Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_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: 5800122
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 26
Found at i:4992591 original size:19 final size:19
Alignment explanation
Indices: 4992567--4992635 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
4992557 CAACGAATTT
4992567 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* * **
4992586 TCGCAACGACAACTGTAGACTA
1 TCGCAACG--AA-TTTGGAAAA
4992608 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
4992627 TCGCAACGA
1 TCGCAACGA
4992636 CAACTGTAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 22 0.56
20 2 0.05
21 2 0.05
22 13 0.33
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:4992613 original size:22 final size:22
Alignment explanation
Indices: 4992585--4992656 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
4992575 AATTTGGAAA
4992585 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
4992607 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
4992626 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
4992648 ATCGCAACG
1 ATCGCAACG
4992657 CGAACTGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:4992617 original size:41 final size:41
Alignment explanation
Indices: 4992567--4992859 Score: 267
Period size: 41 Copynumber: 7.3 Consensus size: 41
4992557 CAACGAATTT
4992567 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
4992608 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
* * * * *
4992649 TCGCAACGCGAA-CTGGAAAATCGCAATG-CGATTTTCA-ACTA
1 TCGCAA--CGAATTTGGAAAATCGCAACGACAACTGT-AGACTA
* * **
4992690 TCGCAACGCGAA-CTGGAAAATCGCAACG-CGAAATG--GAAAA
1 TCGCAA--CGAATTTGGAAAATCGCAACGAC-AACTGTAGACTA
* * * * *
4992730 TCGTAACGCGAA-AT-GAAAA----ATCG-CAAC-GT-GATTT
1 TCGCAA--CGAATTTGGAAAATCGCAACGACAACTGTAGACTA
4992764 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
4992805 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
4992846 TCGCAACGCAATTT
1 TCGCAACG-AATTT
4992860 TCAACTATCG
Statistics
Matches: 213, Mismatches: 23, Indels: 31
0.80 0.09 0.12
Matches are distributed among these distances:
32 4 0.02
33 2 0.01
34 14 0.07
35 4 0.02
38 3 0.01
39 9 0.04
40 16 0.08
41 135 0.63
42 22 0.10
43 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.19
Consensus pattern (41 bp):
TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
Found at i:4992662 original size:22 final size:22
Alignment explanation
Indices: 4992581--4992757 Score: 96
Period size: 20 Copynumber: 8.6 Consensus size: 22
4992571 AACGAATTTG
4992581 GAAAATCGCAACGAC-AACTGTA
1 GAAAATCGCAACG-CGAACTGTA
** * *
4992603 GACTATCGCAA--CGAA-TTTG
1 GAAAATCGCAACGCGAACTGTA
4992622 GAAAATCGCAACGAC-AACTGTA
1 GAAAATCGCAACG-CGAACTGTA
**
4992644 GACTATCGCAACGCGAACTG--
1 GAAAATCGCAACGCGAACTGTA
* * *
4992664 GAAAATCGCAATGCG-ATTTTCA
1 GAAAATCGCAACGCGAACTGT-A
**
4992686 -ACTATCGCAACGCGAACTG--
1 GAAAATCGCAACGCGAACTGTA
*
4992705 GAAAATCGCAACGCGAAATG--
1 GAAAATCGCAACGCGAACTGTA
* *
4992725 GAAAATCGTAACGCGAAATG-A
1 GAAAATCGCAACGCGAACTGTA
4992746 -AAAATCGCAACG
1 GAAAATCGCAACG
4992758 TGATTTTCGC
Statistics
Matches: 118, Mismatches: 25, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
19 14 0.12
20 60 0.51
21 14 0.12
22 30 0.25
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (22 bp):
GAAAATCGCAACGCGAACTGTA
Found at i:4992673 original size:20 final size:20
Alignment explanation
Indices: 4992620--4992757 Score: 125
Period size: 20 Copynumber: 6.8 Consensus size: 20
4992610 GCAACGAATT
4992620 TGGAAAATCGCAACGAC-AAC
1 TGGAAAATCGCAACG-CGAAC
**
4992640 TGTAGACTATCGCAACGCGAAC
1 TG--GAAAATCGCAACGCGAAC
* **
4992662 TGGAAAATCGCAATGCGATT
1 TGGAAAATCGCAACGCGAAC
** *
4992682 TTCAACTATCGCAACGCGAAC
1 TGGAA-AATCGCAACGCGAAC
*
4992703 TGGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAC
* *
4992723 TGGAAAATCGTAACGCGAAA
1 TGGAAAATCGCAACGCGAAC
*
4992743 TGAAAAATCGCAACG
1 TGGAAAATCGCAACG
4992758 TGATTTTCGC
Statistics
Matches: 94, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
20 63 0.67
21 15 0.16
22 16 0.17
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (20 bp):
TGGAAAATCGCAACGCGAAC
Found at i:4992788 original size:19 final size:19
Alignment explanation
Indices: 4992764--4992832 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
4992754 AACGTGATTT
4992764 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* * **
4992783 TCGCAACGACAACTGTAGACTA
1 TCGCAACG--AA-TTTGGAAAA
4992805 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
4992824 TCGCAACGA
1 TCGCAACGA
4992833 CAACTGTAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 22 0.56
20 2 0.05
21 2 0.05
22 13 0.33
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:4992810 original size:22 final size:21
Alignment explanation
Indices: 4992782--4992875 Score: 86
Period size: 22 Copynumber: 4.5 Consensus size: 21
4992772 AATTTGGAAA
4992782 ATCGCAACGACAACTGTAGACT
1 ATCGCAACG-CAACTGTAGACT
* * **
4992804 ATCGCAACG-AA-TTTGGAAA
1 ATCGCAACGCAACTGTAGACT
4992823 ATCGCAACGACAACTGTAGACT
1 ATCGCAACG-CAACTGTAGACT
* *
4992845 ATCGCAACGCAATTTTCA-ACT
1 ATCGCAACGCAACTGT-AGACT
4992866 ATCGCAACGC
1 ATCGCAACGC
4992876 GAAATGAAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
19 13 0.22
20 2 0.03
21 20 0.34
22 23 0.40
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCAACTGTAGACT
Found at i:4992846 original size:156 final size:156
Alignment explanation
Indices: 4992608--4992897 Score: 408
Period size: 156 Copynumber: 1.9 Consensus size: 156
4992598 CTGTAGACTA
4992608 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAACTGGAAAATCGC
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAAC-CGAACTGGAAAATCGC
* * * * * * *
4992673 AATGCGATTTTCAACTATCGCAACGCGAA-CTGGAA-AATCGCAACGCGAAATGGAAAATCGTAA
65 AACGCAACTGTCAACTATCGCAACGC-AATCTGCAACAATCGCAACGCGAAATGAAAAATCGCAA
4992736 CGCGAAATGAAAAATCGCAACGTGATTT
129 CGCGAAATGAAAAATCGCAACGTGATTT
*
4992764 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAA-CGAATTTGGAAAATCGC
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACCGAA-CTGGAAAATCGC
* * *
4992828 AACGACAACTGT-AGACTATCGCAACGCAATTTTCAACTATCGCAACGCGAAATGAAAAATCGCA
65 AACG-CAACTGTCA-ACTATCGCAACGCAATCTGCAACAATCGCAACGCGAAATGAAAAATCGCA
4992892 ACGCGA
128 ACGCGA
4992898 TTTTCAACTA
Statistics
Matches: 118, Mismatches: 11, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
154 4 0.03
155 17 0.14
156 67 0.57
157 30 0.25
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.19
Consensus pattern (156 bp):
TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACCGAACTGGAAAATCGCA
ACGCAACTGTCAACTATCGCAACGCAATCTGCAACAATCGCAACGCGAAATGAAAAATCGCAACG
CGAAATGAAAAATCGCAACGTGATTT
Found at i:4992868 original size:21 final size:21
Alignment explanation
Indices: 4992842--4992937 Score: 97
Period size: 21 Copynumber: 4.6 Consensus size: 21
4992832 ACAACTGTAG
4992842 ACTATCGCAACGCAATTTTCA
1 ACTATCGCAACGCAATTTTCA
* *
4992863 ACTATCGCAACGCGAA--ATGA
1 ACTATCGCAACGC-AATTTTCA
** *
4992883 AAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCAATTTTCA
* *
4992904 ACTATCGCAACACGATTTTCA
1 ACTATCGCAACGCAATTTTCA
*
4992925 ATTATCGCAACGC
1 ACTATCGCAACGC
4992938 GAAATGCAAC
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
19 1 0.02
20 13 0.22
21 44 0.73
22 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (21 bp):
ACTATCGCAACGCAATTTTCA
Found at i:4992871 original size:62 final size:60
Alignment explanation
Indices: 4992801--4992936 Score: 148
Period size: 62 Copynumber: 2.2 Consensus size: 60
4992791 ACAACTGTAG
* * *
4992801 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCAATTTTCA
1 ACTATCGCAACGAA-ATGAAAAATCGCAACG-CAACTGTCA-ACTATCGCAACACAATTTTCA
* * * *
4992863 ACTATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACTATCGCAACACGATTTTCA
1 ACTATCGCAA--CGAAATGAAAAATCGCAACGCAACTGTCAACTATCGCAACACAATTTTCA
*
4992925 ATTATCGCAACG
1 ACTATCGCAACG
4992937 CGAAATGCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
60 2 0.03
62 42 0.67
63 15 0.24
64 4 0.06
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (60 bp):
ACTATCGCAACGAAATGAAAAATCGCAACGCAACTGTCAACTATCGCAACACAATTTTCA
Found at i:4998730 original size:24 final size:25
Alignment explanation
Indices: 4998695--4998759 Score: 105
Period size: 24 Copynumber: 2.6 Consensus size: 25
4998685 TATCAAGTTC
4998695 AACTCGAACTCGAAATATAATATTGA
1 AACT-GAACTCGAAATATAATATTGA
4998721 AA-TGAACTCGAAATATAATATTGA
1 AACTGAACTCGAAATATAATATTGA
4998745 AACTTGAACTCGAAA
1 AAC-TGAACTCGAAA
4998760 AGGCTTGAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
24 23 0.62
25 1 0.03
26 13 0.35
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (25 bp):
AACTGAACTCGAAATATAATATTGA
Found at i:5005230 original size:247 final size:245
Alignment explanation
Indices: 5004760--5005231 Score: 551
Period size: 247 Copynumber: 1.9 Consensus size: 245
5004750 GTGTCTAAGT
* *
5004760 AAAATAATAGTTTTAACCGTAGATTAAAATATCATTATAAATGTATTCGAAAAGTCGATCCCGCC
1 AAAATAATAGTTTTAACCGTAGATTAAAACATCATTATAAATGTATTCGAAAAGTCGATCCAGCC
* * *
5004825 AACAAGGGTCCTTAACTATTGGTCCATTGTACCGTTAGCTTTCAACGATTTTCTAACTGTAACTC
66 AACAAGGGCCCTTAACTATTGATCCATCGTACCGTTAGCTTTCAACGATTTTCTAACTGTAACTC
* * *
5004890 GATTAAAATATTATTTATTTAAATATTAAAAATAATTAAAAAAATATGATTCATAATGATTGATA
131 GATCAAAATAGTATTTATTTAAATATTAAAAATAATT--AAAAATATGAGTCATAATGATTGATA
* * *
5004955 ATAATAGTAACTAACGATCGCGATTAAAAGATATGCACTTTAATGACTAAAG
194 ATAATAGTAACTAACGACCACAATTAAAAGATATGCACTTTAATGACTAAAG
* * * * * *
5005007 AAAATAGTAGTTTTCACCGTCGATTAAAACATCATTATAAATTTATTC-AAACGATCGATTCCAT
1 AAAATAATAGTTTTAACCGTAGATTAAAACATCATTATAAATGTATTCGAAAAG-TCGA-TCCAG
* * * * *
5005071 CC-A-TAGAGGCCCTTAACTATTGATCCCTCGTACTGTTAGCTTTCAACGATTTTCTAATTGTAG
64 CCAACAAG-GGCCCTTAACTATTGATCCATCGTACCGTTAGCTTTCAACGATTTTCTAACTGTAA
* * * * * *
5005134 CTCGATCGAAAT-GTAGTTTCTTTAAATTTTAAAAATAATT-AGAATTTGAGTCTTAATGATTGA
128 CTCGATCAAAATAGTA-TTTATTTAAATATTAAAAATAATTAAAAATATGAGTCATAATGATTGA
*
5005197 TAA-AAGTAGTAACTTTTAACTACCACAATTAAAAG
192 TAATAA-TAGTAAC---TAACGACCACAATTAAAAG
5005232 CCATATTTTT
Statistics
Matches: 188, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
243 2 0.01
244 29 0.15
246 8 0.04
247 144 0.77
248 5 0.03
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (245 bp):
AAAATAATAGTTTTAACCGTAGATTAAAACATCATTATAAATGTATTCGAAAAGTCGATCCAGCC
AACAAGGGCCCTTAACTATTGATCCATCGTACCGTTAGCTTTCAACGATTTTCTAACTGTAACTC
GATCAAAATAGTATTTATTTAAATATTAAAAATAATTAAAAATATGAGTCATAATGATTGATAAT
AATAGTAACTAACGACCACAATTAAAAGATATGCACTTTAATGACTAAAG
Found at i:5016116 original size:18 final size:18
Alignment explanation
Indices: 5016093--5016128 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
5016083 TAAAATAGAA
5016093 CCTGTAATCGAATGAAAT
1 CCTGTAATCGAATGAAAT
5016111 CCTGTAATCGAATGAAAT
1 CCTGTAATCGAATGAAAT
5016129 TGAATATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (18 bp):
CCTGTAATCGAATGAAAT
Found at i:5016450 original size:20 final size:20
Alignment explanation
Indices: 5016425--5016467 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
5016415 TAGGGAGTGG
*
5016425 ATTGAAAGGTTAAGACCTTT
1 ATTGAAAGGTTAAGACATTT
5016445 ATTGAAAGGTTAAGACATTT
1 ATTGAAAGGTTAAGACATTT
5016465 ATT
1 ATT
5016468 TAAATGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (20 bp):
ATTGAAAGGTTAAGACATTT
Found at i:5017268 original size:15 final size:15
Alignment explanation
Indices: 5017250--5017285 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
5017240 CTAATGGTAT
5017250 TGTGTCGACGTCGCA
1 TGTGTCGACGTCGCA
5017265 TGTGTCGACGTCGCA
1 TGTGTCGACGTCGCA
5017280 TGTGTC
1 TGTGTC
5017286 TCGACTTACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (15 bp):
TGTGTCGACGTCGCA
Found at i:5021214 original size:25 final size:24
Alignment explanation
Indices: 5021140--5021247 Score: 77
Period size: 23 Copynumber: 4.5 Consensus size: 24
5021130 AAATTTTCAC
* * *
5021140 ATAAAATATATTTTTAA-ATAAAA
1 ATAAAATATATTTATAAGTTAATA
5021163 ATAAAA-ATATTTTAAATTAAGTTAATA
1 ATAAAATATA-TTT--A-TAAGTTAATA
5021190 ATAAAATATATTTAATAAGTTAAT-
1 ATAAAATATATTT-ATAAGTTAATA
5021214 A-AAAATAT-TTT-TAAGTTAATA
1 ATAAAATATATTTATAAGTTAATA
5021235 TATATAAA-ATATT
1 -ATA-AAATATATT
5021248 ATGAATTTAA
Statistics
Matches: 71, Mismatches: 3, Indels: 21
0.75 0.03 0.22
Matches are distributed among these distances:
20 9 0.13
22 7 0.10
23 19 0.27
24 6 0.08
25 9 0.13
26 5 0.07
27 13 0.18
28 3 0.04
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (24 bp):
ATAAAATATATTTATAAGTTAATA
Found at i:5021230 original size:20 final size:22
Alignment explanation
Indices: 5021188--5021234 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
5021178 ATTAAGTTAA
5021188 TAATAAAATATATTTAATAAGT
1 TAATAAAATATATTTAATAAGT
*
5021210 TAATAAAA-ATATTT-TTAAGT
1 TAATAAAATATATTTAATAAGT
5021230 TAATA
1 TAATA
5021235 TATATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 6 0.25
22 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
TAATAAAATATATTTAATAAGT
Found at i:5021257 original size:25 final size:26
Alignment explanation
Indices: 5021215--5021266 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
5021205 TAAGTTAATA
* *
5021215 AAAATATTTTTAAGTTAA-TATATAT
1 AAAATATTATGAAGTTAAGTATATAT
* *
5021240 AAAATATTATGAATTTAAGTATTTAT
1 AAAATATTATGAAGTTAAGTATATAT
5021266 A
1 A
5021267 CACTAACATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (26 bp):
AAAATATTATGAAGTTAAGTATATAT
Found at i:5026745 original size:21 final size:20
Alignment explanation
Indices: 5026715--5026755 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
5026705 TATATTTTTT
5026715 TATTTTTTTAAT-AATAAAAA
1 TATTTTTTTAATGAA-AAAAA
5026735 TATTATTTTTAATGAAAAAAA
1 TATT-TTTTTAATGAAAAAAA
5026756 CTTAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 13 0.68
22 2 0.11
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TATTTTTTTAATGAAAAAAA
Found at i:5035933 original size:34 final size:34
Alignment explanation
Indices: 5035885--5035985 Score: 152
Period size: 33 Copynumber: 3.0 Consensus size: 34
5035875 ATTTTTCAAC
5035885 AACATCTACCAAACTTTGAAAATATTTTTCAAAGA
1 AACAT-TACCAAACTTTGAAAATATTTTTCAAAGA
*
5035920 AACATTACCAAACTTTGAAAACCA--TTTCAAAGA
1 AACATTACCAAACTTTGAAAA-TATTTTTCAAAGA
*
5035953 AACATTACCAAACTTTGAAATTATTTTTCAAAG
1 AACATTACCAAACTTTGAAAATATTTTTCAAAG
5035986 TTGGTTACCA
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
32 1 0.02
33 29 0.48
34 24 0.40
35 6 0.10
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.31
Consensus pattern (34 bp):
AACATTACCAAACTTTGAAAATATTTTTCAAAGA
Found at i:5035983 original size:67 final size:66
Alignment explanation
Indices: 5035885--5036011 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 66
5035875 ATTTTTCAAC
5035885 AACATCTACCAAACTTTGAAAATATTTTTCAAAGAAACATTACCAAACTTTGAAAACCATTTCAA
1 AACATCTACCAAACTTTGAAAATATTTTTCAAAG-AACATTACCAAAC-TTGAAAACCATTTCAA
5035950 AGA
64 AGA
* ****
5035953 AACAT-TACCAAACTTTGAAATTATTTTTCAAAGTTGGTTACCAAACTTGAAAACCATTT
1 AACATCTACCAAACTTTGAAAATATTTTTCAAAGAACATTACCAAACTTGAAAACCATTT
5036012 TAATACTTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
65 13 0.24
66 9 0.17
67 27 0.50
68 5 0.09
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.31
Consensus pattern (66 bp):
AACATCTACCAAACTTTGAAAATATTTTTCAAAGAACATTACCAAACTTGAAAACCATTTCAAAG
A
Found at i:5040411 original size:37 final size:37
Alignment explanation
Indices: 5040350--5040468 Score: 156
Period size: 35 Copynumber: 3.3 Consensus size: 37
5040340 TCCCATTATC
* *
5040350 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACT
*
5040386 ATTTTTCAAAGAAACATTTATCAAACTTTG-AAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACT
* *
5040422 A-TTTTCAAATAAACATTTACCAAACTTTGAAAATC-
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACT
5040457 ATTTTTTCAAAG
1 A-TTTTTCAAAG
5040469 TTGGTTACCA
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
35 27 0.38
36 18 0.25
37 27 0.38
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (37 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACT
Found at i:5048124 original size:53 final size:51
Alignment explanation
Indices: 5048016--5048125 Score: 125
Period size: 53 Copynumber: 2.1 Consensus size: 51
5048006 ACATTTGATG
* *** *
5048016 TTTTATTATTTTTATTAGGAATTTAGTTTGTATAGAATTTTTATTTAGGAT
1 TTTTAATATTTTTATTAGGAATTTAGTTTGTATAGAATTAAGATTTAGAAT
5048067 TTTTAATATTTATTAATTAGGAATTTAGTTTGT-TAGAATTAAGAGTTT-GAAT
1 TTTTAATATTT-TT-ATTAGGAATTTAGTTTGTATAGAATTAAGA-TTTAGAAT
5048119 ATTTTAA
1 -TTTTAA
5048126 AAGTTAGTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
51 10 0.20
52 13 0.26
53 27 0.54
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.55
Consensus pattern (51 bp):
TTTTAATATTTTTATTAGGAATTTAGTTTGTATAGAATTAAGATTTAGAAT
Found at i:5050519 original size:140 final size:139
Alignment explanation
Indices: 5050263--5050529 Score: 471
Period size: 140 Copynumber: 1.9 Consensus size: 139
5050253 CAATTACAAT
*
5050263 GCTTATCAATGTTAAATGGTTGAGAGTTATCTTTTTGAACATATAATACATTGTACTTACACCAG
1 GCTTATCAATGTTAAATGGTTGAGAGTTATCTTTTTAAACATATAATACATTGTACTTACACCAG
*
5050328 ATTAATCACATGATAATAATAATTTCATTTTCCAATAAAAACATTTTAGCAAAATGTCTTACTTT
66 ATTAATCACATGATAATAATAATTTCATTCTCCAATAAAAACATTTTAGCAAAATGTCTTACTTT
5050393 TTATTTTTC
131 TTATTTTTC
* * *
5050402 GCTTGTCAATGTTAAATGGTTGAGAGTTATCTTTTTTAAACATATATTACCTTGTACTTACACCA
1 GCTTATCAATGTTAAATGGTTGAGAGTTATC-TTTTTAAACATATAATACATTGTACTTACACCA
*
5050467 GATTAATCACCTGATAATAATAATTTCATTCTCCAATAAAAACATTTTAGCAAAATGTCTTAC
65 GATTAATCACATGATAATAATAATTTCATTCTCCAATAAAAACATTTTAGCAAAATGTCTTAC
5050530 AAAGATTTCT
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
139 30 0.25
140 91 0.75
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (139 bp):
GCTTATCAATGTTAAATGGTTGAGAGTTATCTTTTTAAACATATAATACATTGTACTTACACCAG
ATTAATCACATGATAATAATAATTTCATTCTCCAATAAAAACATTTTAGCAAAATGTCTTACTTT
TTATTTTTC
Found at i:5057586 original size:28 final size:28
Alignment explanation
Indices: 5057529--5057583 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
5057519 TCATCTTCTA
* * * *
5057529 AAATTTTATAAATTTAAATTTACTCCTT
1 AAATTTTAAAAAATCAAATTCACTCCTT
5057557 AAATTTTAAAAAATCAAATTCA-TCCTT
1 AAATTTTAAAAAATCAAATTCACTCCTT
5057584 TAATATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATTTTAAAAAATCAAATTCACTCCTT
Found at i:5068390 original size:34 final size:32
Alignment explanation
Indices: 5068310--5068398 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 32
5068300 TTAGTATTTT
* * *
5068310 TTTAAATAGTTATTATTTTTTATATTAATATA
1 TTTATATAATTATTATTTTTTATATAAATATA
* *
5068342 TTTATGTAAATATTATTTTATTAT-TAAAATAATA
1 TTTATATAATTATTATTTT-TTATAT-AAAT-ATA
5068376 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTT-TTTA
5068399 GAATTATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 16 0.35
33 7 0.15
34 22 0.48
35 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (32 bp):
TTTATATAATTATTATTTTTTATATAAATATA
Found at i:5070148 original size:21 final size:21
Alignment explanation
Indices: 5070118--5070165 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
5070108 GCAGGGGTAC
* *
5070118 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
5070139 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
5070160 ATGCCA
1 ATGCCA
5070166 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:5070195 original size:21 final size:21
Alignment explanation
Indices: 5070169--5070262 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
5070159 TATGCCATCT
* *
5070169 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
5070190 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
5070211 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
5070232 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
5070253 CCGCAGGGTT
1 CCGCAGGGTT
5070263 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:5070844 original size:33 final size:34
Alignment explanation
Indices: 5070785--5070881 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
5070775 AAATGTTTTT
*
5070785 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
5070819 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
5070852 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
5070882 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:5070888 original size:34 final size:33
Alignment explanation
Indices: 5070783--5070888 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
5070773 ATAAATGTTT
*
5070783 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
5070817 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
5070849 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
5070884 TTAAA
1 TTAAA
5070889 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:5071493 original size:126 final size:126
Alignment explanation
Indices: 5071268--5071872 Score: 1156
Period size: 126 Copynumber: 4.8 Consensus size: 126
5071258 TTTAAGTTAT
*
5071268 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
* * *
5071333 GCGTCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTAATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAGTAGGTACTGATATATCTAGTG
5071394 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
5071459 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAGTAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAGTAGGTACTGATATATCTAGTG
5071520 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
5071585 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAGTAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAGTAGGTACTGATATATCTAGTG
5071646 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
* *
5071711 GTGCCCCCGGGAACACGCCTTCACGTGAATAGTGAAATAGTAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAGTAGGTACTGATATATCTAGTG
5071772 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
5071837 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
5071873 CCGATTATAG
Statistics
Matches: 471, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 471 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (126 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAGTAGGTACTGATATATCTAGTG
Found at i:5071953 original size:8 final size:8
Alignment explanation
Indices: 5071940--5071980 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
5071930 TCACAATCTT
5071940 TCAAATTC
1 TCAAATTC
5071948 TCAAATTC
1 TCAAATTC
* *
5071956 CCAAACTC
1 TCAAATTC
5071964 T-AAATTC
1 TCAAATTC
5071971 TCAAATTC
1 TCAAATTC
5071979 TC
1 TC
5071981 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:5075007 original size:12 final size:13
Alignment explanation
Indices: 5074974--5075011 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
5074964 AAATACATAA
5074974 ATATATTTAATAT
1 ATATATTTAATAT
*
5074987 ATTTATTTAATAT
1 ATATATTTAATAT
5075000 A-ATATTTAATAT
1 ATATATTTAATAT
5075012 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:5075063 original size:23 final size:23
Alignment explanation
Indices: 5075025--5075082 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
5075015 TAGTTATAAT
5075025 TTTTACAT--TATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
5075046 TTTTACATAATATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
5075069 TTTTACATAATATA
1 TTTTACATAATATA
5075083 TTATTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.23
23 27 0.77
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (23 bp):
TTTTACATAATATAATCGAAACA
Found at i:5078104 original size:12 final size:12
Alignment explanation
Indices: 5078087--5078111 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5078077 ACAAAGCACC
5078087 ATTTGGTGCCTA
1 ATTTGGTGCCTA
5078099 ATTTGGTGCCTA
1 ATTTGGTGCCTA
5078111 A
1 A
5078112 ATTATTTGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTTGGTGCCTA
Found at i:5082629 original size:12 final size:12
Alignment explanation
Indices: 5082612--5082636 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5082602 ACAAAGCACC
5082612 ATTTGGTGCCTA
1 ATTTGGTGCCTA
5082624 ATTTGGTGCCTA
1 ATTTGGTGCCTA
5082636 A
1 A
5082637 ATTATTTGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTTGGTGCCTA
Found at i:5090560 original size:22 final size:21
Alignment explanation
Indices: 5090534--5090582 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
5090524 ATACATTCTA
*
5090534 TCAATTTAATCATAATTTTA-AT
1 TCAATTTAAT-A-AATTTAATAT
5090556 TCAATTTAATAAATTTAATAT
1 TCAATTTAATAAATTTAATAT
5090577 TCAATT
1 TCAATT
5090583 AGGTGGTGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 6 0.24
21 9 0.36
22 10 0.40
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (21 bp):
TCAATTTAATAAATTTAATAT
Found at i:5091157 original size:17 final size:17
Alignment explanation
Indices: 5091137--5091187 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
5091127 ATTCTATATA
5091137 AAAAATAAATATAGCTT
1 AAAAATAAATATAGCTT
5091154 AAAAAT--ATA-A----
1 AAAAATAAATATAGCTT
5091164 AAAAATAAATATAGCTT
1 AAAAATAAATATAGCTT
5091181 AAAAATA
1 AAAAATA
5091188 TAAAAAATCG
Statistics
Matches: 27, Mismatches: 0, Indels: 14
0.66 0.00 0.34
Matches are distributed among these distances:
10 6 0.22
12 3 0.11
13 1 0.04
14 1 0.04
15 3 0.11
17 13 0.48
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (17 bp):
AAAAATAAATATAGCTT
Found at i:5091161 original size:26 final size:26
Alignment explanation
Indices: 5091132--5091195 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 26
5091122 AAATGATTCT
5091132 ATATAAAAAATAAATATAGCTTAAAA
1 ATATAAAAAATAAATATAGCTTAAAA
5091158 ATATAAAAAAATAAATATAGCTTAAAA
1 ATAT-AAAAAATAAATATAGCTTAAAA
5091185 ATATAAAAAAT
1 ATATAAAAAAT
5091196 CGAAATTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 11 0.30
27 26 0.70
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (26 bp):
ATATAAAAAATAAATATAGCTTAAAA
Found at i:5112342 original size:39 final size:38
Alignment explanation
Indices: 5112299--5112397 Score: 112
Period size: 39 Copynumber: 2.6 Consensus size: 38
5112289 TTTAAAAGAT
5112299 AATTTAAAATATTAATGTAAAATAATTTAAGGAATTAGG
1 AATTTAAAATATTAATGTAAAATAATTTAA-GAATTAGG
* * * * *
5112338 AATTTAAAATGTTAAAGTGAAATAATTTGAGAATTATG
1 AATTTAAAATATTAATGTAAAATAATTTAAGAATTAGG
*
5112376 AA--TAAAATATTTAATATAAAAT
1 AATTTAAAATA-TTAATGTAAAAT
5112398 GAAAATGAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
36 6 0.12
37 9 0.18
38 9 0.18
39 26 0.52
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (38 bp):
AATTTAAAATATTAATGTAAAATAATTTAAGAATTAGG
Found at i:5113304 original size:114 final size:114
Alignment explanation
Indices: 5113104--5113330 Score: 400
Period size: 114 Copynumber: 2.0 Consensus size: 114
5113094 AAAGCTGTAA
* *
5113104 TTAGTAGCTAGTGGATGATCTGGTGCAAGGATAAGCAGGGTTGACGGAGTTAATGTTAGTTTGTT
1 TTAGTAGCTAGTGGATGATCTGATGCAAGGATAAGCAGGGTTGACGGAGTTAACGTTAGTTTGTT
5113169 TACAACTTCAAATATACGAGTATAGGTTGATTAGCACATGATGTAGCAC
66 TACAACTTCAAATATACGAGTATAGGTTGATTAGCACATGATGTAGCAC
* *
5113218 TTAGTAGCTAGTGGATGATTTGATGTAAGGATAAGCAGGGTTGACGGAGTTAACGTTAGTTTGTT
1 TTAGTAGCTAGTGGATGATCTGATGCAAGGATAAGCAGGGTTGACGGAGTTAACGTTAGTTTGTT
* *
5113283 TACAACTTCAAATATACGAGTATAGGTTGATTAGCGCATGCTGTAGCA
66 TACAACTTCAAATATACGAGTATAGGTTGATTAGCACATGATGTAGCA
5113331 ATTATGTTCT
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 107 1.00
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (114 bp):
TTAGTAGCTAGTGGATGATCTGATGCAAGGATAAGCAGGGTTGACGGAGTTAACGTTAGTTTGTT
TACAACTTCAAATATACGAGTATAGGTTGATTAGCACATGATGTAGCAC
Found at i:5119731 original size:11 final size:9
Alignment explanation
Indices: 5119667--5119722 Score: 53
Period size: 9 Copynumber: 5.9 Consensus size: 9
5119657 TAAATTTCCA
5119667 AATATATTAT
1 AATATATT-T
5119677 AATTATAATTAT
1 AA-TAT-ATT-T
5119689 AATAT-TATT
1 AATATAT-TT
5119698 AAT-TATTT
1 AATATATTT
5119706 AATATATTT
1 AATATATTT
5119715 AATATATT
1 AATATATT
5119723 ATACATATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
8 6 0.15
9 19 0.46
10 3 0.07
11 6 0.15
12 7 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
AATATATTT
Found at i:5119795 original size:24 final size:23
Alignment explanation
Indices: 5119750--5119797 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
5119740 TTATTTCAAA
5119750 ATTTACAAAAATATATTATAATT
1 ATTTACAAAAATATATTATAATT
* * *
5119773 ATTTATAAAATATCTATTTTAATT
1 ATTTACAAAA-ATATATTATAATT
5119797 A
1 A
5119798 CTATATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTACAAAAATATATTATAATT
Found at i:5119818 original size:16 final size:16
Alignment explanation
Indices: 5119763--5119885 Score: 99
Period size: 16 Copynumber: 7.6 Consensus size: 16
5119753 TACAAAAATA
*
5119763 TATTATAATTATTTA-
1 TATTATATTTATTTAT
** *
5119778 TAAAATATCTATTTTAAT
1 TATTATATTTA-TTT-AT
*
5119796 TACTATATTTATTTAT
1 TATTATATTTATTTAT
*
5119812 TATTATATTTAATTATT
1 TATTATATTTATTTA-T
* *
5119829 TATTATATTTAATAAT
1 TATTATATTTATTTAT
* *
5119845 TAATAT-TATTAATTAT
1 TATTATAT-TTATTTAT
5119861 TATTATATTTATTTAT
1 TATTATATTTATTTAT
5119877 TATTA-ATTT
1 TATTATATTT
5119886 TAATTTGAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
15 12 0.14
16 48 0.55
17 20 0.23
18 8 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTATATTTATTTAT
Found at i:5119887 original size:16 final size:16
Alignment explanation
Indices: 5119801--5119887 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 16
5119791 TTAATTACTA
*
5119801 TATTTATTTATT-ATTA
1 TATTTA-TTATTAATTT
* *
5119817 TATTTAATTATTTATTA
1 TATTT-ATTATTAATTT
* *
5119834 TATTTAATAATTAATAT
1 TATTT-ATTATTAATTT
*
5119851 TATTAATTATTATTATATT
1 TATTTATTATTA--AT-TT
5119870 TATTTATTATTAATTT
1 TATTTATTATTAATTT
5119886 TA
1 TA
5119888 ATTTGAAACA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
16 20 0.34
17 24 0.41
18 2 0.03
19 12 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTATTATTAATTT
Found at i:5121941 original size:14 final size:14
Alignment explanation
Indices: 5121922--5121949 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5121912 GTCACCTTTC
5121922 ATTTTTCCAATTAT
1 ATTTTTCCAATTAT
5121936 ATTTTTCCAATTAT
1 ATTTTTCCAATTAT
5121950 TGTGTTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTTCCAATTAT
Found at i:5123799 original size:29 final size:29
Alignment explanation
Indices: 5123767--5123838 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
5123757 TCGTCGGGCA
* **
5123767 TGCATGGCGACCTCCTTGGTCGCCCGGAG
1 TGCATGGCGACCTACGAGGTCGCCCGGAG
* **
5123796 TGCATGGCGACCTAGGAGGTCGCTGGGAG
1 TGCATGGCGACCTACGAGGTCGCCCGGAG
5123825 TGCATGGCGACCTA
1 TGCATGGCGACCTA
5123839 TGGGTTGGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.15, C:0.28, G:0.38, T:0.19
Consensus pattern (29 bp):
TGCATGGCGACCTACGAGGTCGCCCGGAG
Found at i:5131898 original size:43 final size:44
Alignment explanation
Indices: 5131827--5132198 Score: 386
Period size: 43 Copynumber: 8.6 Consensus size: 44
5131817 TGAGAACCAA
* * * *
5131827 AAACGCCGCTATAGTTCAAGATCTATAGCGGCGTTTTTGGA-AC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* * * *
5131870 AAACGTCGCAAAAGGTCGATATATATAGCGGCGTTTTTAGA-AC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* * *
5131913 AAACGCCGCAAAAAGGTCAAGATCTCTAGCGGCGTTTATGGA-AC
1 AAACGCCGC-AAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* *
5131957 AAATGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGTA-AC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* * * * *
5132000 AAACGTCGCAAAAGGT-TAGATATTTAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* * * * *
5132043 AAATGCTGCAAAAGGAC-CGATCTATAGTGGCGTTTTTGGACAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* * * *
5132086 AAACGCCGCAAAAGGT-TAGATATTTAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
*
5132129 AAAACGCTGCAAAA-GTACG-GATCTATAGCGGCGTTTTTGGACAC
1 -AAACGCCGCAAAAGGT-CGAGATCTATAGCGGCGTTTTTGGACAC
*
5132173 AAACGCCGCAAAAAGTC-AGATCTATA
1 AAACGCCGCAAAAGGTCGAGATCTATA
5132199 ATTACCATTC
Statistics
Matches: 271, Mismatches: 49, Indels: 18
0.80 0.14 0.05
Matches are distributed among these distances:
42 20 0.07
43 179 0.66
44 72 0.27
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
Found at i:5131943 original size:87 final size:87
Alignment explanation
Indices: 5131827--5132195 Score: 423
Period size: 87 Copynumber: 4.3 Consensus size: 87
5131817 TGAGAACCAA
* * * * *
5131827 AAACGCCGCTATAGTTCAAGATCTATAGCGGCGTTTTTGGA-ACAAACG-TCGCAAAAGGTCGAT
1 AAACGCCGCAAAAGGTCAAGATCTTTAGCGGCGTTTTTGGATACAAACGCT-GCAAAAGGTCG-G
* *
5131890 ATATATAGCGGCGTTTTTAGA-AC
64 ATCTATAGCGGCGTTTTTGGACAC
* * * *
5131913 AAACGCCGCAAAAAGGTCAAGATCTCTAGCGGCGTTTATGGA-ACAAATGCCGCAAAAGGTCGAG
1 AAACGCCGC-AAAAGGTCAAGATCTTTAGCGGCGTTTTTGGATACAAACGCTGCAAAAGGTCG-G
*
5131977 ATCTATAGCGGCGTTTTTGTA-AC
64 ATCTATAGCGGCGTTTTTGGACAC
* * * * * *
5132000 AAACGTCGCAAAAGGT-TAGATATTTAGCGGCGTTTTTGGATACAAATGCTGCAAAAGGACCGAT
1 AAACGCCGCAAAAGGTCAAGATCTTTAGCGGCGTTTTTGGATACAAACGCTGCAAAAGGTCGGAT
*
5132064 CTATAGTGGCGTTTTTGGACAC
66 CTATAGCGGCGTTTTTGGACAC
* *
5132086 AAACGCCGCAAAAGGT-TAGATATTTAGCGGCGTTTTTGGATACAAAACGCTGCAAAA-GTACGG
1 AAACGCCGCAAAAGGTCAAGATCTTTAGCGGCGTTTTTGGATAC-AAACGCTGCAAAAGGT-CGG
5132149 ATCTATAGCGGCGTTTTTGGACAC
64 ATCTATAGCGGCGTTTTTGGACAC
*
5132173 AAACGCCGCAAAAAGTC-AGATCT
1 AAACGCCGCAAAAGGTCAAGATCT
5132196 ATAATTACCA
Statistics
Matches: 248, Mismatches: 28, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
85 40 0.16
86 78 0.31
87 130 0.52
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (87 bp):
AAACGCCGCAAAAGGTCAAGATCTTTAGCGGCGTTTTTGGATACAAACGCTGCAAAAGGTCGGAT
CTATAGCGGCGTTTTTGGACAC
Found at i:5131991 original size:130 final size:129
Alignment explanation
Indices: 5131845--5132198 Score: 427
Period size: 130 Copynumber: 2.7 Consensus size: 129
5131835 CTATAGTTCA
*
5131845 AGATCTATAGCGGCGTTTTTGGAACAAACGTCGCAAAAGGTCGATATATATAGCGGCGTTTTTAG
1 AGATCTATAGCGGCGTTTTTGGAACAAACGTCGCAAAAGGTCGATAT-TATAGCGGCGTTTTTGG
* *
5131910 A-ACAAACGCCGCAAAAAGGTCAAGATCTCTAGCGGCGTTTATGGA-ACAAATGCCGCAAAAGGT
65 ACACAAACGCCGCAAAAAGGTC-AGATCTATAGCGGCGTTTATGGACACAAACGCCGCAAAAGGT
5131973 CG
129 -G
* *
5131975 AGATCTATAGCGGCGTTTTTGTAACAAACGTCGCAAAAGGTTAGATATT-TAGCGGCGTTTTTGG
1 AGATCTATAGCGGCGTTTTTGGAACAAACGTCGCAAAAGG-TCGATATTATAGCGGCGTTTTTGG
* * * * * * * *
5132039 ATACAAATGCTGC-AAAAGGACCGATCTATAGTGGCGTTTTTGGACACAAACGCCGCAAAAGGTT
65 ACACAAACGCCGCAAAAAGGTCAGATCTATAGCGGCGTTTATGGACACAAACGCCGCAAAAGGTG
* * *
5132103 AGATATTTAGCGGCGTTTTTGGATACAAAACG-CTGCAAAA-GTACGGAT-CTATAGCGGCGTTT
1 AGATCTATAGCGGCGTTTTTGGA-AC-AAACGTC-GCAAAAGGT-C-GATATTATAGCGGCGTTT
5132165 TTGGACACAAACGCCGCAAAAA-GTCAGATCTATA
61 TTGGACACAAACGCCGCAAAAAGGTCAGATCTATA
5132199 ATTACCATTC
Statistics
Matches: 192, Mismatches: 22, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
128 40 0.21
129 44 0.23
130 98 0.51
131 10 0.05
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (129 bp):
AGATCTATAGCGGCGTTTTTGGAACAAACGTCGCAAAAGGTCGATATTATAGCGGCGTTTTTGGA
CACAAACGCCGCAAAAAGGTCAGATCTATAGCGGCGTTTATGGACACAAACGCCGCAAAAGGTG
Found at i:5133075 original size:26 final size:26
Alignment explanation
Indices: 5133046--5133099 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
5133036 TAAAATAATT
5133046 AATGATTAAAATCACAAAATGCAGGG
1 AATGATTAAAATCACAAAATGCAGGG
5133072 AATGATTAAAATCACAAAATGCAGGG
1 AATGATTAAAATCACAAAATGCAGGG
5133098 AA
1 AA
5133100 ACAAGATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.19
Consensus pattern (26 bp):
AATGATTAAAATCACAAAATGCAGGG
Found at i:5134123 original size:21 final size:21
Alignment explanation
Indices: 5134097--5134140 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
5134087 ATCTTAAATC
5134097 CTACCTCGGTTTTTGAACTTT
1 CTACCTCGGTTTTTGAACTTT
5134118 CTACCTCGGTTTTTGAACTTT
1 CTACCTCGGTTTTTGAACTTT
5134139 CT
1 CT
5134141 TGGGTATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.25, G:0.14, T:0.48
Consensus pattern (21 bp):
CTACCTCGGTTTTTGAACTTT
Found at i:5134905 original size:41 final size:41
Alignment explanation
Indices: 5134860--5135404 Score: 449
Period size: 41 Copynumber: 13.3 Consensus size: 41
5134850 TTAGCCGCAG
* *
5134860 AAACGCCACTAAAGTACGGGTCTTTGGCAGCGTTTGCATAA
1 AAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTATAA
5134901 AAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTATAA
*
5134942 AAACGCCACTAAAGTACAGGTCTTTGGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTATAA
* * *
5134983 AAACGTCGCTAAAGTACGAGTCTTTGGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTATAA
* * * *
5135024 AAACGTCGCTAAAGTACGAGTCTTTGGCGGCGTTTTTATAA
1 AAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTATAA
* * *
5135065 AAACGCCACTAAAGTACGTG-CATTTAGCGGCGTTTGTATAG
1 AAACGCCACTAAAGTACGGGTC-TTTGGCGGCGTTTGTATAA
** ** * * *
5135106 AAACGCCACTAAAGTACTAGAATTTAGCGGCGTTTGTGCTTA
1 AAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGT-ATAA
* ** * * * *
5135148 AAATGCCACTAAAGTA-TAGTATTTAGCGGCGTTTATACAA
1 AAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTATAA
* * * *
5135188 AAACGCCACTAAAGTACGAG-CATTTAGCGGCGTTTGTGCTTA
1 AAACGCCACTAAAGTACGGGTC-TTTGGCGGCGTTTGT-ATAA
* ** * * * *
5135230 AAACGTCACTATAA-TAC-ATTATTTAGCGGCGTTTATATAG
1 AAACGCCACTA-AAGTACGGGTCTTTGGCGGCGTTTGTATAA
* * * *
5135270 AAACGCCACTAAAGTACGAG-CATTTAGCGGCGTTTGTGCTTA
1 AAACGCCACTAAAGTACGGGTC-TTTGGCGGCGTTTGT-ATAA
** ** * * * **
5135312 AAACGCCACTATTGTAC-ATTATTTAGCGGCGTTTATACGA
1 AAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTATAA
* *** * * *
5135352 AAACGCCACTAAAGTAC-AGTAGGTAGCGGCGTTTATATAC
1 AAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTATAA
5135392 AAACGCCACTAAA
1 AAACGCCACTAAA
5135405 ACACAAGTAT
Statistics
Matches: 428, Mismatches: 63, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.00
40 77 0.18
41 301 0.70
42 46 0.11
43 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGGGTCTTTGGCGGCGTTTGTATAA
Found at i:5135079 original size:123 final size:123
Alignment explanation
Indices: 5134860--5135446 Score: 537
Period size: 123 Copynumber: 4.8 Consensus size: 123
5134850 TTAGCCGCAG
* * * * * * *
5134860 AAACGCCACTAAAGTACGGGTCTTTGGCAGCGTTTGCATAAAAACGCCACTAAAGTACGGGTCTT
1 AAACGTCACTAAAGTACGAGTATTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
* * *
5134925 TGGCGGCGTTTGTATAAAAACGCCACTAAAGTACAGGTC-TTTGGCGGCGTTTGTATAA
66 TAGCGGCGTTTTTATAAAAACGCCACTAAAGTAC-GGTCATTTAGCGGCGTTTGTATAA
* * * * *
5134983 AAACGTCGCTAAAGTACGAGTCTTTGGCGGCGTTTGTATAAAAACGTCGCTAAAGTACGAGTCTT
1 AAACGTCACTAAAGTACGAGTATTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
* *
5135048 TGGCGGCGTTTTTATAAAAACGCCACTAAAGTAC-GTGCATTTAGCGGCGTTTGTATAG
66 TAGCGGCGTTTTTATAAAAACGCCACTAAAGTACGGT-CATTTAGCGGCGTTTGTATAA
* * * * * * * *
5135106 AAACGCCACTAAAGTACTAGAATTTAGCGGCGTTTGTGCTTAAAATGCCACTAAAGTA-TAGTAT
1 AAACGTCACTAAAGTACGAGTATTTAGCGGCGTTTGT-ATAAAAACGCCACTAAAGTACGAGTCT
* * * *
5135170 TTAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAG-CATTTAGCGGCGTTTGTGCTTA
65 TTAGCGGCGTTTTTATAAAAACGCCACTAAAGTACG-GTCATTTAGCGGCGTTTGT-ATAA
* * *
5135230 AAACGTCACTATAA-TAC-ATTATTTAGCGGCGTTTATATAGAAACGCCACTAAAGTACGAG-CA
1 AAACGTCACTA-AAGTACGAGTATTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTC-
** * ** * * * **
5135292 TTTAGCGGCGTTTGTGCTTAAAACGCCACTATTGTAC-ATTATTTAGCGGCGTTTATACGA
64 TTTAGCGGCGTTT-TTATAAAAACGCCACTAAAGTACGGTCATTTAGCGGCGTTTGTATAA
* ** * * ** * *
5135352 AAACGCCACTAAAGTAC-AGTAGGTAGCGGCGTTTATATACAAACGCCACTAAAACACAAGTATT
1 AAACGTCACTAAAGTACGAGTATTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
* *
5135416 TACCGGCGTTTGTTCA-AAAAACGCCGCTAAA
66 TAGCGGCGTTT-TT-ATAAAAACGCCACTAAA
5135447 AGTGCCGCTA
Statistics
Matches: 381, Mismatches: 69, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
121 4 0.01
122 92 0.24
123 237 0.62
124 45 0.12
125 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (123 bp):
AAACGTCACTAAAGTACGAGTATTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
TAGCGGCGTTTTTATAAAAACGCCACTAAAGTACGGTCATTTAGCGGCGTTTGTATAA
Found at i:5135307 original size:164 final size:163
Alignment explanation
Indices: 5134860--5135428 Score: 582
Period size: 164 Copynumber: 3.5 Consensus size: 163
5134850 TTAGCCGCAG
* * * **
5134860 AAACGCCACTAAAGTACGGGTC-TTTGGCAGCG-TTTGCATAAAAACGCCACTAAAGTACGGGTC
1 AAACGCCACTAAAGTACGAG-CATTTAGCGGCGTTTTG-ATAAAAACGCCACTAAAGTACATG-C
* * * * *
5134923 -TTTGGCGGCGTTTGTATAAAAACGCCACTAAAGTACAGGTC-TTTGGCGGCGTTTGT-ATAAAA
63 ATTTAGCGGCGTTTGTATAGAAACGCCACTAAAGTACA-G-CATTTAGCGGCGTTTGTGCTTAAA
* * * * * *
5134985 ACGTCGCTAAAGTACGAGTCTTTGGCGGCGTTTGTATAA
126 ACGCCACTAAAGTAC-AGTATTTAGCGGCGTTTATACAA
* * * * *
5135024 AAACGTCGCTAAAGTACGAGTC-TTTGGCGGCGTTTTTATAAAAACGCCACTAAAGTACGTGCAT
1 AAACGCCACTAAAGTACGAG-CATTTAGCGGCGTTTTGATAAAAACGCCACTAAAGTACATGCAT
* *
5135088 TTAGCGGCGTTTGTATAGAAACGCCACTAAAGTACTAGAATTTAGCGGCGTTTGTGCTTAAAATG
65 TTAGCGGCGTTTGTATAGAAACGCCACTAAAGTAC-AGCATTTAGCGGCGTTTGTGCTTAAAACG
*
5135153 CCACTAAAGTATAGTATTTAGCGGCGTTTATACAA
129 CCACTAAAGTACAGTATTTAGCGGCGTTTATACAA
* * * *
5135188 AAACGCCACTAAAGTACGAGCATTTAGCGGCGTTTGTGCTTAAAACGTCACTATAA-TACAT-TA
1 AAACGCCACTAAAGTACGAGCATTTAGCGGCGTTT-TGATAAAAACGCCACTA-AAGTACATGCA
*
5135251 TTTAGCGGCGTTTATATAGAAACGCCACTAAAGTACGAGCATTTAGCGGCGTTTGTGCTTAAAAC
64 TTTAGCGGCGTTTGTATAGAAACGCCACTAAAGTAC-AGCATTTAGCGGCGTTTGTGCTTAAAAC
** * *
5135316 GCCACTATTGTACATTATTTAGCGGCGTTTATACGA
128 GCCACTAAAGTACAGTATTTAGCGGCGTTTATACAA
* ** * ** * *
5135352 AAACGCCACTAAAGTAC-AGTAGGTAGCGGCGTTTAT-ATACAAACGCCACTAAAACACAAGTAT
1 AAACGCCACTAAAGTACGAGCATTTAGCGGCGTTT-TGATAAAAACGCCACTAAAGTACATGCAT
*
5135415 TTACCGGCGTTTGT
65 TTAGCGGCGTTTGT
5135429 TCAAAAAACG
Statistics
Matches: 345, Mismatches: 50, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
161 2 0.01
162 14 0.04
163 32 0.09
164 259 0.75
165 36 0.10
166 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (163 bp):
AAACGCCACTAAAGTACGAGCATTTAGCGGCGTTTTGATAAAAACGCCACTAAAGTACATGCATT
TAGCGGCGTTTGTATAGAAACGCCACTAAAGTACAGCATTTAGCGGCGTTTGTGCTTAAAACGCC
ACTAAAGTACAGTATTTAGCGGCGTTTATACAA
Found at i:5143844 original size:24 final size:23
Alignment explanation
Indices: 5143817--5143862 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
5143807 GTTATTTAAA
5143817 CGGGTATTGGGCCGAGTATTGGGT
1 CGGGTATTGGGCCG-GTATTGGGT
*
5143841 CGGGTATTGGGTCGGTATTGGG
1 CGGGTATTGGGCCGGTATTGGG
5143863 CTGGGAATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.11, C:0.11, G:0.48, T:0.30
Consensus pattern (23 bp):
CGGGTATTGGGCCGGTATTGGGT
Found at i:5143859 original size:11 final size:11
Alignment explanation
Indices: 5143819--5143862 Score: 61
Period size: 12 Copynumber: 3.8 Consensus size: 11
5143809 TATTTAAACG
*
5143819 GGTATTGGGCC
1 GGTATTGGGTC
5143830 GAGTATTGGGTC
1 G-GTATTGGGTC
5143842 GGGTATTGGGTC
1 -GGTATTGGGTC
5143854 GGTATTGGG
1 GGTATTGGG
5143863 CTGGGAATCG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 10 0.33
12 19 0.63
13 1 0.03
ACGTcount: A:0.11, C:0.09, G:0.48, T:0.32
Consensus pattern (11 bp):
GGTATTGGGTC
Found at i:5143938 original size:24 final size:25
Alignment explanation
Indices: 5143882--5143970 Score: 69
Period size: 24 Copynumber: 3.6 Consensus size: 25
5143872 GGGCCGGGTA
5143882 TATATATATTTAAATTAAATATATAT
1 TATAT-TATTTAAATTAAATATATAT
*
5143908 T-TTTTATTTAAATTAAAT-T-TAT
1 TATATTATTTAAATTAAATATATAT
* * *
5143930 TAATATTATATATA-TATATATATAT
1 T-ATATTATTTAAATTAAATATATAT
*
5143955 ATATATATATATAAAT
1 -TATAT-TATTTAAAT
5143971 AATTATTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
22 4 0.08
23 5 0.10
24 23 0.46
25 9 0.18
26 9 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TATATTATTTAAATTAAATATATAT
Found at i:5143943 original size:2 final size:2
Alignment explanation
Indices: 5143932--5143967 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
5143922 AAATTTATTA
5143932 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5143968 AATAATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5150432 original size:23 final size:23
Alignment explanation
Indices: 5150402--5150451 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
5150392 ATACTTTACA
*
5150402 ATATAAGCGCAACCTATTACATT
1 ATATAAGCGCAACCTATTACATC
*
5150425 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCAACCTATTACATC
5150448 ATAT
1 ATAT
5150452 TTTTATCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (23 bp):
ATATAAGCGCAACCTATTACATC
Found at i:5151105 original size:552 final size:539
Alignment explanation
Indices: 5149980--5151074 Score: 1588
Period size: 552 Copynumber: 2.0 Consensus size: 539
5149970 CTTTTCTTTT
* * *
5149980 AAAAAAGGTAACATTTACATGATATATTGAAAGAGTCCATAATTTTTATAAAAAGGATCAATACT
1 AAAAAAGATAAAATTTACCTGATATATTGAAAGAGTCCATAATTTTTATAAAAAGGATCAATACT
5150045 TTTTTTAAAGTTATGTAATTTATGTTTCAATCCTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
66 TTTTTTAAAGTTATGTAATTTATGTTTCAATCCTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
*
5150110 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAGATA
131 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
* *
5150175 TTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATTATACATATGTAATATATATGTTT
196 TTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
*
5150240 ATTGTTTTTAATTTAATAATAATATATATCGTAACATAAAAAATAAATCATTAGATACATATAAT
261 ATTGTTTTTAATTTAATAATAATATATATCGTAACATAAAAAATAAATCATTAGACACATATAAT
*
5150305 TACTAAATTGATATTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAATAAGTATG
326 TACTAAATTGATATTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAATAAGTATG
*
5150370 AACACTTTTATAAAAAGAATAGATACTTTACAATATAAGCGCAACCTATTACATTATATAAGCGC
391 AACACTTTTATAAAAAG---AGA-A--TT--AAGAT------AACCTATTACA-TATATAAGCGC
*
5150435 TACCTATTACATCATATTTTTATCTATTATATTGTACAATATCGATCCTTTTTATAAAAAGGATC
441 TACCTATTACATCATATTTTTATCTATTATATTGTACAATATCGATCATTTTTATAAAAAGGATC
* * * *
5150500 GATACTTTCAACATATTAGGTAATATTATGATAA
506 AATACTTTCAACATATCAGGTAACATTATGAAAA
* * * * *
5150534 AAAAAAGGTAAAATTTACCTGATATGTTGAAAGTGTCCATACTTTTTATAAAAAGGATCCATACT
1 AAAAAAGATAAAATTTACCTGATATATTGAAAGAGTCCATAATTTTTATAAAAAGGATCAATACT
* *
5150599 TTTTTTAAAGTTATGTAATTTATGTTTCAAT-TTTTTTTAATAGTGTTTCATGTTTTCCACCTAT
66 TTTTTTAAAGTTATGTAATTTATGTTTCAATCCTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
5150663 AATATTAATTTAATAATTTCATTTACAC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATA
131 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
5150727 TTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
196 TTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
* *
5150792 ATTGTTTTTAATTTAATAATAATATATA-CTGTAACAT-AAAAATAAATCATTAGACGCGTATAA
261 ATTGTTTTTAATTTAATAATAATATATATC-GTAACATAAAAAATAAATCATTAGACACATATAA
* *
5150855 TTACTAAATTGATATATCTTAAAACTCACTCAAAAGGTAACCTTAAATTAATATTTTTCACAGTG
325 TTACTAAATTG--ATA---T-----TCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTG
*
5150920 AAATAAGTATGGACACTTTTATAAAAAG-G-A-T-AGAT-A-CT-TTACA-ATATAAGCGCTACC
380 AAATAAGTATGAACACTTTTATAAAAAGAGAATTAAGATAACCTATTACATATATAAGCGCTACC
* *
5150977 TATTACATCATATTTTTA-CGTATTATATTGTA-AAGTATCGATCATTTTTATAAAAATGATTAA
445 TATTACATCATATTTTTATC-TATTATATTGTACAA-TATCGATCATTTTTATAAAAAGGATCAA
5151040 TACTTTCAACATATCAGGTAACATTATGAAAA
508 TACTTTCAACATATCAGGTAACATTATGAAAA
5151072 AAA
1 AAA
5151075 TGTAAAATTT
Statistics
Matches: 502, Mismatches: 26, Indels: 42
0.88 0.05 0.07
Matches are distributed among these distances:
537 3 0.01
538 100 0.20
540 5 0.01
541 2 0.00
542 1 0.00
549 3 0.01
551 35 0.07
552 134 0.27
553 62 0.12
554 90 0.18
555 1 0.00
556 1 0.00
557 1 0.00
561 64 0.13
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (539 bp):
AAAAAAGATAAAATTTACCTGATATATTGAAAGAGTCCATAATTTTTATAAAAAGGATCAATACT
TTTTTTAAAGTTATGTAATTTATGTTTCAATCCTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
TTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
ATTGTTTTTAATTTAATAATAATATATATCGTAACATAAAAAATAAATCATTAGACACATATAAT
TACTAAATTGATATTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAATAAGTATG
AACACTTTTATAAAAAGAGAATTAAGATAACCTATTACATATATAAGCGCTACCTATTACATCAT
ATTTTTATCTATTATATTGTACAATATCGATCATTTTTATAAAAAGGATCAATACTTTCAACATA
TCAGGTAACATTATGAAAA
Found at i:5153940 original size:184 final size:184
Alignment explanation
Indices: 5153623--5154336 Score: 1337
Period size: 184 Copynumber: 3.9 Consensus size: 184
5153613 GCGTTACTTA
5153623 AAAGTATG-GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCG
1 AAAGTA-GCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCG
*
5153687 GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
65 GTATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
*
5153752 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTAGACAT
130 TTCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
*
5153807 AAAGTTGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
1 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
5153872 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
66 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
*
5153937 TCAATCG--ACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTATGGACAT
131 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
* *
5153989 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTACACATATTCTCTCATAAAACCGG
1 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
5154054 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
66 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
5154119 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
131 TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
5154173 AAAGTAGCGACACAATATTAAAAAGTG-CGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
1 AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
5154237 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
66 TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
5154302 TCAATCGACACTTTTTGAAAAGGTATCGACACTTT
131 TCAATCGACACTTTTTGAAAAGGTATCGACACTTT
5154337 ATGTTGACAT
Statistics
Matches: 517, Mismatches: 10, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
182 177 0.34
183 136 0.26
184 204 0.39
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (184 bp):
AAAGTAGCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
TATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
TCAATCGACACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACAT
Found at i:5157567 original size:200 final size:200
Alignment explanation
Indices: 5157220--5158205 Score: 1751
Period size: 200 Copynumber: 4.9 Consensus size: 200
5157210 ATATTGAAAT
* *
5157220 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTATCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
5157285 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
**
5157350 GGATCGACACTTTTTATATATGGATCGACACTTTATTATTGCACCCTGTTTGCCATTCATTCTGG
131 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
5157415 ACCAA
196 ACCAA
* * *
5157420 TAGTATCGACACAAAATTAAAAAGTGTTGATACATATATTACACCTATTCTCTCATAAAACCGAT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
*
5157485 ATACTTATACCGGTTATATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
*
5157550 GGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
131 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
5157615 ACCAA
196 ACCAA
*
5157620 TAGTATCGACACAAAATTAAAAAGTGTCGATACATAT-TATATACCTAATCTCTCATAAAACCGG
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATAT-TACACCTAATCTCTCATAAAACCGG
*
5157684 TATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGCTGTTTCT
65 TATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
*
5157749 GGGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTG
130 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTG
5157814 GACCAA
195 GACCAA
* * *
5157820 TAGTATCGACACAAAGTTAAAAAGTGTCGATACATAT-TATATACCTAATCTCTCATAAAAGCGG
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATAT-TACACCTAATCTCTCATAAAACCGG
*
5157884 TATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTTT
65 TATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
* *
5157949 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTTTG
130 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTG
5158014 GACCAA
195 GACCAA
5158020 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
*
5158085 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACTTTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
* *
5158150 GGATCAACACTTTTTATATATGGATCGATACTTTATGGTTGCACCCTGTTTGCCAT
131 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
5158206 ATTGTAAATT
Statistics
Matches: 756, Mismatches: 28, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
199 1 0.00
200 754 1.00
201 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
ACCAA
Found at i:5158463 original size:19 final size:19
Alignment explanation
Indices: 5158435--5158483 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
5158425 TTACATTCAC
5158435 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
* *
5158454 ATATAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
5158473 ATACAAAATTA
1 ATACAAAATTA
5158484 ACCCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:5160311 original size:33 final size:33
Alignment explanation
Indices: 5160274--5160342 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
5160264 CATCTTAAGA
*
5160274 TCACCCCTTAACACCT-TAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCT-ACTTCTTTCACCACT
5160307 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCTACTTCTTTCACCACT
5160340 TCA
1 TCA
5160343 TCTATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.32
Consensus pattern (33 bp):
TCACCCCTCAACACCTCTACTTCTTTCACCACT
Found at i:5160399 original size:21 final size:21
Alignment explanation
Indices: 5160374--5160438 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
5160364 CCCCTTATGC
* *
5160374 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
5160395 CTCTCAAGTTTCTCTTCGACA
1 CTCTCAAGTTTCTCTTCGACT
*
5160416 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
5160437 CT
1 CT
5160439 TTATTGTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.18, C:0.31, G:0.11, T:0.40
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:5162721 original size:20 final size:19
Alignment explanation
Indices: 5162675--5162721 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
5162665 TCCGGTAGCC
*
5162675 TTTTACCGGTTTTATCATT
1 TTTTACCGATTTTATCATT
*
5162694 TTGATACCGATTTTATCATAT
1 TT-TTACCGATTTTATCAT-T
5162715 TTTTACC
1 TTTTACC
5162722 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCGATTTTATCATT
Found at i:5162953 original size:181 final size:182
Alignment explanation
Indices: 5162642--5163114 Score: 714
Period size: 181 Copynumber: 2.6 Consensus size: 182
5162632 CGTGCTTACG
* *
5162642 AAAGTATCGACACTTTCAATATATCCGGTAGCCTTTTACCGGTTTTATCATTTTGATACCGATTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
5162707 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
* *
5162772 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGACCCTTATA-T
131 AGGCGCTAAAACTGCTTATCTTTTAAATTAACAAAGTGTCGACCCTTATATT
* * *
5162823 AAAGTATCTACACTTTCAATATATCCGGTAGCGTTTTACCAGTTTCATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
5162888 TATCATATTTTTATCTGTTATATTGTTGTGGATCGTTACATTTTTTTAAAGTATCGACGCTTTAT
66 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
* * * *
5162953 AGGCGTTAAAATTGCTTATCTTTTAAATTAACGAAGTGTCGATCCTTATATT
131 AGGCGCTAAAACTGCTTATCTTTTAAATTAACAAAGTGTCGACCCTTATATT
* * * * * **
5163005 AAAGTACCGACACTTTAAATATATTCGGTAACGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
5163070 TATTATAGTTTGACCTGTTATATCGTTGTGGATCGATACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTT
5163115 AATTTGACAC
Statistics
Matches: 260, Mismatches: 31, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
181 165 0.63
182 95 0.37
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
AGGCGCTAAAACTGCTTATCTTTTAAATTAACAAAGTGTCGACCCTTATATT
Found at i:5164073 original size:14 final size:14
Alignment explanation
Indices: 5164054--5164100 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
5164044 TGAGACTTGA
*
5164054 GAGAGAGAGAGAGG
1 GAGAGAGAGAAAGG
5164068 GAGAGAGAGAAAGG
1 GAGAGAGAGAAAGG
*
5164082 TAGA-AGAGTAAAGG
1 GAGAGAGAG-AAAGG
5164096 GAGAG
1 GAGAG
5164101 CAGCGGCGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 4 0.14
14 24 0.86
ACGTcount: A:0.47, C:0.00, G:0.49, T:0.04
Consensus pattern (14 bp):
GAGAGAGAGAAAGG
Found at i:5165700 original size:36 final size:36
Alignment explanation
Indices: 5165650--5165725 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
5165640 TTATAGCAAA
*
5165650 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
*
5165686 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGG
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
5165722 AAAA
1 AAAA
5165726 TCCCGAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:5173776 original size:2 final size:2
Alignment explanation
Indices: 5173769--5173793 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5173759 CACCAAAGCG
5173769 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
5173794 CTTCCATGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:5176045 original size:28 final size:27
Alignment explanation
Indices: 5175992--5176049 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
5175982 CCCTTCTTTA
5175992 TTTTTTTAAAACATAAATTATAAATAAT
1 TTTTTTTAAAACATAAATTATAAAT-AT
*
5176020 TTTTTTTGAAAA-AT-AATTAATTAATAT
1 TTTTTTT-AAAACATAAATT-ATAAATAT
5176047 TTT
1 TTT
5176050 AATTTATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 9 0.33
28 14 0.52
29 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TTTTTTTAAAACATAAATTATAAATAT
Found at i:5176122 original size:22 final size:22
Alignment explanation
Indices: 5176096--5176158 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 22
5176086 AATTTGTGAT
5176096 TATAATTAATATATTTTCATCGA
1 TATAATTAATATATTTTCA-CGA
* *
5176119 -ATAAATATAA-ATGTTTT-AGGA
1 TAT-AAT-TAATATATTTTCACGA
5176140 TATAATTAATATATTTTCA
1 TATAATTAATATATTTTCA
5176159 ACAAAGAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
20 3 0.09
21 11 0.34
22 6 0.19
23 9 0.28
24 3 0.09
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (22 bp):
TATAATTAATATATTTTCACGA
Found at i:5183128 original size:31 final size:31
Alignment explanation
Indices: 5183093--5183167 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
5183083 GGCTTAATGC
* *
5183093 TCAAATAAGTGCCCAAACTATGCTCTTTTTG
1 TCAAATAAGTGCCCAAACTATGCCCGTTTTG
5183124 TCAAATAAGTGCCCAAACTATGCCCGTTTTG
1 TCAAATAAGTGCCCAAACTATGCCCGTTTTG
*
5183155 CCAAATAAGTGCC
1 TCAAATAAGTGCC
5183168 TACGTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (31 bp):
TCAAATAAGTGCCCAAACTATGCCCGTTTTG
Found at i:5183318 original size:23 final size:22
Alignment explanation
Indices: 5183284--5183332 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
5183274 TTGTAATTTT
5183284 AAAAAAATTATATAAA-ATTAAA
1 AAAAAAATTATA-AAATATTAAA
*
5183306 AAAATAAATTATAAAATTTTAAA
1 AAAA-AAATTATAAAATATTAAA
5183329 AAAA
1 AAAA
5183333 GAAAACACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAAATTATAAAATATTAAA
Found at i:5183329 original size:21 final size:21
Alignment explanation
Indices: 5183278--5183332 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
5183268 ATAACCTTGT
*
5183278 AATTTTAAAAAAATTATATAA
1 AATTTTAAAAAAAATATATAA
**
5183299 AATTAAAAAAATAAAT-TATAA
1 AATTTTAAAAA-AAATATATAA
5183320 AATTTTAAAAAAA
1 AATTTTAAAAAAA
5183333 GAAAACACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 23 0.82
22 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTTTAAAAAAAATATATAA
Found at i:5187608 original size:20 final size:20
Alignment explanation
Indices: 5187514--5187882 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
5187504 GATTTTCCAT
* ** *
5187514 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
5187534 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
5187554 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5187574 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
5187594 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
5187614 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5187634 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
5187654 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
5187674 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
5187694 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5187714 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
5187734 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5187754 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
5187774 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5187794 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
5187814 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
5187834 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
5187854 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
5187874 AATCACAAC
1 AATCGCAAC
5187883 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:5188595 original size:24 final size:24
Alignment explanation
Indices: 5188556--5188602 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5188546 AAATTTGGTC
5188556 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
5188580 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
5188603 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:5188794 original size:12 final size:12
Alignment explanation
Indices: 5188777--5188801 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5188767 ATATAATCCT
5188777 GAAGAAGAAAAA
1 GAAGAAGAAAAA
5188789 GAAGAAGAAAAA
1 GAAGAAGAAAAA
5188801 G
1 G
5188802 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:5191127 original size:19 final size:19
Alignment explanation
Indices: 5191105--5191411 Score: 358
Period size: 19 Copynumber: 17.4 Consensus size: 19
5191095 CGGAAAATAC
*
5191105 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5191124 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
5191138 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
5191158 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
5191172 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5191191 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5191210 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
5191224 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5191243 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
5191262 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
5191276 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
5191295 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
5191314 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5191333 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5191352 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
5191366 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5191385 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5191404 AATCGCAA
1 AATCGCAA
5191412 CGAGATAATC
Statistics
Matches: 249, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
14 45 0.18
15 4 0.02
16 16 0.06
17 15 0.06
18 5 0.02
19 151 0.61
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:5191220 original size:52 final size:53
Alignment explanation
Indices: 5191133--5191411 Score: 358
Period size: 52 Copynumber: 5.2 Consensus size: 53
5191123 AAATCCCAAC
*
5191133 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
*
5191186 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* * *
5191238 ATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* *
5191290 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
5191347 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
5191399 ATGAAAATCGCAA
1 ATGAAAATCGCAA
5191412 CGAGATAATC
Statistics
Matches: 212, Mismatches: 8, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
51 2 0.01
52 156 0.74
53 18 0.08
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
Found at i:5191256 original size:71 final size:71
Alignment explanation
Indices: 5191172--5191411 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
5191162 GCAACGAGAG
*
5191172 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
5191237 AATGAA
66 AATGAA
* * *
5191243 AATCGCAATGCGAAATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
*
5191303 TACGAAATGAA
61 TGCGAAATGAA
5191314 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
5191379 AATGAA
66 AATGAA
5191385 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
5191412 CGAGATAATC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 8 0.05
68 2 0.01
69 6 0.04
70 2 0.01
71 113 0.75
72 2 0.01
73 7 0.05
74 2 0.01
76 8 0.05
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:5191357 original size:142 final size:137
Alignment explanation
Indices: 5191105--5191443 Score: 497
Period size: 142 Copynumber: 2.4 Consensus size: 137
5191095 CGGAAAATAC
* * * *
5191105 AATCGCAACGCGAAATGAAAATCCCAACATGAA-AATCGCAATGCGGAAATGAAAATCGC-AACG
1 AATCGCAATGCGAAATGAAAAT-CGAAC-CGAATAATCGCAATGC-GAAATTAAAATCGCAAACG
* *
5191168 AGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAAT
63 AGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAAT
5191233 GCGAAATGAA
128 GCGAAATGAA
5191243 AATCGCAATGCGAAATGAAAATCGAACCGACATAATCGCAATGCGAAATTAAAATCGCAATACGA
1 AATCGCAATGCGAAATGAAAATCGAACCGA-ATAATCGCAATGCGAAATTAAAATCGCAA-ACG-
5191308 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
63 -A-GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
5191373 ATGCGAAATGAA
126 ATGCGAAATGAA
5191385 AATCGCAATGCGAAATGAAAATCGCAA-CGAGATAATCGCAATGCGAAATTATAAA-CGCA
1 AATCGCAATGCGAAATGAAAATCG-AACCGA-ATAATCGCAATGCGAAATTA-AAATCGCA
5191444 TTGCGATTTT
Statistics
Matches: 185, Mismatches: 7, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
136 2 0.01
137 18 0.10
138 33 0.18
139 3 0.02
141 1 0.01
142 123 0.66
143 5 0.03
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (137 bp):
AATCGCAATGCGAAATGAAAATCGAACCGAATAATCGCAATGCGAAATTAAAATCGCAAACGAGA
AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCG
AAATGAA
Found at i:5191549 original size:19 final size:19
Alignment explanation
Indices: 5191440--5191541 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
5191430 AAATTATAAA
5191440 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
5191459 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
5191479 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
5191495 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
5191512 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
5191531 CGCATTGCGAT
1 CGCATTGCGAT
5191542 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:5191667 original size:14 final size:14
Alignment explanation
Indices: 5191648--5191684 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
5191638 CATCAATTAC
5191648 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
5191662 ACAAATCATCTTTT
1 ACAAATCAACTTTT
5191676 ACAAATCAA
1 ACAAATCAA
5191685 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:5191696 original size:12 final size:12
Alignment explanation
Indices: 5191679--5191751 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
5191669 ATCTTTTACA
5191679 AATCAATTAAAC
1 AATCAATTAAAC
*
5191691 AATCAA--AAATTG
1 AATCAATTAAA--C
**
5191703 AATCAACTTTTAC
1 AATCAA-TTAAAC
5191716 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
5191729 AATCAA-AAAAC
1 AATCAATTAAAC
5191740 AATCAATTAAAC
1 AATCAATTAAAC
5191752 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:5191713 original size:38 final size:38
Alignment explanation
Indices: 5191665--5191737 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
5191655 AACTTTTACA
*
5191665 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
5191703 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
5191738 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:5193627 original size:14 final size:14
Alignment explanation
Indices: 5193608--5193664 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
5193598 GCGAAATGAA
*
5193608 AATCGCAACGACAG
1 AATCGCAACGAAAG
5193622 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
5193639 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
5193655 AATCGCAACG
1 AATCGCAACG
5193665 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:5193635 original size:33 final size:33
Alignment explanation
Indices: 5193589--5193681 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
5193579 GCGAAACCAA
*
5193589 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
5193622 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
5193655 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
5193682 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:5193646 original size:19 final size:19
Alignment explanation
Indices: 5193552--5193686 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
5193542 TAGTTTACTT
* *
5193552 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
5193572 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
5193591 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
5193610 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
5193624 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
5193643 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
5193657 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
5193676 TCGCAATGCGA
1 TCGCAACGCGA
5193687 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:5193704 original size:19 final size:19
Alignment explanation
Indices: 5193682--5193810 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
5193672 AAAATCGCAA
5193682 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
5193701 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
5193715 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
5193734 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
5193748 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
5193767 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
5193786 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
5193806 TGCGA
1 TGCGA
5193811 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:5193724 original size:33 final size:33
Alignment explanation
Indices: 5193682--5193773 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
5193672 AAAATCGCAA
5193682 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
5193715 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
5193748 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
5193774 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:5194013 original size:93 final size:93
Alignment explanation
Indices: 5193854--5194233 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
5193844 TTGAATGGAT
5193854 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5193919 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5193947 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5194012 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5194040 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5194104 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5194132 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5194197 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5194225 AAATTTACT
1 AAATTTACT
5194234 AAGCAATCTA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:5194167 original size:185 final size:186
Alignment explanation
Indices: 5193854--5194233 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
5193844 TTGAATGGAT
5193854 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5193919 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
5193984 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
5194040 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5194104 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
5194169 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
5194225 AAATTTACT
1 AAATTTACT
5194234 AAGCAATCTA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:5195959 original size:14 final size:14
Alignment explanation
Indices: 5195940--5196029 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
5195930 TTGAAATGAA
5195940 AATCGCAACGAGAG
1 AATCGCAACGAGAG
5195954 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
5195971 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
5195987 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
5196006 AATCGCAACGAGAG
1 AATCGCAACGAGAG
5196020 AATCGCAACG
1 AATCGCAACG
5196030 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:5195977 original size:33 final size:33
Alignment explanation
Indices: 5195932--5196046 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
5195922 TCTTTTGGTT
5195932 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
5195965 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5195998 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5196031 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
5196047 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:5195978 original size:19 final size:18
Alignment explanation
Indices: 5195939--5196051 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
5195929 GTTGAAATGA
5195939 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
5195954 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
5195971 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
5195987 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
5196004 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
5196020 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
5196037 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
5196052 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:5196082 original size:14 final size:14
Alignment explanation
Indices: 5196063--5196117 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
5196053 TTTGGTTTCG
5196063 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
5196077 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
5196096 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
5196110 CGTTGCGA
1 CGTTGCGA
5196118 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:5196280 original size:33 final size:33
Alignment explanation
Indices: 5196238--5196308 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
5196228 AATACTAACT
*
5196238 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
5196271 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
5196304 TGAAA
1 TGAAA
5196309 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:5196542 original size:22 final size:22
Alignment explanation
Indices: 5196490--5196544 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
5196480 TGGTTGTGAG
**
5196490 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
5196512 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
5196534 GGATTTCTTCG
1 GGATTTCTTCG
5196545 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:5196715 original size:20 final size:20
Alignment explanation
Indices: 5196690--5196883 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
5196680 CTTTAAATAT
5196690 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
5196710 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
5196732 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5196751 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
5196771 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
5196791 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5196811 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
5196831 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
5196851 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
5196871 CGCGTTGCGATTT
1 CGCGTTGCGATTT
5196884 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:5196877 original size:60 final size:60
Alignment explanation
Indices: 5196690--5196883 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
5196680 CTTTAAATAT
**
5196690 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
5196751 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
5196811 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
5196871 CGCGTTGCGATTT
1 CGCGTTGCGATTT
5196884 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:5196900 original size:21 final size:20
Alignment explanation
Indices: 5196876--5196952 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
5196866 ATATTCGCGT
5196876 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
5196897 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
5196917 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
5196939 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
5196953 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:5196963 original size:20 final size:20
Alignment explanation
Indices: 5196938--5196989 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
5196928 AAGAATCGCG
*
5196938 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
5196958 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
5196978 TTGCGATTCTGG
1 TTGCGATTCTGG
5196990 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:5197308 original size:15 final size:15
Alignment explanation
Indices: 5197261--5197308 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
5197251 TTTCTCTTTT
*
5197261 TATTTAAATTATATT
1 TATTTAAATTATATA
* *
5197276 TATTTAAA--AAAAA
1 TATTTAAATTATATA
5197289 TATTTAAATTATATA
1 TATTTAAATTATATA
5197304 TATTT
1 TATTT
5197309 TATTTCAGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 10 0.38
15 16 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAAATTATATA
Found at i:5198804 original size:14 final size:14
Alignment explanation
Indices: 5198781--5198833 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
5198771 TTTTTAAAGA
*
5198781 TAATTTTATTTAAT
1 TAATTATATTTAAT
* * *
5198795 TAATAATATTAAAA
1 TAATTATATTTAAT
*
5198809 TAATTTTATTTAAGT
1 TAATTATATTTAA-T
5198824 TAATTATATT
1 TAATTATATT
5198834 GAATAAAAAA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
14 20 0.69
15 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TAATTATATTTAAT
Found at i:5198815 original size:28 final size:30
Alignment explanation
Indices: 5198774--5198833 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
5198764 AATCTTATTT
5198774 TTAAAGATAATTTTATTTAA-TTAATAATA
1 TTAAAGATAATTTTATTTAAGTTAATAATA
*
5198803 TTAAA-ATAATTTTATTTAAGTTAATTATA
1 TTAAAGATAATTTTATTTAAGTTAATAATA
5198832 TT
1 TT
5198834 GAATAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (30 bp):
TTAAAGATAATTTTATTTAAGTTAATAATA
Found at i:5204993 original size:32 final size:31
Alignment explanation
Indices: 5204950--5205039 Score: 135
Period size: 32 Copynumber: 2.9 Consensus size: 31
5204940 TAAACGAACA
5204950 AATTTTTTTTGTTCATGTTCGTTCATTAAGG
1 AATTTTTTTTGTTCATGTTCGTTCATTAAGG
5204981 AATTTTTTTTTGTTCATGTTCGTTCATTAAGG
1 AA-TTTTTTTTGTTCATGTTCGTTCATTAAGG
* ** *
5205013 AATATAGTTTGTTCATGTTTGTTCATT
1 AATTTTTTTTGTTCATGTTCGTTCATT
5205040 TAAATAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 23 0.43
32 31 0.57
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.56
Consensus pattern (31 bp):
AATTTTTTTTGTTCATGTTCGTTCATTAAGG
Found at i:5205061 original size:10 final size:10
Alignment explanation
Indices: 5205046--5205107 Score: 56
Period size: 10 Copynumber: 6.1 Consensus size: 10
5205036 CATTTAAATA
5205046 ATAAACGAAC
1 ATAAACGAAC
5205056 ATAAACGAAC
1 ATAAACGAAC
**
5205066 ACGAACGAAC
1 ATAAACGAAC
*
5205076 --GAACGAACAC
1 ATAAACG-A-AC
5205086 AATAAACGAAC
1 -ATAAACGAAC
5205097 ATAAACGAAC
1 ATAAACGAAC
5205107 A
1 A
5205108 ACACAAACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
8 5 0.11
9 1 0.02
10 31 0.70
11 2 0.05
12 1 0.02
13 4 0.09
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:5206047 original size:89 final size:89
Alignment explanation
Indices: 5205880--5206056 Score: 259
Period size: 89 Copynumber: 2.0 Consensus size: 89
5205870 TTTGATCTGG
* *
5205880 ATTTGGATTTGACATTTTAGTTGGAGGGAAATTGATAGGAATTCGAATTAGGGATTTCGTTTCTT
1 ATTTGGATTTGACATTTTAGTTGGAGGAAAATTGATAGGAATTCAAATTAGGGATTTCGTTTCTT
*
5205945 CGTGATATTAAAATTCTGGGTTTA
66 CGTGATATAAAAATTCTGGGTTTA
* * *
5205969 ATTTGGATTTTG-CATTTTAGTTGGAGGAAAATTTATAGGAATTTAAATTAGGGATTTCGTTTGT
1 ATTTGGA-TTTGACATTTTAGTTGGAGGAAAATTGATAGGAATTCAAATTAGGGATTTCGTTTCT
*
5206033 TTGTGGA-ATAAAAATTCTGGGTTT
65 TCGT-GATATAAAAATTCTGGGTTT
5206057 GACTTGAATT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 73 0.92
90 6 0.08
ACGTcount: A:0.28, C:0.05, G:0.24, T:0.43
Consensus pattern (89 bp):
ATTTGGATTTGACATTTTAGTTGGAGGAAAATTGATAGGAATTCAAATTAGGGATTTCGTTTCTT
CGTGATATAAAAATTCTGGGTTTA
Found at i:5216565 original size:60 final size:60
Alignment explanation
Indices: 5216467--5216583 Score: 216
Period size: 60 Copynumber: 1.9 Consensus size: 60
5216457 AATATTATGA
* *
5216467 CTCCGCTATTATTGATGATGCTAGTGCATTTATATCAGTTACATGCCAATAGATTTGGCG
1 CTCCACTATTATTGATGATGCTAGTGCATTTATATCAGTTACATGCCAAAAGATTTGGCG
5216527 CTCCACTATTATTGATGATGCTAGTGCATTTATATCAGTTACATGCCAAAAGATTTG
1 CTCCACTATTATTGATGATGCTAGTGCATTTATATCAGTTACATGCCAAAAGATTTG
5216584 AAGATGTACT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (60 bp):
CTCCACTATTATTGATGATGCTAGTGCATTTATATCAGTTACATGCCAAAAGATTTGGCG
Found at i:5218784 original size:21 final size:20
Alignment explanation
Indices: 5218759--5218819 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
5218749 TTTATTTTTA
5218759 TATTATTAAAATATATTATT
1 TATTATTAAAATATATTATT
** *
5218779 TGATTATTAAAATATAAAAAT
1 T-ATTATTAAAATATATTATT
*
5218800 TATTA-TATAATATATTATT
1 TATTATTAAAATATATTATT
5218819 T
1 T
5218820 TAATGATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 11 0.33
20 5 0.15
21 17 0.52
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TATTATTAAAATATATTATT
Found at i:5218818 original size:15 final size:15
Alignment explanation
Indices: 5218798--5218872 Score: 68
Period size: 15 Copynumber: 5.2 Consensus size: 15
5218788 AAATATAAAA
5218798 ATTATTATATAATAT
1 ATTATTATATAATAT
5218813 ATTATT-T-TAATGAT
1 ATTATTATATAAT-AT
** *
5218827 -TTAAAATATAATAA
1 ATTATTATATAATAT
*
5218841 ATAATTATA-AATAT
1 ATTATTATATAATAT
*
5218855 ATTATTATAAAATAT
1 ATTATTATATAATAT
5218870 ATT
1 ATT
5218873 GTTTTAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
13 7 0.15
14 17 0.36
15 23 0.49
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
ATTATTATATAATAT
Found at i:5218854 original size:42 final size:40
Alignment explanation
Indices: 5218763--5218860 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 40
5218753 TTTTTATATT
* * *
5218763 ATTA-AAATATATTA-TTTGATTATTAAAATATAAAAATT
1 ATTATAAATATATTATTTTAATGATTAAAATATAAAAATA
5218801 ATTATATAATATATTATTTTAATGATTTAAAATATAATAAATA
1 ATTATA-AATATATTATTTTAATGA-TTAAAATATAA-AAATA
5218844 ATTATAAATATATTATT
1 ATTATAAATATATTATT
5218861 ATAAAATATA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
38 4 0.08
39 1 0.02
40 9 0.17
41 6 0.12
42 22 0.42
43 10 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (40 bp):
ATTATAAATATATTATTTTAATGATTAAAATATAAAAATA
Found at i:5218880 original size:15 final size:15
Alignment explanation
Indices: 5218844--5218882 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
5218834 ATAATAAATA
5218844 ATTAT-AAATATATT
1 ATTATAAAATATATT
5218858 ATTATAAAATATATT
1 ATTATAAAATATATT
* *
5218873 GTTTTAAAAT
1 ATTATAAAAT
5218883 GTTAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
ATTATAAAATATATT
Found at i:5237287 original size:17 final size:18
Alignment explanation
Indices: 5237265--5237348 Score: 118
Period size: 18 Copynumber: 4.8 Consensus size: 18
5237255 TTAATCTACG
5237265 TCTGATAACTGTAAA-CA
1 TCTGATAACTGTAAATCA
*
5237282 TCTGATAACTGAAAATCA
1 TCTGATAACTGTAAATCA
5237300 TCTGATAACTGTAAAT-A
1 TCTGATAACTGTAAATCA
* **
5237317 TATGATAACTAAAAATCA
1 TCTGATAACTGTAAATCA
5237335 TCTGATAACTGTAA
1 TCTGATAACTGTAA
5237349 TTATCATACT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
17 28 0.49
18 29 0.51
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (18 bp):
TCTGATAACTGTAAATCA
Found at i:5237303 original size:18 final size:18
Alignment explanation
Indices: 5237265--5237345 Score: 112
Period size: 17 Copynumber: 4.6 Consensus size: 18
5237255 TTAATCTACG
*
5237265 TCTGATAACTGTAAA-CA
1 TCTGATAACTGAAAATCA
5237282 TCTGATAACTGAAAATCA
1 TCTGATAACTGAAAATCA
*
5237300 TCTGATAACTGTAAAT-A
1 TCTGATAACTGAAAATCA
* *
5237317 TATGATAACTAAAAATCA
1 TCTGATAACTGAAAATCA
5237335 TCTGATAACTG
1 TCTGATAACTG
5237346 TAATTATCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
17 28 0.51
18 27 0.49
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (18 bp):
TCTGATAACTGAAAATCA
Found at i:5237311 original size:35 final size:35
Alignment explanation
Indices: 5237265--5237348 Score: 141
Period size: 35 Copynumber: 2.4 Consensus size: 35
5237255 TTAATCTACG
* *
5237265 TCTGATAACTGTAAACATCTGATAACTGAAAATCA
1 TCTGATAACTGTAAACATATGATAACTAAAAATCA
*
5237300 TCTGATAACTGTAAATATATGATAACTAAAAATCA
1 TCTGATAACTGTAAACATATGATAACTAAAAATCA
5237335 TCTGATAACTGTAA
1 TCTGATAACTGTAA
5237349 TTATCATACT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (35 bp):
TCTGATAACTGTAAACATATGATAACTAAAAATCA
Found at i:5238370 original size:27 final size:29
Alignment explanation
Indices: 5238340--5238394 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
5238330 TCTAAATTTA
5238340 AATA-TAAAATTCGATA-AAAA-TAAATCC
1 AATACTAAAATT-GATATAAAACTAAATCC
*
5238367 AATACTTAAATTGATATAAAACTAAATC
1 AATACTAAAATTGATATAAAACTAAATC
5238395 GTACTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 10 0.42
29 6 0.25
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (29 bp):
AATACTAAAATTGATATAAAACTAAATCC
Found at i:5240121 original size:30 final size:31
Alignment explanation
Indices: 5240087--5240172 Score: 92
Period size: 30 Copynumber: 2.8 Consensus size: 31
5240077 TAAAATATAT
5240087 AACTTTTCAAAA-TTATATTTTTAGTCCCT-A
1 AACTTTT-AAAACTTATATTTTTAGTCCCTCA
* *
5240117 AACTTTTATAAAGTT-TATACTTTAG-CCCTCA
1 AACTTTTA-AAACTTATAT-TTTTAGTCCCTCA
5240148 AACTTTTAAAACTTATA-TTTTAGTC
1 AACTTTTAAAACTTATATTTTTAGTC
5240173 ACTAGTCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
29 6 0.13
30 23 0.49
31 18 0.38
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (31 bp):
AACTTTTAAAACTTATATTTTTAGTCCCTCA
Done.