGAG
900671 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
900736 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAACAAAT
900801 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
131 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
900866 AAAAGATAATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAATAAATTCTTCTCATTATGAATT
196 AAAAGATAATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAATAAATTCTTCTCATTATGAATT
900931 TCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAG
261 TCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAG
*
900996 TGATATATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGA
326 TGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGA
* *
901061 TGATTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAG
391 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATAGATTTGAG
901122 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
901187 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAACAAAT
901252 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
131 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
* * * *
901317 AAAAGATAATCCATCATA-TGAT-GAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
196 AAAAGATAATCCATCA-AGTGATAG-ATTTGAGCGAAAGGTTGAATAAATTCTTCTCATTATGAA
* * **** * *
901380 CTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATC
259 TTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATC
* *
901445 AAATGATGGATTT
323 AAGTGATAGATTT
901458 AAAGCTTTGC
Statistics
Matches: 748, Mismatches: 31, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
446 32 0.04
448 1 0.00
449 1 0.00
450 106 0.14
451 550 0.74
452 58 0.08
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (451 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAACAAAT
TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
AAAAGATAATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAATAAATTCTTCTCATTATGAATT
TCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAG
TGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATAGATTTGAG
Found at i:901460 original size:113 final size:113
Alignment explanation
Indices: 900225--901457 Score: 1809
Period size: 113 Copynumber: 11.0 Consensus size: 113
900215 GTGACAGAGT
* ** * * *
900225 CAAAAGGTTGAATAAGCTCTTCTTATTATGAACTTC--C-T-CTTCTTCAGATGAGTTCTTTTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ***
900286 TTAAGAACTTTCTCTGGAAATTTTAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
* * * *
900334 CGAAAGGTTGAATAAATTCTTCTCATTATGAATTTCTTATTCC-TCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
****
900398 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
* * *
900446 CGAAAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
****
900510 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
*
900558 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
900623 TTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
*
900671 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
900736 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
* *
900784 CGAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
****
900849 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
* * *
900897 CGAAAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** *
900961 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATATATTTGAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
* *
901009 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGATTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
901074 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
*
901122 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
901187 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
* *
901235 CGAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** * *
901300 TTATGAACTCGAACTGGAAAAGATAATCCATCATA-TGAT-GAATTTAAA
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCA-AGTGATAG-ATTTGAG
*
901348 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
901413 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTT
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTT
901458 AAAGCTTTGC
Statistics
Matches: 1043, Mismatches: 71, Indels: 16
0.92 0.06 0.01
Matches are distributed among these distances:
109 31 0.03
112 319 0.31
113 691 0.66
114 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
Found at i:902389 original size:83 final size:83
Alignment explanation
Indices: 902259--903002 Score: 1192
Period size: 83 Copynumber: 8.9 Consensus size: 83
902249 CTATGAGCAA
902259 ATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCC
1 ATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCC
*
902324 AGAAGATACTATTGGCAC
66 AGAAGATGCTATTGGCAC
* *
902342 ATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATTAGATAACTCAAAGAACACTTCC
1 ATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCC
* *
902407 AGAAGATGCTATTGGAAA
66 AGAAGATGCTATTGGCAC
*
902425 ATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCC
1 ATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCC
*
902490 AGAAGATGCTATTGGCAA
66 AGAAGATGCTATTGGCAC
* *
902508 ATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAATTCC
1 ATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCC
*
902573 AGAAGATGCTA-TGAGTAC
66 AGAAGATGCTATTG-GCAC
* * *
902591 ATTCATCTTCCAAATTCAATGATTGGTTCTGCCCAACTAGATCAGATAACTCAAAGAACACTTCT
1 ATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCC
*
902656 AGAAGATGCTA-TGAGTAC
66 AGAAGATGCTATTG-GCAC
*
902674 ATTCATCTT-CAAATTCAATGATTGGTTCTGTCC-AACCAGATCAAATAACTCAAAGAACACTTC
1 ATTCATCTTCCAAATTCAATGATTGGTTCTG-CCAAACCAGATCAGATAACTCAAAGAACACTTC
*
902737 CAGAAGATGCTA-TGAGTAC
65 CAGAAGATGCTATTG-GCAC
*
902756 ATTCATCTTCCAAATTCAATGATTGGTTCTGCCCAACCAGATCAGATAACTCAAAGAACACTTCC
1 ATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCC
902821 AGAAGATGCTATTGGGCAC
66 AGAAGATGCTATT-GGCAC
* *
902840 ATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTC
1 ATTCATC-TTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTC
902905 CAGAAGATGCTATTGGGCAC
65 CAGAAGATGCTATT-GGCAC
* *
902925 ATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTC
1 ATTCATC-TTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTC
902990 CAGAAGATGCTAT
65 CAGAAGATGCTAT
903003 GAGCACCTGG
Statistics
Matches: 631, Mismatches: 23, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
82 80 0.13
83 387 0.61
84 11 0.02
85 153 0.24
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (83 bp):
ATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCC
AGAAGATGCTATTGGCAC
Found at i:903703 original size:19 final size:17
Alignment explanation
Indices: 903679--903740 Score: 83
Period size: 16 Copynumber: 3.6 Consensus size: 17
903669 TTCATAGACG
*
903679 AATAAATTGAATTTTCGAA
1 AATAAATTGAATTCTC--A
903698 AATAAATTGAA-TCTCA
1 AATAAATTGAATTCTCA
903714 AATAAATTGAA-TCTCA
1 AATAAATTGAATTCTCA
903730 AATAAATTGAA
1 AATAAATTGAA
903741 CTTGAAATAG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
16 28 0.67
18 3 0.07
19 11 0.26
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (17 bp):
AATAAATTGAATTCTCA
Found at i:903749 original size:16 final size:16
Alignment explanation
Indices: 903697--903740 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
903687 GAATTTTCGA
903697 AAATAAATTGAATCTC
1 AAATAAATTGAATCTC
903713 AAATAAATTGAATCTC
1 AAATAAATTGAATCTC
903729 AAATAAATTGAA
1 AAATAAATTGAA
903741 CTTGAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.30
Consensus pattern (16 bp):
AAATAAATTGAATCTC
Found at i:904100 original size:23 final size:22
Alignment explanation
Indices: 904072--904154 Score: 100
Period size: 23 Copynumber: 3.8 Consensus size: 22
904062 TGACCTCCCC
904072 TTTTTCTTTTTTCTTTTTCTCTT
1 TTTTTCTTTTTTCTTTTT-TCTT
904095 TTTTTCTTTTTTCTCTTTTT-TT
1 TTTTTCTTTTTTCT-TTTTTCTT
*
904117 TCTTTTCTTTTTT-TCTTTTCTT
1 T-TTTTCTTTTTTCTTTTTTCTT
*
904139 TCTTT-TTTTTTCTTTT
1 TTTTTCTTTTTTCTTTT
904155 CTTCAAGCAT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
20 6 0.11
21 10 0.19
22 7 0.13
23 26 0.49
24 4 0.08
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTCTTTTTTCTTTTTTCTT
Found at i:904105 original size:17 final size:17
Alignment explanation
Indices: 904078--904154 Score: 90
Period size: 16 Copynumber: 4.6 Consensus size: 17
904068 CCCCTTTTTC
904078 TTTTTTC-TTTTTCTCT
1 TTTTTTCTTTTTTCTCT
904094 TTTTTTCTTTTTTCTC-
1 TTTTTTCTTTTTTCTCT
*
904110 TTTTTT-TTCTTT-TCT
1 TTTTTTCTTTTTTCTCT
*
904125 TTTTTTCTTTTCTTTCTTT
1 TTTTTTC-TTT-TTTCTCT
904144 TTTTTTCTTTT
1 TTTTTTCTTTT
904155 CTTCAAGCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
14 2 0.04
15 11 0.21
16 13 0.25
17 11 0.21
18 6 0.12
19 9 0.17
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTCTTTTTTCTCT
Found at i:904126 original size:31 final size:31
Alignment explanation
Indices: 904084--904145 Score: 56
Period size: 31 Copynumber: 1.9 Consensus size: 31
904074 TTTCTTTTTT
*
904084 CTTTTTCTCTTTTTTTCTTTTTTCTCTTTT--
1 CTTTTTTTCTTTTTTTCTTTTTTCT-TTTTCC
*
904114 TTTTCTTTTCTTTTTTTCTTTTCTTTCTTTTT
1 CTTT-TTTTCTTTTTTTC-TTT-TTTCTTTTT
904146 TTTTCTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 3 0.11
31 12 0.44
32 7 0.26
33 5 0.19
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (31 bp):
CTTTTTTTCTTTTTTTCTTTTTTCTTTTTCC
Found at i:904147 original size:32 final size:30
Alignment explanation
Indices: 904072--904157 Score: 120
Period size: 32 Copynumber: 2.8 Consensus size: 30
904062 TGACCTCCCC
*
904072 TTTTTCTTTTTTCTTT-TTCTCTTTTTTTCT
1 TTTTTCTTTTTT-TTTCTTTTCTTTTTTTCT
904102 TTTTTCTCTTTTTTTTCTTTTCTTTTTTTCTT
1 TTTTTCT-TTTTTTTTCTTTTCTTTTTTTC-T
904134 TTCTTTCTTTTTTTTTCTTTTCTT
1 TT-TTTCTTTTTTTTTCTTTTCTT
904158 CAAGCATAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
30 10 0.20
31 17 0.33
32 19 0.37
33 5 0.10
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (30 bp):
TTTTTCTTTTTTTTTCTTTTCTTTTTTTCT
Found at i:904154 original size:41 final size:38
Alignment explanation
Indices: 904071--904146 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 38
904061 TTGACCTCCC
904071 CTTTTTCTTTTTTCTTTTTCTCTTTTTTTCTTTTTTCT
1 CTTTTTCTTTTTTCTTTTTCTCTTTTTTTCTTTTTTCT
* *
904109 CTTTTTTTTCTTTTCTTTTTTTCTTTTCTTTCTTTTTT
1 CTTTTTCTT-TTTTCTTTTTCTCTTTT-TTTCTTTTTT
904147 TTTCTTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 8 0.24
39 16 0.47
40 10 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (38 bp):
CTTTTTCTTTTTTCTTTTTCTCTTTTTTTCTTTTTTCT
Found at i:911432 original size:14 final size:15
Alignment explanation
Indices: 911413--911445 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
911403 TATTCTTTCC
911413 AAATTTTA-ATTAAT
1 AAATTTTATATTAAT
*
911427 AAATTTTATCTTAAT
1 AAATTTTATATTAAT
911442 AAAT
1 AAAT
911446 AAAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATTTTATATTAAT
Found at i:915524 original size:13 final size:13
Alignment explanation
Indices: 915487--915526 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
915477 TCTTCATTGA
915487 AAAATAAATA-TT
1 AAAATAAATATTT
*
915499 AAAATAATTTATTT
1 AAAATAA-ATATTT
915513 AAAATAAATATTT
1 AAAATAAATATTT
915526 A
1 A
915527 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:916696 original size:19 final size:19
Alignment explanation
Indices: 916674--916719 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
916664 GGGTCTTCTG
* **
916674 GAGGCGGCTGGAAGCTGTT
1 GAGGCGGCTGGAAACCATT
916693 GAGGCGGCTGGAAACCATT
1 GAGGCGGCTGGAAACCATT
916712 GAGGCGGC
1 GAGGCGGC
916720 GGTACACGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.46, T:0.15
Consensus pattern (19 bp):
GAGGCGGCTGGAAACCATT
Found at i:916850 original size:3 final size:3
Alignment explanation
Indices: 916842--916919 Score: 120
Period size: 3 Copynumber: 26.0 Consensus size: 3
916832 TTAATGTATT
* * *
916842 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
916890 TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
916920 ATAAATTAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:916889 original size:18 final size:18
Alignment explanation
Indices: 916820--916917 Score: 82
Period size: 18 Copynumber: 5.7 Consensus size: 18
916810 TTTTTATTAT
916820 TATTTATAAT-ATT-TAA
1 TATTTATAATAATTATAA
* *
916836 TGTATT-TAATAATAATAA
1 TAT-TTATAATAATTATAA
* * *
916854 TAATAATAATAATAATAA
1 TATTTATAATAATTATAA
916872 TATTTATAATAATTATAA
1 TATTTATAATAATTATAA
916890 TA---ATAATAATTATAA
1 TATTTATAATAATTATAA
* *
916905 TAATAATAATAAT
1 TATTTATAATAAT
916918 AAATAAATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
15 15 0.22
16 6 0.09
17 5 0.07
18 41 0.61
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (18 bp):
TATTTATAATAATTATAA
Found at i:921579 original size:24 final size:24
Alignment explanation
Indices: 921544--921593 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
921534 ATAATAAATG
*
921544 AACACAGATGAATGAACT-TAAACA
1 AACACAGATGAACGAA-TATAAACA
921568 AACACA-ACTGAACGAATATAAACA
1 AACACAGA-TGAACGAATATAAACA
921592 AA
1 AA
921594 TAACCATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.58, C:0.18, G:0.10, T:0.14
Consensus pattern (24 bp):
AACACAGATGAACGAATATAAACA
Found at i:922642 original size:187 final size:189
Alignment explanation
Indices: 922309--922681 Score: 545
Period size: 187 Copynumber: 2.0 Consensus size: 189
922299 AAGATTAACC
* *
922309 TTTACAATTTCCTAATTTTTCAAGCCTAAATTAGAATCACTCCCCTTTTTACAAAAGGATAAAAC
1 TTTACAATTTCCTAAGTTTTCAAGCCTAAACTAGAATCACT-CCCTTTTTACAAAAGGATAAAAC
* * * * * *
922374 AAGTAAACAAGAAAACCTCACAATGTAGGTGTTAACAAATATAAACTCACAAGAAAAATATTCAA
65 AAGTAAACAAGAAAACATAACAAGGTAGATGTTAACAAATATAAACTCACAAGAAAAACAATCAA
922439 AAGATTTGCAATGAGCTCAAACACTTATGTACAAGAGAAAAAGG-AAAATAAAGAGTATCA
130 AAGATTTGCAATGAGCTCAAACACTTATGTACAAGAG-AAAAGGAAAAATAAAGAGTATCA
* * ** *
922499 TTTACAA-TTCCTTAGTTTTCAAGGCTAAACTAGAATCACT-TTTTTTTACAAAAGGATAAAAGA
1 TTTACAATTTCCTAAGTTTTCAAGCCTAAACTAGAATCACTCCCTTTTTACAAAAGGATAAAACA
* * *
922562 AGTAAACAAGAAAACATAACAAGGTAGATGTTTACAAATTTAAGCTCACAAGAAAAACAATCAAA
66 AGTAAACAAGAAAACATAACAAGGTAGATGTTAACAAATATAAACTCACAAGAAAAACAATCAAA
* *
922627 AGATTTGCAATGAGCTCAAACATTTATGTATAAGAGAAAAGGAAAAATAAAGAGT
131 AGATTTGCAATGAGCTCAAACACTTATGTACAAGAGAAAAGGAAAAATAAAGAGT
922682 GAAAGAACTT
Statistics
Matches: 164, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
186 6 0.04
187 122 0.74
189 29 0.18
190 7 0.04
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (189 bp):
TTTACAATTTCCTAAGTTTTCAAGCCTAAACTAGAATCACTCCCTTTTTACAAAAGGATAAAACA
AGTAAACAAGAAAACATAACAAGGTAGATGTTAACAAATATAAACTCACAAGAAAAACAATCAAA
AGATTTGCAATGAGCTCAAACACTTATGTACAAGAGAAAAGGAAAAATAAAGAGTATCA
Found at i:932250 original size:57 final size:54
Alignment explanation
Indices: 932164--932280 Score: 141
Period size: 57 Copynumber: 2.1 Consensus size: 54
932154 CCTCGATCCG
*
932164 ATTTAA-ATATATTAATATTTTAAAATAATATATTTTATAAGAATTTATTTATAATT
1 ATTTAATATATATTAATATTTTAAAATAATATATTGTATAAGAA-TT-TTTAT-ATT
* * *
932220 ATTTAATATATTTTAA-ATTATTAAATTAATATATTGTATAATAATTTTTATATT
1 ATTTAATATATATTAATATT-TTAAAATAATATATTGTATAAGAATTTTTATATT
932274 -TTTAATA
1 ATTTAATA
932281 ATTAAAGAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
53 7 0.13
54 3 0.05
55 5 0.09
56 11 0.20
57 29 0.53
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (54 bp):
ATTTAATATATATTAATATTTTAAAATAATATATTGTATAAGAATTTTTATATT
Found at i:932273 original size:42 final size:41
Alignment explanation
Indices: 932202--932303 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 41
932192 TATATTTTAT
* * *
932202 AAGAATTTATTTATAATTATTTAATATATTTTAAATTATTA
1 AAGAATATATTTATAATAATTTAATATATTTTAAATAATTA
* * *
932243 AATTAATATATTGTATAATAATTT-TTATATTTTTAATAATTA
1 AA-GAATATATT-TATAATAATTTAATATATTTTAAATAATTA
932285 AAGAATATATTT-TAATAAT
1 AAGAATATATTTATAATAAT
932304 ATAAAAATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 7 0.13
40 1 0.02
41 10 0.19
42 24 0.46
43 10 0.19
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (41 bp):
AAGAATATATTTATAATAATTTAATATATTTTAAATAATTA
Found at i:932297 original size:21 final size:22
Alignment explanation
Indices: 932268--932312 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
932258 TAATAATTTT
932268 TATATTTTTAATAAT-TAAAGAA
1 TATATTTTTAATAATATAAA-AA
932290 TATA-TTTTAATAATATAAAAA
1 TATATTTTTAATAATATAAAAA
932311 TA
1 TA
932313 AAAAATCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATTTTTAATAATATAAAAA
Found at i:933441 original size:13 final size:13
Alignment explanation
Indices: 933423--933448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
933413 GTTAGGTTTG
933423 TTATACTTACCCA
1 TTATACTTACCCA
933436 TTATACTTACCCA
1 TTATACTTACCCA
933449 AGGTCTAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATACTTACCCA
Found at i:933954 original size:33 final size:33
Alignment explanation
Indices: 933861--933947 Score: 147
Period size: 33 Copynumber: 2.6 Consensus size: 33
933851 ATAGTGGACG
*
933861 AACCCGAAGGTCCAAATGCACCAAAGTGCTATA
1 AACCCGAAGGTCCAAATGCACCAAAGTGCTACA
933894 AACCCGAAGGTCCAAATGCACCAAAGTGCTACA
1 AACCCGAAGGTCCAAATGCACCAAAGTGCTACA
* *
933927 AACCCGTAGGTCCAAACGCAC
1 AACCCGAAGGTCCAAATGCAC
933948 TGAAGTGTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (33 bp):
AACCCGAAGGTCCAAATGCACCAAAGTGCTACA
Found at i:934814 original size:38 final size:38
Alignment explanation
Indices: 934763--934870 Score: 155
Period size: 38 Copynumber: 2.8 Consensus size: 38
934753 ACACTTAAAG
934763 ATATGGTTCCTAATCTAAAATTTGATTTCCAACCTGAA
1 ATATGGTTCCTAATCTAAAATTTGATTTCCAACCTGAA
* *
934801 ATATGGTTCCTAATCTAACATTCGATTTCCAACCTGAA
1 ATATGGTTCCTAATCTAAAATTTGATTTCCAACCTGAA
* * *
934839 ATATGATTTCC-AACCTAAAATTTGGTTTCCAA
1 ATATG-GTTCCTAATCTAAAATTTGATTTCCAA
934871 ACTCAAATTC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 58 0.94
39 4 0.06
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.36
Consensus pattern (38 bp):
ATATGGTTCCTAATCTAAAATTTGATTTCCAACCTGAA
Found at i:934848 original size:19 final size:19
Alignment explanation
Indices: 934777--935291 Score: 184
Period size: 19 Copynumber: 27.5 Consensus size: 19
934767 GGTTCCTAAT
*
934777 CTAAAATTTGATTTCCAAC
1 CTAAAATATGATTTCCAAC
* * *
934796 CTGAAATATG-GTTCCTAAT
1 CTAAAATATGATTTCC-AAC
*
934815 CTAACAT-TCGATTTCCAAC
1 CTAAAATAT-GATTTCCAAC
*
934834 CTGAAATATGATTTCCAAC
1 CTAAAATATGATTTCCAAC
* * *
934853 CTAAAATTTGGTTTCCAAA
1 CTAAAATATGATTTCCAAC
* *
934872 CTCAAAT-TCGATTTTCAAC
1 CTAAAATAT-GATTTCCAAC
* *
934891 CTAAAATCT-AGTTTCTAAC
1 CTAAAATATGA-TTTCCAAC
* *
934910 CTAAAATATGGTTTTCAAC
1 CTAAAATATGATTTCCAAC
**
934929 CT-AAAT-TTTTTTCCAAC
1 CTAAAATATGATTTCCAAC
* * * * *
934946 ATGAAATCT-TTTTCCAGC
1 CTAAAATATGATTTCCAAC
* *
934964 CTAAGATATGTTTTCCAAC
1 CTAAAATATGATTTCCAAC
* * * *
934983 TTAAAATCTGTTTTCCATC
1 CTAAAATATGATTTCCAAC
* * * *
935002 TTGAAATCTGGTTTCCAAC
1 CTAAAATATGATTTCCAAC
* * *
935021 CTAAATTTTGTTTTCCAAC
1 CTAAAATATGATTTCCAAC
* * * *
935040 TTGAAATATG-GTT----G
1 CTAAAATATGATTTCCAAC
* * *
935054 GTAAAATCTGTTTTCCAAC
1 CTAAAATATGATTTCCAAC
* * * *
935073 CTGAAATCTGGTTTCTAAC
1 CTAAAATATGATTTCCAAC
* * *
935092 TTGAAATCT-ATTTTCCAAC
1 CTAAAATATGA-TTTCCAAC
* * *
935111 CTGAAATTTGGTTTCCAAC
1 CTAAAATATGATTTCCAAC
* *
935130 CTAAATTCT-AGTTTCCAAC
1 CTAAAATATGA-TTTCCAAC
* *
935149 CTAAAATATGGTTTCTAAC
1 CTAAAATATGATTTCCAAC
* * *
935168 CTAAAATCTGGTTTCCAAT
1 CTAAAATATGATTTCCAAC
* * *
935187 CTAAAATCTGTTTTCTAAC
1 CTAAAATATGATTTCCAAC
* *
935206 CTGAAATCA-GGTTTCCAAC
1 CTAAAAT-ATGATTTCCAAC
** *
935225 CTAAAAT-CCAGTTCTCAAC
1 CTAAAATATGATTTC-CAAC
935244 CTAAAATAT-ATTTTCCAAC
1 CTAAAATATGA-TTTCCAAC
** *
935263 CTGGAATCTTG-TTTCCAAC
1 CTAAAAT-ATGATTTCCAAC
935282 CTAAAATATG
1 CTAAAATATG
935292 GTTCCTAACG
Statistics
Matches: 371, Mismatches: 98, Indels: 55
0.71 0.19 0.10
Matches are distributed among these distances:
14 7 0.02
15 2 0.01
17 9 0.02
18 35 0.09
19 308 0.83
20 10 0.03
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (19 bp):
CTAAAATATGATTTCCAAC
Found at i:935033 original size:57 final size:57
Alignment explanation
Indices: 934826--935294 Score: 241
Period size: 57 Copynumber: 8.4 Consensus size: 57
934816 TAACATTCGA
* * * * * *
934826 TTTCCAACCTGAAATATGATTTCCAACCTAAAATTTGGTTTCCAAACTCAAATTC-GAT
1 TTTCCAACCTGAAATCTGGTTTCCAACCTAAATTTTGTTTTCC-AACTTAAAATCTG-T
* * * * * * *
934884 TTT-CAACCTAAAATCTAGTTTCTAACCTAAAATATGGTTTT-CAACCT-AAAT-TTT
1 TTTCCAACCTGAAATCTGGTTTCCAACCT-AAATTTTGTTTTCCAACTTAAAATCTGT
* * * *
934938 TTTCCAACATGAAATCT-TTTTCCAGCCTAAGA-TATGTTTTCCAACTTAAAATCTGT
1 TTTCCAACCTGAAATCTGGTTTCCAACCTAA-ATTTTGTTTTCCAACTTAAAATCTGT
* * * *
934994 TTTCCATCTTGAAATCTGGTTTCCAACCTAAATTTTGTTTTCCAACTTGAAATATG-
1 TTTCCAACCTGAAATCTGGTTTCCAACCTAAATTTTGTTTTCCAACTTAAAATCTGT
* ** * * * * * * *
935050 GTT----GGTAAAATCTGTTTTCCAACCTGAAA-TCTGGTTTCTAACTTGAAATCTAT
1 TTTCCAACCTGAAATCTGGTTTCCAACCT-AAATTTTGTTTTCCAACTTAAAATCTGT
* * * * *
935103 TTTCCAACCTGAAATTTGGTTTCCAACCTAAATTCTAG-TTTCCAACCTAAAATATGG
1 TTTCCAACCTGAAATCTGGTTTCCAACCTAAATT-TTGTTTTCCAACTTAAAATCTGT
* * * * * * * * * *
935160 TTTCTAACCTAAAATCTGGTTTCCAATCTAAAATCTGTTTTCTAACCTGAAATCAGG
1 TTTCCAACCTGAAATCTGGTTTCCAACCTAAATTTTGTTTTCCAACTTAAAATCTGT
* ** * * * * **
935217 TTTCCAACCTAAAATCCAG-TTCTCAACCTAAAATATATTTTCCAACCTGGAATCT-T
1 TTTCCAACCTGAAATCTGGTTTC-CAACCTAAATTTTGTTTTCCAACTTAAAATCTGT
* *
935273 GTTTCCAACCTAAAATATGGTT
1 -TTTCCAACCTGAAATCTGGTT
935295 CCTAACGCAT
Statistics
Matches: 312, Mismatches: 78, Indels: 42
0.72 0.18 0.10
Matches are distributed among these distances:
52 36 0.12
53 12 0.04
54 18 0.06
55 18 0.06
56 30 0.10
57 185 0.59
58 13 0.04
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (57 bp):
TTTCCAACCTGAAATCTGGTTTCCAACCTAAATTTTGTTTTCCAACTTAAAATCTGT
Found at i:935066 original size:71 final size:71
Alignment explanation
Indices: 934984--935123 Score: 192
Period size: 71 Copynumber: 2.0 Consensus size: 71
934974 TTTTCCAACT
* * * * *
934984 TAAAATCTGTTTTCCATCTTGAAATCTGGTTTCCAACCT-AAATTTTGTTTTCCAACTTGAAATA
1 TAAAATCTGTTTTCCAACCTGAAATCTGGTTTCCAACCTGAAA-TCTATTTTCCAACCTGAAATA
935048 TGGTTGG
65 TGGTTGG
* * *
935055 TAAAATCTGTTTTCCAACCTGAAATCTGGTTTCTAACTTGAAATCTATTTTCCAACCTGAAATTT
1 TAAAATCTGTTTTCCAACCTGAAATCTGGTTTCCAACCTGAAATCTATTTTCCAACCTGAAATAT
935120 GGTT
66 GGTT
935124 TCCAACCTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 57 0.95
72 3 0.05
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (71 bp):
TAAAATCTGTTTTCCAACCTGAAATCTGGTTTCCAACCTGAAATCTATTTTCCAACCTGAAATAT
GGTTGG
Found at i:935106 original size:109 final size:108
Alignment explanation
Indices: 934949--935161 Score: 277
Period size: 109 Copynumber: 2.0 Consensus size: 108
934939 TTCCAACATG
* * * * *
934949 AAATCTTTTTCCAGCCTAAGATATGTTTTCCAACTTAAAATCTGTTTTCCATCTTGAAATCTGGT
1 AAATCTTTTTCCAACCTAAGATATGGTTTCCAACTTAAAATCTATTTTCCAACCTGAAATCTGGT
* * *
935014 TTCCAACCTAAATT-TTGTTTTCCAACTTGAAATATGGTTGGTA
66 TTCCAACCTAAATTCTAG-TTTCCAACCTAAAATATGGTTGGTA
* * * *
935057 AAATCTGTTTTCCAACCTGAA-ATCTGGTTTCTAACTTGAAATCTATTTTCCAACCTGAAATTTG
1 AAATCT-TTTTCCAACCT-AAGATATGGTTTCCAACTTAAAATCTATTTTCCAACCTGAAATCTG
935121 GTTTCCAACCTAAATTCTAGTTTCCAACCTAAAATATGGTT
64 GTTTCCAACCTAAATTCTAGTTTCCAACCTAAAATATGGTT
935162 TCTAACCTAA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
108 6 0.07
109 80 0.89
110 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (108 bp):
AAATCTTTTTCCAACCTAAGATATGGTTTCCAACTTAAAATCTATTTTCCAACCTGAAATCTGGT
TTCCAACCTAAATTCTAGTTTCCAACCTAAAATATGGTTGGTA
Found at i:937966 original size:24 final size:24
Alignment explanation
Indices: 937939--937986 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
937929 GCATGACATG
937939 GTACATAGATGTTTTATACATCAT
1 GTACATAGATGTTTTATACATCAT
937963 GTACATAGATGTTTTATACATCAT
1 GTACATAGATGTTTTATACATCAT
937987 CAAGAAGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (24 bp):
GTACATAGATGTTTTATACATCAT
Found at i:940160 original size:14 final size:14
Alignment explanation
Indices: 940127--940161 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
940117 GACCTTACCT
*
940127 GCCCGCATCCGCCC
1 GCCCACATCCGCCC
940141 GCCCCACATCCGCCC
1 G-CCCACATCCGCCC
940156 GCCCAC
1 GCCCAC
940162 TAAATACCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.11, C:0.66, G:0.17, T:0.06
Consensus pattern (14 bp):
GCCCACATCCGCCC
Found at i:942764 original size:15 final size:15
Alignment explanation
Indices: 942740--942773 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
942730 GACCTTACCT
*
942740 GCCCCGCATCCGCCC
1 GCCCCACATCCGCCC
942755 GCCCCACATCCGCCC
1 GCCCCACATCCGCCC
942770 GCCC
1 GCCC
942774 ACTAAATACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.68, G:0.18, T:0.06
Consensus pattern (15 bp):
GCCCCACATCCGCCC
Found at i:945353 original size:15 final size:15
Alignment explanation
Indices: 945329--945360 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
945319 GACCTTACCT
*
945329 GCCCCGCATCCGCCC
1 GCCCCACATCCGCCC
945344 GCCCCACATCCGCCC
1 GCCCCACATCCGCCC
945359 GC
1 GC
945361 ACTAAATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.66, G:0.19, T:0.06
Consensus pattern (15 bp):
GCCCCACATCCGCCC
Found at i:950290 original size:14 final size:15
Alignment explanation
Indices: 950258--950290 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
950248 GACCTTACCT
*
950258 GCCCCGCATCCGCCC
1 GCCCCACATCCGCCC
950273 GCCCCACATCCG-CC
1 GCCCCACATCCGCCC
950287 GCCC
1 GCCC
950291 ACTAAATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.09, C:0.67, G:0.18, T:0.06
Consensus pattern (15 bp):
GCCCCACATCCGCCC
Found at i:951275 original size:11 final size:11
Alignment explanation
Indices: 951259--951342 Score: 66
Period size: 11 Copynumber: 7.7 Consensus size: 11
951249 AGATAATTTA
951259 ATATATAATAT
1 ATATATAATAT
*
951270 ATATATAATAG
1 ATATATAATAT
*
951281 ACT-TATAAGTAA
1 A-TATATAA-TAT
* *
951293 AAATATAA-AG
1 ATATATAATAT
* *
951303 AAATATTATAT
1 ATATATAATAT
951314 ATATATAATAT
1 ATATATAATAT
*
951325 ATAAATAATAT
1 ATATATAATAT
951336 ATA-ATAA
1 ATATATAA
951343 AATAAATAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
10 12 0.20
11 39 0.65
12 9 0.15
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (11 bp):
ATATATAATAT
Found at i:951420 original size:16 final size:17
Alignment explanation
Indices: 951388--951428 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
951378 ATATATACAT
*
951388 ATAATAATAATACATGA
1 ATAATAATAATAAATGA
951405 ATAATAA-AATAAATGA
1 ATAATAATAATAAATGA
951421 ATAA-AATA
1 ATAATAATA
951429 TCCATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 13 0.59
17 7 0.32
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:952721 original size:105 final size:105
Alignment explanation
Indices: 952425--953471 Score: 1585
Period size: 105 Copynumber: 10.0 Consensus size: 105
952415 CATTGTTCCA
* * ** *
952425 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACAA
* * * *
952489 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* ** * *
952531 AGTCCAATATCCTTCGTTGTGAAGTTGAATTTGAATCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
952591 AGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
952631 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
952696 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
952736 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
952796 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
952836 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
* *
952901 AACGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
952941 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
953006 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
953046 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
953111 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
953151 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTCGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
953216 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
953256 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGG-AAGTTG-TTGTTGACAA
953321 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
953363 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAC
* * * *
953428 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
953469 AGT
1 AGT
953472 GCCACGATAT
Statistics
Matches: 866, Mismatches: 62, Indels: 26
0.91 0.06 0.03
Matches are distributed among these distances:
100 169 0.20
101 7 0.01
102 8 0.01
103 1 0.00
104 10 0.01
105 480 0.55
106 95 0.11
107 96 0.11
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:954289 original size:67 final size:67
Alignment explanation
Indices: 954217--954375 Score: 241
Period size: 67 Copynumber: 2.4 Consensus size: 67
954207 GAAACGAAAT
* *
954217 TTTGTTTTAAGGGAGATA-AAT-TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCATAGGAGAC
1 TTTGTTTCAAGGGA-A-ACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGAC
954280 AAAA
64 AAAA
*
954284 TTTGTTTCGAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
1 TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
954349 AA
66 AA
**
954351 TTTGTTTCAAGGGAAATTATCTCAA
1 TTTGTTTCAAGGGAAACAATCTCAA
954376 GAGAGACGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
65 1 0.01
66 4 0.05
67 79 0.94
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.32
Consensus pattern (67 bp):
TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
AA
Found at i:954300 original size:36 final size:35
Alignment explanation
Indices: 954250--954522 Score: 196
Period size: 36 Copynumber: 7.9 Consensus size: 35
954240 AAAGATTTTG
*
954250 TGTTTCAAGAGAAACTGTCTCATAGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCA-AGGAGACAAAATT
* ** **
954286 TGTTTCGAGGGAAACAATCTCAA--AG---ATTTT
1 TGTTTCAAGGGAAACTGTCTCAAGGAGACAAAATT
*
954316 GTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATT
1 -TGTTTCAAGGGAAACTGTCTC-AAGGAGACAAAATT
* * *
954353 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGACAAAATT
** * * *
954389 CATTTCAAGGGAAA-TGTTTTCAA--TG-----TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGGAGACAAAATT
954417 ATGTTTC-AGGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGG-GAAACTGTCTCAA-GGAGACAAAA-TT
* *
954455 TGTTTCAAAGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGACAAAATT
954491 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGACAA
954523 TGGTGAGCAC
Statistics
Matches: 184, Mismatches: 30, Indels: 46
0.71 0.12 0.18
Matches are distributed among these distances:
28 5 0.03
29 13 0.07
30 5 0.03
31 17 0.09
32 3 0.02
33 3 0.02
34 2 0.01
35 5 0.03
36 97 0.53
37 30 0.16
38 4 0.02
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (35 bp):
TGTTTCAAGGGAAACTGTCTCAAGGAGACAAAATT
Found at i:954400 original size:103 final size:101
Alignment explanation
Indices: 954250--954505 Score: 309
Period size: 103 Copynumber: 2.5 Consensus size: 101
954240 AAAGATTTTG
* *
954250 TGTTTCAAGAGAAACTGTCTCATAG-GAGACAAAATTTGTTTCGAGGGAAACAATCTCAAAGATT
1 TGTTTCAAGGGAAACTGTCTCA-AGAGAGAC-AAATTTGTTTCAAGGGAAACAATCTCAAAG--T
*
954314 TTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAA-TT
62 TTATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTT
* * ** *** * *
954353 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGGGAAACAATCTCAAAGTTTA
* *
954418 TGTTTCAGGAGAAACTGTCTCAAGGGAGACAAAATTT
65 TGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTT
*
954455 TGTTTCAAAGGAAACTGTCTCAAGAGAGACAAAGTTTGTTTCAAGGGAAAC
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA-TTTGTTTCAAGGGAAAC
954506 TGTCTCAAGA
Statistics
Matches: 129, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
101 38 0.29
102 45 0.35
103 46 0.36
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (101 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGGGAAACAATCTCAAAGTTTAT
GTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTT
Found at i:954993 original size:18 final size:18
Alignment explanation
Indices: 954966--955001 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
954956 TGATGAATCC
* *
954966 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
954984 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
955002 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:955493 original size:22 final size:22
Alignment explanation
Indices: 955416--955486 Score: 106
Period size: 22 Copynumber: 3.2 Consensus size: 22
955406 TTGTGTTTGG
*
955416 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
*
955438 TCAAAGGTTTAACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
* *
955460 TTAAAGGTTTGACATTGGATGC
1 TCAAAGGTTTGACATTTGATGC
955482 TCAAA
1 TCAAA
955487 AGATTGATGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:956140 original size:23 final size:22
Alignment explanation
Indices: 956114--956157 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
956104 TTGCATGTGC
*
956114 TTTTTGTCCCTTTTTCTTTTTGA
1 TTTTTG-CCCTTTTTCCTTTTGA
*
956137 TTTTTGCTCTTTTTCCTTTTG
1 TTTTTGCCCTTTTTCCTTTTG
956158 TTCTTGTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.02, C:0.18, G:0.09, T:0.70
Consensus pattern (22 bp):
TTTTTGCCCTTTTTCCTTTTGA
Found at i:956195 original size:8 final size:7
Alignment explanation
Indices: 956124--956213 Score: 63
Period size: 8 Copynumber: 11.7 Consensus size: 7
956114 TTTTTGTCCC
956124 TTTTTCT
1 TTTTTCT
**
956131 TTTTGAT
1 TTTTTCT
956138 TTTTGCTCT
1 TTTT--TCT
*
956147 TTTTCCT
1 TTTTTCT
956154 TTTGTTCT
1 TTT-TTCT
*
956162 TGTTTCT
1 TTTTTCT
956169 CTTTTTCT
1 -TTTTTCT
*
956177 TTGTTTTT
1 TT-TTTCT
956185 TTTTTGCT
1 TTTTT-CT
956193 TTTTTGCT
1 TTTTT-CT
956201 TCTTTTCT
1 T-TTTTCT
956209 TTTTT
1 TTTTT
956214 GTTCTTGATT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
7 27 0.41
8 30 0.45
9 9 0.14
ACGTcount: A:0.01, C:0.14, G:0.08, T:0.77
Consensus pattern (7 bp):
TTTTTCT
Found at i:956210 original size:16 final size:16
Alignment explanation
Indices: 956168--956219 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
956158 TTCTTGTTTC
*
956168 TCTTTTTCTTTGTTT-T
1 TCTTTTGCTTT-TTTGT
*
956184 TTTTTTGCTTTTTTGCT
1 TCTTTTGCTTTTTTG-T
956201 TCTTTT-CTTTTTTGT
1 TCTTTTGCTTTTTTGT
956216 TCTT
1 TCTT
956220 GATTAGATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 8 0.26
16 17 0.55
17 6 0.19
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (16 bp):
TCTTTTGCTTTTTTGT
Found at i:959876 original size:17 final size:17
Alignment explanation
Indices: 959856--959897 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
959846 ATATATACAT
*
959856 ATAATAATAATACATGA
1 ATAATAATAATAAATGA
*
959873 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
959890 ATAA-AATA
1 ATAATAATA
959898 TCCATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:962872 original size:15 final size:15
Alignment explanation
Indices: 962848--962881 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
962838 GACCTTACCT
*
962848 GCCCCGCATCCGCCC
1 GCCCCACATCCGCCC
962863 GCCCCACATCCGCCC
1 GCCCCACATCCGCCC
962878 GCCC
1 GCCC
962882 ACTAAATACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.68, G:0.18, T:0.06
Consensus pattern (15 bp):
GCCCCACATCCGCCC
Done.