Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_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: 5120959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 21
Found at i:3444665 original size:26 final size:28
Alignment explanation
Indices: 3444616--3444672 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
3444606 AGGGGTGCAC
* *
3444616 AAAAATTTCGAATATCCGATTTTGCGAA
1 AAAAATATCGAATATCCGATTTTGAGAA
*
3444644 AAAAATATCGAA-ATCGGA-TTTGAGAA
1 AAAAATATCGAATATCCGATTTTGAGAA
3444670 AAA
1 AAA
3444673 CCGATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 10 0.38
27 5 0.19
28 11 0.42
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (28 bp):
AAAAATATCGAATATCCGATTTTGAGAA
Found at i:3447111 original size:21 final size:21
Alignment explanation
Indices: 3447087--3447126 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3447077 TTTATTTTAT
3447087 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
3447108 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
3447127 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:3447174 original size:33 final size:33
Alignment explanation
Indices: 3447121--3447219 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
3447111 TTTGTTTCAA
3447121 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
3447153 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
3447186 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
3447219 T
1 T
3447220 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:3447248 original size:13 final size:13
Alignment explanation
Indices: 3447205--3447259 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
3447195 TTGGAAGTAT
3447205 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
3447218 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
3447232 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
3447245 TTAAGTATTTGAA
1 TTAAGTATTTCAA
3447258 TT
1 TT
3447260 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:3447481 original size:21 final size:21
Alignment explanation
Indices: 3447455--3447511 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
3447445 TGGAGCGTGG
*
3447455 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
3447476 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
3447497 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
3447512 AAGTGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:3447849 original size:15 final size:17
Alignment explanation
Indices: 3447823--3447854 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3447813 TTCTATGGGA
3447823 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
3447839 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
3447855 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:3448607 original size:22 final size:22
Alignment explanation
Indices: 3448565--3448607 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3448555 ATTAGAATTT
*
3448565 ATATGATATAAAATTACTTTAA
1 ATATGATATAAAATTAATTTAA
3448587 ATATGA-ATAAAATTTAATTTA
1 ATATGATATAAAA-TTAATTTA
3448608 TTTTTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (22 bp):
ATATGATATAAAATTAATTTAA
Found at i:3449998 original size:18 final size:17
Alignment explanation
Indices: 3449975--3450033 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
3449965 ACTTGTGCTA
**
3449975 TTCTTTTTCATGTATCGT
1 TTCTTTTTC-TGTATAAT
3449993 TTCTTTTTCTGTATAAT
1 TTCTTTTTCTGTATAAT
*
3450010 TTCTTTTAT-TTTATAAT
1 TTCTTTT-TCTGTATAAT
3450027 TTCTTTT
1 TTCTTTT
3450034 ATTATATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
17 27 0.73
18 10 0.27
ACGTcount: A:0.15, C:0.12, G:0.05, T:0.68
Consensus pattern (17 bp):
TTCTTTTTCTGTATAAT
Found at i:3450045 original size:17 final size:17
Alignment explanation
Indices: 3450008--3450058 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
3449998 TTTCTGTATA
* *
3450008 ATTTCTTTTATTTTATA
1 ATTTCTTTTATTATATT
3450025 ATTTCTTTTATTATATT
1 ATTTCTTTTATTATATT
*
3450042 ATTT-TTCTTACTATATT
1 ATTTCTT-TTATTATATT
3450059 GTACTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 2 0.07
17 28 0.93
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTCTTTTATTATATT
Found at i:3454523 original size:5 final size:5
Alignment explanation
Indices: 3454513--3454539 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
3454503 CAAATTTTCC
3454513 ATTCA ATTCA ATTCA ATTCA ATTCA AT
1 ATTCA ATTCA ATTCA ATTCA ATTCA AT
3454540 GCCATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTCA
Found at i:3462805 original size:27 final size:27
Alignment explanation
Indices: 3462773--3462832 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
3462763 AGTTAGAATT
*
3462773 TCAAGTAATACCATAGAAAACAGTGCG
1 TCAAGTAATACCATAGAAAACAGGGCG
* * * *
3462800 TCAAGTAATGCCATGGAAATCAGGGTG
1 TCAAGTAATACCATAGAAAACAGGGCG
3462827 TCAAGT
1 TCAAGT
3462833 GATGCCATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (27 bp):
TCAAGTAATACCATAGAAAACAGGGCG
Found at i:3478600 original size:24 final size:24
Alignment explanation
Indices: 3478572--3478620 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
3478562 AAATCTAGGA
*
3478572 TGCAGCTTATATTA-CATAATCTTC
1 TGCAGCTCA-ATTACCATAATCTTC
*
3478596 TGCAGCTCAATTACCATATTCTTC
1 TGCAGCTCAATTACCATAATCTTC
3478620 T
1 T
3478621 CTAGTTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (24 bp):
TGCAGCTCAATTACCATAATCTTC
Found at i:3481799 original size:65 final size:65
Alignment explanation
Indices: 3481722--3481877 Score: 217
Period size: 65 Copynumber: 2.4 Consensus size: 65
3481712 TACACCCATT
*
3481722 TCGAATGCATTTTGTGTACCGATGCACA-AGCCATGCATCGATGCACTCTTGAATATTTTGAAAC
1 TCGAATGCATTTTGTGTACCGATGCACAGA-CCATGCATCGATGCACTCCTGAATATTTTGAAAC
3481786 A
65 A
* ** *
3481787 TTGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGGGTATTTTGAAACG
1 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATATTTTGAAACA
* *
3481852 TCGAATGTAATTAT-TGTACCGATGCA
1 TCGAATG-CATTTTGTGTACCGATGCA
3481878 ACCCTAGTGT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 76 0.94
66 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATATTTTGAAACA
Found at i:3485974 original size:15 final size:15
Alignment explanation
Indices: 3485954--3485984 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3485944 GAGAAGTAAA
3485954 GTATGAACATTAGTT
1 GTATGAACATTAGTT
3485969 GTATGAACATTAGTT
1 GTATGAACATTAGTT
3485984 G
1 G
3485985 AAAGACCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (15 bp):
GTATGAACATTAGTT
Found at i:3487733 original size:21 final size:22
Alignment explanation
Indices: 3487686--3487765 Score: 99
Period size: 23 Copynumber: 3.6 Consensus size: 22
3487676 ACACTAGACA
3487686 GTGCATCGATGCATCCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
* * *
3487709 GTGCATCGATACAT-CATGAAG
1 GTGCATCGATGCATCCTTGAAT
*
3487730 GTGCACCGATGCATTCCTTGAAT
1 GTGCATCGATGCA-TCCTTGAAT
3487753 GTGCATCGATGCA
1 GTGCATCGATGCA
3487766 CTCTGCTGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
21 16 0.34
22 1 0.02
23 30 0.64
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:3489705 original size:16 final size:15
Alignment explanation
Indices: 3489679--3489708 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3489669 ACTTAGGTTT
3489679 TATGTTTTGGATTGA
1 TATGTTTTGGATTGA
3489694 TATGTGTTTGGATTG
1 TATGT-TTTGGATTG
3489709 TTTTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (15 bp):
TATGTTTTGGATTGA
Found at i:3490529 original size:46 final size:46
Alignment explanation
Indices: 3490479--3490578 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 46
3490469 AGCCATGCAT
* * *
3490479 CGATGCACTCTTGAATATTTTGAAACATCGAATGCATTTTGTGTAC
1 CGATGCACTCCTGAATATTTTGAAACATCGAATGCAATTAGTGTAC
** * *
3490525 CGATGCACTCCTGGCTCTTTTGAAACATCGAATGTAATTAGTGTAC
1 CGATGCACTCCTGAATATTTTGAAACATCGAATGCAATTAGTGTAC
3490571 CGATGCAC
1 CGATGCAC
3490579 CCCTAGTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (46 bp):
CGATGCACTCCTGAATATTTTGAAACATCGAATGCAATTAGTGTAC
Found at i:3491339 original size:21 final size:22
Alignment explanation
Indices: 3491300--3491344 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
3491290 ATTTTTTTCA
* *
3491300 ATGATGACATGATATTATC-TT
1 ATGATAACATGATAATATCATT
*
3491321 ATGATAACATGTTAATATCATT
1 ATGATAACATGATAATATCATT
3491343 AT
1 AT
3491345 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (22 bp):
ATGATAACATGATAATATCATT
Found at i:3493268 original size:15 final size:16
Alignment explanation
Indices: 3493245--3493278 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3493235 TAAATAAACA
3493245 TAAAGTTTAAAAAA-T
1 TAAAGTTTAAAAAAGT
*
3493260 TAAATTTTAAAAAAGT
1 TAAAGTTTAAAAAAGT
3493276 TAA
1 TAA
3493279 TAAGAGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TAAAGTTTAAAAAAGT
Found at i:3497615 original size:20 final size:20
Alignment explanation
Indices: 3497590--3497630 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
3497580 TTGATTTTAC
*
3497590 TGTAGCAGTATTGGTACCCA
1 TGTAGCAGTATTGATACCCA
3497610 TGTAGCAGTATTGATACCCA
1 TGTAGCAGTATTGATACCCA
3497630 T
1 T
3497631 TTTTTCATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (20 bp):
TGTAGCAGTATTGATACCCA
Found at i:3498683 original size:22 final size:22
Alignment explanation
Indices: 3498633--3498689 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
3498623 AGTGCAAATA
3498633 CACTTTCA-TATTAGTGATGATG
1 CACTTT-AGTATTAGTGATGATG
* *
3498655 CAATTTAGTATTAGTGTTG-TGG
1 CACTTTAGTATTAGTGATGAT-G
3498677 CACTTTAGATATT
1 CACTTTAG-TATT
3498690 TGATGGCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.07
22 23 0.79
23 4 0.14
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (22 bp):
CACTTTAGTATTAGTGATGATG
Found at i:3499286 original size:17 final size:19
Alignment explanation
Indices: 3499254--3499293 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
3499244 TGCCTTAATG
3499254 TATAAGATTGCAT-AAAAC
1 TATAAGATTGCATAAAAAC
*
3499272 TATAATATT-CATAAAAAC
1 TATAAGATTGCATAAAAAC
3499290 TATA
1 TATA
3499294 TAATGTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
TATAAGATTGCATAAAAAC
Found at i:3505819 original size:23 final size:22
Alignment explanation
Indices: 3505751--3505870 Score: 141
Period size: 22 Copynumber: 5.8 Consensus size: 22
3505741 TTTAGTGCAG
*
3505751 AGGGAATCGA-TCCCCC-TTG-
1 AGGGAACCGATTCCCCCTTTGA
*
3505770 AGGGAACCGATTCCCCCTCTGA
1 AGGGAACCGATTCCCCCTTTGA
3505792 AGGGAACCGATTCCCCCTTTGA
1 AGGGAACCGATTCCCCCTTTGA
3505814 AGGGGAACCGATTCCCCCTTTGA
1 A-GGGAACCGATTCCCCCTTTGA
3505837 AGGG----GATT--CCCTTTGA
1 AGGGAACCGATTCCCCCTTTGA
3505853 AGGGGAACCGATTCCCCC
1 A-GGGAACCGATTCCCCC
3505871 CCACAGGGGA
Statistics
Matches: 87, Mismatches: 3, Indels: 18
0.81 0.03 0.17
Matches are distributed among these distances:
16 9 0.10
17 3 0.03
18 4 0.05
19 9 0.10
20 6 0.07
21 6 0.07
22 25 0.29
23 25 0.29
ACGTcount: A:0.22, C:0.32, G:0.26, T:0.21
Consensus pattern (22 bp):
AGGGAACCGATTCCCCCTTTGA
Found at i:3505856 original size:39 final size:41
Alignment explanation
Indices: 3505771--3505870 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 41
3505761 TCCCCCTTGA
3505771 GGGAACCGATTCCCCCTCTGAAGGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTCTGAAGGG-A--GATT-CCCCTTTGAAG
*
3505816 GGGAACCGATTCCCCCTTTGAAGGG-GATT-CCCTTTGAAG
1 GGGAACCGATTCCCCCTCTGAAGGGAGATTCCCCTTTGAAG
3505855 GGGAACCGATTCCCCC
1 GGGAACCGATTCCCCC
3505871 CCACAGGGGA
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
39 26 0.48
41 4 0.07
45 24 0.44
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (41 bp):
GGGAACCGATTCCCCCTCTGAAGGGAGATTCCCCTTTGAAG
Found at i:3515815 original size:21 final size:21
Alignment explanation
Indices: 3515759--3515815 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
3515749 GCTAAAACTC
* *
3515759 TTCTTCTTCATTTTTTATTCCT
1 TTCTTCTTGA-TTTTTACTCCT
* * * *
3515781 TTGTTATTGGTTTTTACTCTT
1 TTCTTCTTGATTTTTACTCCT
3515802 TTCTTCTTGATTTT
1 TTCTTCTTGATTTT
3515816 CTCTCTTCAA
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.09, C:0.16, G:0.07, T:0.68
Consensus pattern (21 bp):
TTCTTCTTGATTTTTACTCCT
Found at i:3517161 original size:34 final size:34
Alignment explanation
Indices: 3517118--3517228 Score: 136
Period size: 34 Copynumber: 3.3 Consensus size: 34
3517108 TAAGTGTGAA
3517118 TATGTGTGGATAAGTGGAGTTATCTCGTTGTCTT
1 TATGTGTGGATAAGTGGAGTTATCTCGTTGTCTT
** * *
3517152 TATGTGTGGACGAGTGGAGTTATCTCGTTATCCT
1 TATGTGTGGATAAGTGGAGTTATCTCGTTGTCTT
* *
3517186 TATGTGTGGACTAA-TGGAGTTATCTTGATGT-TCT
1 TATGTGTGGA-TAAGTGGAGTTATCTCGTTGTCT-T
3517220 TATGTGTGG
1 TATGTGTGG
3517229 TTGATCACGA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
34 64 0.98
35 1 0.02
ACGTcount: A:0.18, C:0.10, G:0.30, T:0.42
Consensus pattern (34 bp):
TATGTGTGGATAAGTGGAGTTATCTCGTTGTCTT
Found at i:3518915 original size:20 final size:21
Alignment explanation
Indices: 3518878--3518917 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3518868 AAATTAAGTT
3518878 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
3518899 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
3518918 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:3519314 original size:64 final size:65
Alignment explanation
Indices: 3519171--3519297 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 65
3519161 GATGCATTCT
* *
3519171 CCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTGATGCATCGATGCACAAG
1 CCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTCATGCATCGATGCACAAG
**
3519236 CCATGCATCGATGCACTCAGGCTATTTTC-AAACATCGAATGCATTTCATGCATCGATGCACA
1 CCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTCATGCATCGATGCACA
3519298 CTTGGTGCAC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 32 0.55
65 26 0.45
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (65 bp):
CCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTCATGCATCGATGCACAAG
Found at i:3527327 original size:16 final size:16
Alignment explanation
Indices: 3527306--3527337 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3527296 AAAGGGGGAG
3527306 AAAATTTAAGATGTGC
1 AAAATTTAAGATGTGC
3527322 AAAATTTAAGATGTGC
1 AAAATTTAAGATGTGC
3527338 TATAGTAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
AAAATTTAAGATGTGC
Found at i:3527520 original size:20 final size:21
Alignment explanation
Indices: 3527483--3527522 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3527473 AAATTAAGTT
3527483 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
3527504 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
3527523 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:3527809 original size:65 final size:63
Alignment explanation
Indices: 3527693--3527897 Score: 216
Period size: 65 Copynumber: 3.2 Consensus size: 63
3527683 ATTTGAGGTG
* * * * *
3527693 ATGCACCGATGCATCAACCATGCATCGATGCATTAGTGAAT-TAATTGAAACATCGAATGCATTC
1 ATGCACCGATGCATC-ACCATGCATCGATGCACT-CTGAATAT-TTTCAAACATCGAATGCATTT
3527757 C
63 C
* *
3527758 ATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTG
1 ATGCACCGATGCA-TCACCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTTC
* * * **
3527823 ATGCATCGATGCA-CAAGCCTTGCATCGATGCACTCAGGCTATTTTCAAACATCGAATGCATTTC
1 ATGCACCGATGCATC-A-CCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTTC
*
3527887 ATGCATCGATG
1 ATGCACCGATG
3527898 TACACTTGGT
Statistics
Matches: 121, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
63 1 0.01
64 35 0.29
65 83 0.69
66 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (63 bp):
ATGCACCGATGCATCACCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTTC
Found at i:3527916 original size:64 final size:63
Alignment explanation
Indices: 3527740--3527918 Score: 189
Period size: 65 Copynumber: 2.8 Consensus size: 63
3527730 GAATTAATTG
* * * ** *
3527740 AAACATCGAATGCATTCCATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AAACATCGAATGCATTTCATGCATCGATGCA--CACTTTGCATCGATGCACTCAGAATATTTTCA
* * **
3527805 AAACATCGAATGCATTTGATGCATCGATGCACAAGCCTTGCATCGATGCACTCAGGCTATTTTC-
1 AAACATCGAATGCATTTCATGCATCGATGCAC-A-CTTTGCATCGATGCACTCAGAATATTTTCA
* *
3527869 AAACATCGAATGCATTTCATGCATCGATGTACACTTGGTGCACCGATGCA
1 AAACATCGAATGCATTTCATGCATCGATGCACACTT--TGCATCGATGCA
3527919 TCAAGTGTTC
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
62 2 0.02
63 2 0.02
64 41 0.42
65 53 0.54
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (63 bp):
AAACATCGAATGCATTTCATGCATCGATGCACACTTTGCATCGATGCACTCAGAATATTTTCA
Found at i:3529519 original size:52 final size:48
Alignment explanation
Indices: 3529436--3529542 Score: 108
Period size: 48 Copynumber: 2.1 Consensus size: 48
3529426 CTTACACAAG
*
3529436 TGTAAGTATGTATTAAGCGTTATACTTTTTTTATTTTATTCACTTACACTGA
1 TGTAAGTATGTATTAAGCGTTACAC---TTTT-TTTTATTCACTTACACTGA
* * * * *
3529488 TGTAAGTATGTGTTAAGTGTTGCA-TTGTTTTTTATTCACTTCCACTGG
1 TGTAAGTATGTATTAAGCGTTACACTT-TTTTTTATTCACTTACACTGA
3529536 TGTAAGT
1 TGTAAGT
3529543 GTTAAGTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
48 26 0.54
49 2 0.04
52 20 0.42
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (48 bp):
TGTAAGTATGTATTAAGCGTTACACTTTTTTTTATTCACTTACACTGA
Found at i:3529641 original size:54 final size:54
Alignment explanation
Indices: 3529577--3529684 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
3529567 TAATAAAAAT
* *
3529577 AAAAAAGTATAGCACTTAACACATACTTACACT-GATGTAAGTATGTATATCTCC
1 AAAAAAGTATAACACTTAACACATACTTACACTAG-TGTAAGTATGTACATCTCC
* *
3529631 AAAAAAGTATAACATTTAACACATATTTACACTAGTGTAAGTATGTACATCTCC
1 AAAAAAGTATAACACTTAACACATACTTACACTAGTGTAAGTATGTACATCTCC
3529685 CAATGTAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 48 0.98
55 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.31
Consensus pattern (54 bp):
AAAAAAGTATAACACTTAACACATACTTACACTAGTGTAAGTATGTACATCTCC
Found at i:3533189 original size:14 final size:14
Alignment explanation
Indices: 3533170--3533210 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
3533160 CCCAATTAAT
3533170 TTTATGTTCGTTTG
1 TTTATGTTCGTTTG
**
3533184 TTTATGTTTATTTG
1 TTTATGTTCGTTTG
*
3533198 TTTGTGTTCGTTT
1 TTTATGTTCGTTT
3533211 ATGTTCGTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.68
Consensus pattern (14 bp):
TTTATGTTCGTTTG
Found at i:3534172 original size:163 final size:157
Alignment explanation
Indices: 3533989--3534296 Score: 454
Period size: 162 Copynumber: 1.9 Consensus size: 157
3533979 AGTAAAGCGC
* *
3533989 TACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTCGTGAATTTAAAAGAG
1 TACCGGATACATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTCGTGAATTTAAAAGAG
* *
3534054 AAGCAATTTTAAATCCTATAAAGTGTCGATACTTTTAAAAAAATGTATCGATCCAAAACGATATA
65 AAGC-AGTTTAAAGCCTATAAAGTGTCGATAC-TTTAAAAAAA--TATCGATCC-AAACGATATA
* *
3534119 CCAGGTAAAAATATGATAAAACTGGTAAAACAT
125 ACAGGTAAAAATATAATAAAACTGGTAAAACAT
* *
3534152 TACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTTGTGAATTTAAAAGAGA
1 TACCGGATACATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTCGTGAATTTAAAAGAGA
** * *
3534217 AGCAGTTTAGCGCCTATAATGTGTCGATACTTTAAAAAAATATCGATCCCAACGATATAACAGGT
66 AGCAGTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATATCGATCCAAACGATATAACAGGT
3534282 AAAAATATAATAAAA
131 AAAAATATAATAAAA
3534297 ACCGGTATCA
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
157 28 0.21
158 9 0.07
160 10 0.08
161 22 0.17
162 37 0.28
163 27 0.20
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (157 bp):
TACCGGATACATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTCGTGAATTTAAAAGAGA
AGCAGTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATATCGATCCAAACGATATAACAGGT
AAAAATATAATAAAACTGGTAAAACAT
Found at i:3534303 original size:21 final size:19
Alignment explanation
Indices: 3534279--3534326 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
3534269 CGATATAACA
3534279 GGTAAAAATATAATAAAAACC
1 GGTAAAAA-ATAAT-AAAACC
* *
3534300 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATAATAAAACC
3534320 GGTAAAA
1 GGTAAAA
3534327 CGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.09
20 10 0.43
21 8 0.35
22 3 0.13
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATAATAAAACC
Found at i:3535261 original size:32 final size:32
Alignment explanation
Indices: 3535225--3535288 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
3535215 AAAATATATA
3535225 AACTATAACATTATATATTGTTAAAAATGTAG
1 AACTATAACATTATATATTGTTAAAAATGTAG
3535257 AACTATAACATTATATATTGTTAAAAATGTAG
1 AACTATAACATTATATATTGTTAAAAATGTAG
3535289 GAAGTGTCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (32 bp):
AACTATAACATTATATATTGTTAAAAATGTAG
Found at i:3536373 original size:21 final size:21
Alignment explanation
Indices: 3536347--3536411 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
3536337 AAGACAATCA
*
3536347 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
3536368 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* * *
3536389 AGAGTTGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
3536410 AG
1 AG
3536412 GCATAAGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.42, C:0.09, G:0.31, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:3536487 original size:33 final size:33
Alignment explanation
Indices: 3536445--3536510 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3536435 AAATAGATGG
*
3536445 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
3536478 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
3536511 TATTACGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:3538324 original size:19 final size:19
Alignment explanation
Indices: 3538300--3538348 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
3538290 AATGTAGGGT
3538300 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
3538319 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
3538338 TAATTTTGTAT
1 TAATTTTGTAT
3538349 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3539364 original size:200 final size:200
Alignment explanation
Indices: 3538582--3539345 Score: 1316
Period size: 200 Copynumber: 3.8 Consensus size: 200
3538572 AATTTACAAT
*
3538582 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
3538647 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
*
3538712 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTATCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
3538777 AATGA
196 AATGA
* * *
3538782 ATGGAAAACAGGGTGCAACAATAAAGTGTCTATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
3538847 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
* *
3538912 ATGAGAGAATAGGTCTAACTAATGTATCGACACTTTTGTAGTTTGTGTCAATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
3538977 AATGA
196 AATGA
3538982 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
3539047 CGAAACCTATAAGTATAATGTAATAGGTAATTTTTCAATCTAA-CTGGTACAAGTATACCGGTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATC-GGTACAAGTATACCGGTTT
*
3539111 TATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
130 TATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
3539176 GAATGA
195 GAATGA
*
3539182 ATGGCAAACAGGGTGCAACTATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * * *
3539247 CGAAACCCAAAAGAATAATGTATTAGGTAATTTTTCAATCTAATCGGTATAAGTATACCGATTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
* * *
3539312 ATGGGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTATCGACACT
3539346 GTTTAATGTT
Statistics
Matches: 534, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
199 1 0.00
200 529 0.99
201 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:3540799 original size:6 final size:6
Alignment explanation
Indices: 3540788--3540881 Score: 89
Period size: 6 Copynumber: 15.7 Consensus size: 6
3540778 CAAGCGGTCA
* * * * *
3540788 ATGAAG ATGAAG CTGACG ATGAAG ATGAAG CTGACG ATGAAG ATGACG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * *
3540836 ATGAAG ATGACG ATGATG ATGATG ATGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
3540882 TCCAAACAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 76 1.00
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:3540810 original size:12 final size:12
Alignment explanation
Indices: 3540788--3540881 Score: 98
Period size: 12 Copynumber: 7.8 Consensus size: 12
3540778 CAAGCGGTCA
*
3540788 ATGAAGATGAAG
1 ATGAAGATGACG
* * *
3540800 CTGACGATGAAG
1 ATGAAGATGACG
*
3540812 ATGAAGCTGACG
1 ATGAAGATGACG
3540824 ATGAAGATGACG
1 ATGAAGATGACG
3540836 ATGAAGATGACG
1 ATGAAGATGACG
* *
3540848 ATGATGATGATG
1 ATGAAGATGACG
* *
3540860 ATGATGATGATG
1 ATGAAGATGACG
*
3540872 ATGATGATGA
1 ATGAAGATGA
3540882 TCCAAACAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 73 1.00
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGAAGATGACG
Found at i:3540844 original size:18 final size:18
Alignment explanation
Indices: 3540788--3540881 Score: 98
Period size: 18 Copynumber: 5.2 Consensus size: 18
3540778 CAAGCGGTCA
*
3540788 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
*
3540806 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
* *
3540824 ATGAAGATGACGATGAAG
1 ATGAAGATGAAGATGACG
* * *
3540842 ATGACGATGATGATGATG
1 ATGAAGATGAAGATGACG
* * *
3540860 ATGATGATGATGATGATG
1 ATGAAGATGAAGATGACG
3540878 ATGA
1 ATGA
3540882 TCCAAACAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 69 1.00
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.22
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:3540855 original size:3 final size:3
Alignment explanation
Indices: 3540823--3540882 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
3540813 TGAAGCTGAC
* * * *
3540823 GAT GAA GAT GAC GAT GAA GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
3540871 GAT GAT GAT GAT
1 GAT GAT GAT GAT
3540883 CCAAACAAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.37, C:0.03, G:0.33, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:3542397 original size:183 final size:183
Alignment explanation
Indices: 3542089--3542672 Score: 1071
Period size: 183 Copynumber: 3.2 Consensus size: 183
3542079 CAAAGTTTTC
*
3542089 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAA-AACAAATGTGTCGATACCTTG
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGAAGAA-AAATGTGTCGATACCTTG
*
3542153 TCAAAAAGTGTCGACATTTACACATCGGAACCCGGAATTATAATGTAATAGATAATTTTGTAATA
65 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
** *
3542218 TAACCGGTATAAATATACTGGTTTTATGAGAGAATAGGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
3542272 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGAAGAAAAATGTGTCGATACCTTGT
3542337 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
3542402 AACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
3542455 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCATAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGAAGAAAAATGTGTCGATACCTTGT
*
3542520 CAAAAACTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
3542585 AACTGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
3542638 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCA
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCA
3542673 GAATTATAAT
Statistics
Matches: 391, Mismatches: 9, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
183 389 0.99
184 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:3542763 original size:120 final size:120
Alignment explanation
Indices: 3542550--3542796 Score: 422
Period size: 120 Copynumber: 2.1 Consensus size: 120
3542540 ACATCGGAAC
*
3542550 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCAGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
* *
3542615 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGT
* * * *
3542670 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
*
3542735 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGATACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGT
3542790 CCAGAAT
1 CCAGAAT
3542797 GGAAGAAAAA
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGT
Found at i:3542914 original size:303 final size:303
Alignment explanation
Indices: 3542367--3542961 Score: 1055
Period size: 303 Copynumber: 2.0 Consensus size: 303
3542357 ACATCGGAAC
3542367 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
* *
3542432 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGA
*
3542497 AGAAAAATGTGTCGATACCTTGTCAAAAACTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAACTGTCGACATTTACACATCGAAACCCAGAATTATAA
* *
3542562 TGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTATAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTAC
*
3542627 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
3542670 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
*
3542735 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGA
* *
3542800 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGAAACCCTGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAACTGTCGACATTTACACATCGAAACCCAGAATTATAA
* *
3542865 TGTAATATATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTATAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTAC
3542930 AACCTATATCGACACTTTTTAATATTGTGTCG
261 AACCTATATCGACACTTTTTAATATTGTGTCG
3542962 CTAATTTTAA
Statistics
Matches: 277, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
303 277 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (303 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGA
AGAAAAATGTGTCGATACCTTGTCAAAAACTGTCGACATTTACACATCGAAACCCAGAATTATAA
TGTAATAGATAATTTTATAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTAC
AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:3546224 original size:87 final size:87
Alignment explanation
Indices: 3546120--3546369 Score: 473
Period size: 87 Copynumber: 2.9 Consensus size: 87
3546110 AAATAGGTCA
* *
3546120 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
3546185 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
3546207 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
3546272 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
3546294 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
*
3546359 CCGGTTAAATA
66 CCCGTTAAATA
3546370 ATATAACATA
Statistics
Matches: 160, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 160 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATACCTATTTTATT
Found at i:3546254 original size:23 final size:23
Alignment explanation
Indices: 3546204--3546248 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3546194 TACCTATTTT
* *
3546204 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
3546227 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
3546249 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:3546341 original size:23 final size:23
Alignment explanation
Indices: 3546291--3546335 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3546281 TACCTATTTT
* *
3546291 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
3546314 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
3546336 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:3549630 original size:12 final size:12
Alignment explanation
Indices: 3549613--3549659 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
3549603 GGATGTTTTC
3549613 TCTGATTTCTGT
1 TCTGATTTCTGT
3549625 TCTGATTTCTGT
1 TCTGATTTCTGT
*
3549637 TCTTATTTCT-T
1 TCTGATTTCTGT
*
3549648 CTTTGATTTCTG
1 -TCTGATTTCTG
3549660 ATATCTCTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 1 0.03
12 29 0.97
ACGTcount: A:0.09, C:0.17, G:0.13, T:0.62
Consensus pattern (12 bp):
TCTGATTTCTGT
Found at i:3549802 original size:65 final size:65
Alignment explanation
Indices: 3549721--3549846 Score: 200
Period size: 65 Copynumber: 1.9 Consensus size: 65
3549711 AGTATGAAGA
*
3549721 CTCTGACAGGTTCAGTCGCT-GCGGGTAATTCCTTTTATAGGTTCTGCACCGACTGGTAATTCTA
1 CTCTGACAGGTTCAGTCGCTAG-GGGTAATTCCTTTTATAGGTTCAGCACCGACTGGTAATTCTA
3549785 T
65 T
* * *
3549786 CTCTGGCAGGTTCAGTCGCTAGTGGTAATTCCTTTTATAGGTTCAGCACCGAGTGGTAATT
1 CTCTGACAGGTTCAGTCGCTAGGGGTAATTCCTTTTATAGGTTCAGCACCGACTGGTAATT
3549847 TCTTATAGAC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
65 55 0.98
66 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (65 bp):
CTCTGACAGGTTCAGTCGCTAGGGGTAATTCCTTTTATAGGTTCAGCACCGACTGGTAATTCTAT
Found at i:3549841 original size:31 final size:31
Alignment explanation
Indices: 3549744--3549846 Score: 93
Period size: 31 Copynumber: 3.2 Consensus size: 31
3549734 AGTCGCTGCG
* *
3549744 GGTAATTCCTTTTATAGGTTCTGCACCGACT
1 GGTAATTCCTTTTATAGGTTCAGCACCGAGT
** * *
3549775 GGTAATT-CTATCTCTGGCAGGTTCAGTC-GCTAGT
1 GGTAATTCCT-T-T-T-ATAGGTTCAG-CACCGAGT
3549809 GGTAATTCCTTTTATAGGTTCAGCACCGAGT
1 GGTAATTCCTTTTATAGGTTCAGCACCGAGT
3549840 GGTAATT
1 GGTAATT
3549847 TCTTATAGAC
Statistics
Matches: 55, Mismatches: 10, Indels: 14
0.70 0.13 0.18
Matches are distributed among these distances:
30 3 0.05
31 27 0.49
32 2 0.04
33 2 0.04
34 18 0.33
35 3 0.05
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (31 bp):
GGTAATTCCTTTTATAGGTTCAGCACCGAGT
Found at i:3556607 original size:3 final size:3
Alignment explanation
Indices: 3556601--3556640 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
3556591 CTACTACTAC
3556601 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3556641 TATTTATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3557359 original size:2 final size:2
Alignment explanation
Indices: 3557354--3557394 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3557344 GTATTAACAA
3557354 AT AT AT AT AT 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 AT AT A
3557395 ATAAAAAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3557709 original size:3 final size:3
Alignment explanation
Indices: 3557701--3557749 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
3557691 CAATAATTCA
*
3557701 AAT AAT AAT AAT AAT -AC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3557748 AA
1 AA
3557750 ATCGTCACTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 42 0.98
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3560253 original size:24 final size:24
Alignment explanation
Indices: 3560225--3560272 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
3560215 GAATATTAAA
3560225 GCTAATTATATAATTTTAGATATT
1 GCTAATTATATAATTTTAGATATT
*
3560249 GCTAATTATATAATTTTGGATATT
1 GCTAATTATATAATTTTAGATATT
3560273 TCAAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
GCTAATTATATAATTTTAGATATT
Found at i:3560279 original size:24 final size:24
Alignment explanation
Indices: 3560228--3560280 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
3560218 TATTAAAGCT
*
3560228 AATTATATAATTTTAGATATTGCT
1 AATTATATAATTTTAGATATTGCA
* *
3560252 AATTATATAATTTTGGATATTTCA
1 AATTATATAATTTTAGATATTGCA
3560276 AATTA
1 AATTA
3560281 AAATAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (24 bp):
AATTATATAATTTTAGATATTGCA
Found at i:3562157 original size:2 final size:2
Alignment explanation
Indices: 3562152--3562485 Score: 56
Period size: 2 Copynumber: 172.0 Consensus size: 2
3562142 GAAAAAAATA
* * *
3562152 AT AT AT AT AT AT AT AT A- AGT TT AT AT AT AA AT -T AT AG AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* * *
3562193 AA AT -T AT AT TT AT AT -T AT AA ACT AT AT A- AT -T AT -T AT A-
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * *
3562230 AGT -T AT AT AT AT A- AT -T AT GT TT AT GT GA- ACT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT
* * * * * * *
3562269 AA ACT AT GT AT AT AA ACT AT AT AT GT AT AA ACT AT AA AA AGT AT
1 AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT A-T AT
* * *
3562313 AT AGT TT AT A- AA AT AT A- AT TT AT AT -T A- AT AT AGT AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * * *
3562353 AT AT GT AT -T AT AT AA ACT AT AT AT TT AT AA AGT AT AT A- AA AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT
* *
3562395 AT AT AGT TT AT AT AT -T AT A- AT TT AT AT -T A- AT AT AGT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * *
3562435 AT AT GT AT GT AT A- ACT A- AT AT A- AGT A- AT CT AT AG A- AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT
3562474 AT AT AT AT AT AT
1 AT AT AT AT AT AT
3562486 TAAAGAAACA
Statistics
Matches: 234, Mismatches: 54, Indels: 88
0.62 0.14 0.23
Matches are distributed among these distances:
1 27 0.12
2 191 0.82
3 16 0.07
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3562207 original size:15 final size:13
Alignment explanation
Indices: 3562159--3562292 Score: 75
Period size: 13 Copynumber: 10.5 Consensus size: 13
3562149 ATAATATATA
*
3562159 TATATATATAAGT
1 TATATATATAAAT
3562172 T-TATATATAAAT
1 TATATATATAAAT
*
3562184 TATAGATATAAAT
1 TATATATATAAAT
*
3562197 TATAT-T-TATAT
1 TATATATATAAAT
*
3562208 TATAAACTATATAA-
1 TATATA-TATA-AAT
*
3562222 T-TAT-TATAAGT
1 TATATATATAAAT
3562233 TATATATAT-AAT
1 TATATATATAAAT
* * * *
3562245 TATGTTTATGTGAAC
1 TA--TATATATAAAT
*
3562260 TATATATATAAAC
1 TATATATATAAAT
* *
3562273 TATGTATATAAAC
1 TATATATATAAAT
3562286 TATATAT
1 TATATAT
3562293 GTATAAACTA
Statistics
Matches: 93, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
10 1 0.01
11 13 0.14
12 19 0.20
13 47 0.51
14 8 0.09
15 5 0.05
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (13 bp):
TATATATATAAAT
Found at i:3562304 original size:13 final size:13
Alignment explanation
Indices: 3562257--3562304 Score: 69
Period size: 13 Copynumber: 3.5 Consensus size: 13
3562247 TGTTTATGTG
3562257 AACTATATATATA
1 AACTATATATATA
*
3562270 AACTATGTATATA
1 AACTATATATATA
3562283 AACTATATATGTATA
1 AACTATATA--TATA
3562298 AACTATA
1 AACTATA
3562305 AAAAGTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 20 0.65
15 11 0.35
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (13 bp):
AACTATATATATA
Found at i:3562373 original size:24 final size:24
Alignment explanation
Indices: 3562310--3562413 Score: 92
Period size: 24 Copynumber: 4.5 Consensus size: 24
3562300 CTATAAAAAG
3562310 TATATAGTT-TATAAAATATA-A-T
1 TATATA-TTATATAAAATATATATT
* * *
3562332 T-TATATTA-ATATAGTATATATA
1 TATATATTATATAAAATATATATT
* *
3562354 TATGTATTATATAAACTATATATT
1 TATATATTATATAAAATATATATT
* *
3562378 TATAAAGTATATAAAATATATAGTT
1 TATATATTATATAAAATATATA-TT
3562403 TATATATTATA
1 TATATATTATA
3562414 ATTTATATTA
Statistics
Matches: 63, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
20 10 0.16
21 5 0.08
22 2 0.03
23 6 0.10
24 29 0.46
25 11 0.17
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (24 bp):
TATATATTATATAAAATATATATT
Found at i:3562373 original size:84 final size:84
Alignment explanation
Indices: 3562277--3562438 Score: 272
Period size: 84 Copynumber: 1.9 Consensus size: 84
3562267 ATAAACTATG
3562277 TATATAAACTATATATGTATAAACTATA-AAAAGTATATAGTTTATAAAATATAATTTATATTAA
1 TATATAAACTATATATGTATAAACTATATAAAA-TATATAGTTTATAAAATATAATTTATATTAA
3562341 TATAGTATATATATATGTAT
65 TATAGTATATATATATGTAT
* * * *
3562361 TATATAAACTATATATTTATAAAGTATATAAAATATATAGTTTATATATTATAATTTATATTAAT
1 TATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAAATATAATTTATATTAAT
3562426 ATAGTATATATAT
66 ATAGTATATATAT
3562439 GTATGTATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
84 69 0.95
85 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (84 bp):
TATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAAATATAATTTATATTAAT
ATAGTATATATATATGTAT
Found at i:3562712 original size:16 final size:16
Alignment explanation
Indices: 3562693--3562751 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 16
3562683 CAATAGTTAA
3562693 TATATGTAACTTATAG
1 TATATGTAACTTATAG
3562709 TATATGT-ACATGTAAACTA-
1 TATATGTAAC-T-T--A-TAG
3562728 TATATGTAACTTATAG
1 TATATGTAACTTATAG
*
3562744 TACATGTA
1 TATATGTA
3562752 TGTATAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 14
0.70 0.02 0.28
Matches are distributed among these distances:
15 4 0.11
16 16 0.46
17 1 0.03
18 1 0.03
19 9 0.26
20 4 0.11
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (16 bp):
TATATGTAACTTATAG
Found at i:3562760 original size:35 final size:35
Alignment explanation
Indices: 3562692--3562761 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
3562682 ACAATAGTTA
* *
3562692 ATATATGTAACTTATAGTATATGTACATGTAAACT
1 ATATATGTAACTTATAGTACATGTACATATAAACT
**
3562727 ATATATGTAACTTATAGTACATGTATGTATAAACT
1 ATATATGTAACTTATAGTACATGTACATATAAACT
3562762 GTGTATAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (35 bp):
ATATATGTAACTTATAGTACATGTACATATAAACT
Found at i:3562794 original size:19 final size:20
Alignment explanation
Indices: 3562749--3562810 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
3562739 TATAGTACAT
* * *
3562749 GTATGTATAAACTGTGTATA
1 GTATATATAAACTATATATA
3562769 GTATATATAAACTATATATA
1 GTATATATAAACTATATATA
* * *
3562789 -TATATAAAAACCATATAAA
1 GTATATATAAACTATATATA
3562808 GTA
1 GTA
3562811 AATTACTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.46
20 19 0.54
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (20 bp):
GTATATATAAACTATATATA
Found at i:3562910 original size:21 final size:21
Alignment explanation
Indices: 3562886--3562931 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
3562876 ATAAAAACCC
*
3562886 TAAACCATTAAA-CCTAAATCA
1 TAAACCA-TAAATCCAAAATCA
3562907 TAAACCATAAATCCAAAATCA
1 TAAACCATAAATCCAAAATCA
3562928 TAAA
1 TAAA
3562932 TCCTACACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCATAAATCCAAAATCA
Found at i:3562945 original size:14 final size:14
Alignment explanation
Indices: 3562880--3562966 Score: 65
Period size: 14 Copynumber: 6.3 Consensus size: 14
3562870 TAGTTTATAA
3562880 AAACCCTAAA-CCATT
1 AAACCCTAAATCC--T
*
3562895 AAA-CCTAAATCAT
1 AAACCCTAAATCCT
* *
3562908 AAACCATAAATCCA
1 AAACCCTAAATCCT
* *
3562922 AAATCATAAATCCT
1 AAACCCTAAATCCT
*
3562936 ACACCCTAAA-CACT
1 AAACCCTAAATC-CT
3562950 AAACCCT-AATCCT
1 AAACCCTAAATCCT
3562963 AAAC
1 AAAC
3562967 ACTATACATA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
13 13 0.22
14 41 0.71
15 4 0.07
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCCTAAATCCT
Found at i:3563061 original size:20 final size:21
Alignment explanation
Indices: 3563036--3563140 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 21
3563026 CTTATAGTAC
*
3563036 ATGTATGTATAAACTATGTAT
1 ATGTATATATAAACTATGTAT
3563057 A-GTATATATAAACTA--TAT
1 ATGTATATATAAACTATGTAT
*
3563075 A--TATATATAACCTATAGTAT
1 ATGTATATATAAACTAT-GTAT
*
3563095 ATGTATATATACAATCTATTTAT
1 ATGTATATATA-AA-CTATGTAT
3563118 ATGT-TATATAAACTA--TAT
1 ATGTATATATAAACTATGTAT
3563136 ATGTA
1 ATGTA
3563141 ACATATAGTT
Statistics
Matches: 72, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
17 12 0.17
18 11 0.15
20 20 0.28
21 3 0.04
22 14 0.19
23 8 0.11
24 4 0.06
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.43
Consensus pattern (21 bp):
ATGTATATATAAACTATGTAT
Found at i:3563099 original size:59 final size:61
Alignment explanation
Indices: 3563015--3563137 Score: 171
Period size: 59 Copynumber: 2.0 Consensus size: 61
3563005 ACATGTAAAT
* * *
3563015 TATATATGTAACTTATAGTACATGTATGTATA-AA-CTATGTATA-GTATATATAAACTATA
1 TATATATATAACCTATAGTACATGTATATATACAATCTATGTATATGT-TATATAAACTATA
* *
3563074 TATATATATAACCTATAGTATATGTATATATACAATCTATTTATATGTTATATAAACTATA
1 TATATATATAACCTATAGTACATGTATATATACAATCTATGTATATGTTATATAAACTATA
3563135 TAT
1 TAT
3563138 GTAACATATA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
59 28 0.50
60 2 0.04
61 24 0.43
62 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (61 bp):
TATATATATAACCTATAGTACATGTATATATACAATCTATGTATATGTTATATAAACTATA
Found at i:3563119 original size:37 final size:37
Alignment explanation
Indices: 3563043--3563133 Score: 101
Period size: 44 Copynumber: 2.3 Consensus size: 37
3563033 TACATGTATG
3563043 TATAAACTATGTATAGTATATATAAACTATATATATA
1 TATAAACTATGTATAGTATATATAAACTATATATATA
* *
3563080 TATAACCTATAGTATATGTATATATACAATCTATTTATATGTTA
1 TATAAACTAT-GTATA-GTATATATA-AA-CTA--TATAT-ATA
3563124 TATAAACTAT
1 TATAAACTAT
3563134 ATATGTAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
37 9 0.20
38 5 0.11
39 9 0.20
40 2 0.05
41 3 0.07
43 5 0.11
44 11 0.25
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (37 bp):
TATAAACTATGTATAGTATATATAAACTATATATATA
Found at i:3563206 original size:21 final size:21
Alignment explanation
Indices: 3563180--3563232 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
3563170 TAGTGTACTA
* *
3563180 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
*
3563201 TATAGTATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
*
3563222 TATATTTTATA
1 TATAGTTTATA
3563233 TTAATGTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:3563271 original size:15 final size:16
Alignment explanation
Indices: 3563227--3563628 Score: 101
Period size: 15 Copynumber: 24.1 Consensus size: 16
3563217 TAAACTATAT
3563227 TTTATATTAATGTATTATA
1 TTTATATTAA--TATTA-A
3563246 GTTTATATTAATATTAA
1 -TTTATATTAATATTAA
*
3563263 -TTATCTTAACTA-TAA
1 TTTATATTAA-TATTAA
*
3563278 TTTATATTAATA-TAG
1 TTTATATTAATATTAA
* *
3563293 TATATAGTT--TATAAA
1 TTTATA-TTAATATTAA
3563308 CTATACTATATTAATATTAA
1 -T-T--TATATTAATATTAA
*
3563328 -TTATATTAACTA-TAG
1 TTTATATTAA-TATTAA
3563343 TTTATATTAATGTACTATATA
1 TTTATATTAA--TA-T-TA-A
*
3563364 GTTTATATTAATGTTAA
1 -TTTATATTAATATTAA
*
3563381 -TTATCTTAACTA-TAA
1 TTTATATTAA-TATTAA
*
3563396 TTTATATTAATA-TAC
1 TTTATATTAATATTAA
* * *
3563411 TATATAGTTTATAAGCT-A
1 TTTATA-TTAAT-A-TTAA
*
3563429 TACTATATTAATATTAA
1 T-TTATATTAATATTAA
*
3563446 -TTATATTAACTA-TAG
1 TTTATATTAA-TATTAA
*
3563461 TTTATAAAATATACTATATAA
1 TTTAT---AT-TAATAT-TAA
*
3563482 TTTATA--ACATA-TAG
1 TTTATATTA-ATATTAA
3563496 TTTATATTAATATTAA
1 TTTATATTAATATTAA
*
3563512 TGTTATATACTATATACTATAT
1 T-TTATAT--TA-ATA-T-TAA
*
3563534 TTTATATTAACATTAA
1 TTTATATTAATATTAA
* * * *
3563550 TTACAAATTATAAACT-A
1 TT-TATATTA-ATATTAA
3563567 TATTATATTAATATTAA
1 T-TTATATTAATATTAA
3563584 -TTATATTAATATTAA
1 TTTATATTAATATTAA
*
3563599 -TTATAAT-ATA-TAA
1 TTTATATTAATATTAA
*
3563612 -TTATTTTAATATTAA
1 TTTATATTAATATTAA
3563627 TT
1 TT
3563629 ATAAATAGTT
Statistics
Matches: 288, Mismatches: 43, Indels: 106
0.66 0.10 0.24
Matches are distributed among these distances:
13 8 0.03
14 16 0.06
15 89 0.31
16 58 0.20
17 28 0.10
18 21 0.07
19 18 0.06
20 23 0.08
21 14 0.05
22 13 0.05
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.50
Consensus pattern (16 bp):
TTTATATTAATATTAA
Found at i:3563283 original size:65 final size:64
Alignment explanation
Indices: 3563249--3563600 Score: 248
Period size: 65 Copynumber: 5.5 Consensus size: 64
3563239 TATTATAGTT
* *
3563249 TATATTAATATTAATTATCTTAACTATAATTTATATTAATATAGTATATAGTTTATAAACTATAC
1 TATATTAATATTAATTATATTAACTATAATTTATA-TAATATAGTATATAGTTAATAAACTATAC
* * * *
3563314 TATATTAATATTAATTATATTAACTATAGTTTATATTA-AT-GTA-CTA--T-AT--AGT-T--
1 TATATTAATATTAATTATATTAACTATAATTTATATAATATAGTATATAGTTAATAAACTATAC
* * * * *
3563367 TATATTAATGTTAATTATCTTAACTATAATTTATATTAATATACTATATAGTTTATAAGCTATAC
1 TATATTAATATTAATTATATTAACTATAATTTATA-TAATATAGTATATAGTTAATAAACTATAC
* * * * *
3563432 TATATTAATATTAATTATATTAACTATAGTTTATAAAATATACTATATAATTTAT-AACATATAG
1 TATATTAATATTAATTATATTAACTATAATTTATATAATATAGTATATAGTTAATAAAC-TATA-
*
3563496 TT
64 -C
* * * * *
3563498 TATATTAATATTAATGTTATATACTATATACTATATTTTATATTAACATTAAT-TACAAATT-AT
1 TATATTAATATTAA---T-TATA-T-TA-ACTATAATTTATA-TAATA-TAGTATA-TAGTTAAT
*
3563561 AAACTATAT
56 AAACTATAC
3563570 TATATTAATATTAATTATATTAA-TATTAATT
1 TATATTAATATTAATTATATTAACTA-TAATT
3563601 ATAATATATA
Statistics
Matches: 234, Mismatches: 26, Indels: 54
0.75 0.08 0.17
Matches are distributed among these distances:
53 32 0.14
54 2 0.01
55 3 0.01
56 4 0.02
57 2 0.01
58 2 0.01
59 2 0.01
60 2 0.01
61 2 0.01
62 4 0.02
63 5 0.02
64 26 0.11
65 70 0.30
66 16 0.07
67 1 0.00
68 4 0.02
69 2 0.01
70 4 0.02
71 1 0.00
72 17 0.07
73 12 0.05
74 11 0.05
75 10 0.04
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (64 bp):
TATATTAATATTAATTATATTAACTATAATTTATATAATATAGTATATAGTTAATAAACTATAC
Found at i:3563303 original size:22 final size:21
Alignment explanation
Indices: 3563273--3563375 Score: 79
Period size: 22 Copynumber: 4.8 Consensus size: 21
3563263 TTATCTTAAC
*
3563273 TATAATTTATATTAATATAGTA
1 TATAGTTTATATTAATATA-TA
*
3563295 TATAGTTTATA--AACTATA-C
1 TATAGTTTATATTAA-TATATA
*
3563314 TATA-TTAATATTAATTATATTAA
1 TATAGTTTATATTAA-TATA-T-A
*
3563337 CTATAGTTTATATTAATGTACTA
1 -TATAGTTTATATTAATATA-TA
3563360 TATAGTTTATATTAAT
1 TATAGTTTATATTAAT
3563376 GTTAATTATC
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
18 5 0.08
19 4 0.06
20 8 0.12
21 4 0.06
22 26 0.40
23 1 0.02
24 8 0.12
25 9 0.14
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (21 bp):
TATAGTTTATATTAATATATA
Found at i:3563382 original size:53 final size:53
Alignment explanation
Indices: 3563314--3563423 Score: 184
Period size: 53 Copynumber: 2.1 Consensus size: 53
3563304 TAAACTATAC
* *
3563314 TATATTAATATTAATTATATTAACTATAGTTTATATTAATGTACTATATAGTT
1 TATATTAATATTAATTATATTAACTATAATTTATATTAATATACTATATAGTT
* *
3563367 TATATTAATGTTAATTATCTTAACTATAATTTATATTAATATACTATATAGTT
1 TATATTAATATTAATTATATTAACTATAATTTATATTAATATACTATATAGTT
3563420 TATA
1 TATA
3563424 AGCTATACTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (53 bp):
TATATTAATATTAATTATATTAACTATAATTTATATTAATATACTATATAGTT
Found at i:3563387 original size:118 final size:118
Alignment explanation
Indices: 3563163--3563487 Score: 464
Period size: 118 Copynumber: 2.8 Consensus size: 118
3563153 TAATCAATAG
* * *** * *
3563163 TTTATATTAGTGTACTATATAGTTTATACTTTATAACCTATAGT-ATA-TAATT-TATAAACTAT
1 TTTATATTAATATACTATATAGTTTATAAACTAT-A-CTATATTAATATTAATTATATTAACTAT
*
3563225 ATTTTATATTAATGTA-T-TATAGTTTATATTAATATTAATTATCTTAACTATAA
64 AGTTTATATTAATGTACTATATAGTTTATATTAATATTAATTATCTTAACTATAA
*
3563278 TTTATATTAATATAGTATATAGTTTATAAACTATACTATATTAATATTAATTATATTAACTATAG
1 TTTATATTAATATACTATATAGTTTATAAACTATACTATATTAATATTAATTATATTAACTATAG
*
3563343 TTTATATTAATGTACTATATAGTTTATATTAATGTTAATTATCTTAACTATAA
66 TTTATATTAATGTACTATATAGTTTATATTAATATTAATTATCTTAACTATAA
*
3563396 TTTATATTAATATACTATATAGTTTATAAGCTATACTATATTAATATTAATTATATTAACTATAG
1 TTTATATTAATATACTATATAGTTTATAAACTATACTATATTAATATTAATTATATTAACTATAG
* * *
3563461 TTTATA-AAATATACTATATAATTTATA
66 TTTATATTAATGTACTATATAGTTTATA
3563488 ACATATAGTT
Statistics
Matches: 190, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
113 6 0.03
114 4 0.02
115 33 0.17
116 24 0.13
117 19 0.10
118 104 0.55
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.49
Consensus pattern (118 bp):
TTTATATTAATATACTATATAGTTTATAAACTATACTATATTAATATTAATTATATTAACTATAG
TTTATATTAATGTACTATATAGTTTATATTAATATTAATTATCTTAACTATAA
Found at i:3563474 original size:43 final size:40
Alignment explanation
Indices: 3563271--3563501 Score: 146
Period size: 43 Copynumber: 5.8 Consensus size: 40
3563261 AATTATCTTA
* * *
3563271 ACTATAATTTATATTAATATAGTATATAGTTTATAAACTAT
1 ACTAT-ATTAATATTAATATACTATATAGTTTATAAAATAT
* * *
3563312 ACTATATTAATATTAATTATATTAACTATAGTTTATATTAATGT
1 ACTATATTAATATTAA-TATACT-A-TATAGTTTATA-AAATAT
* * * **
3563356 ACTATA-TAGT-TT-ATAT--TA-AT-GTTAATTATCT-T
1 ACTATATTAATATTAATATACTATATAGTTTATAAAATAT
* **
3563388 AACTATAATTTATATTAATATACTATATAGTTTATAAGCTAT
1 -ACTAT-ATTAATATTAATATACTATATAGTTTATAAAATAT
*
3563430 ACTATATTAATATTAATTATATTAACTATAGTTTATAAAATAT
1 ACTATATTAATATTAA-TATACT-A-TATAGTTTATAAAATAT
3563473 ACTATA-TAAT-TT-ATA-AC-ATATAGTTTATA
1 ACTATATTAATATTAATATACTATATAGTTTATA
3563502 TTAATATTAA
Statistics
Matches: 152, Mismatches: 21, Indels: 40
0.71 0.10 0.19
Matches are distributed among these distances:
32 1 0.01
33 6 0.04
34 6 0.04
35 15 0.10
36 3 0.02
37 5 0.03
38 2 0.01
39 4 0.03
40 26 0.17
41 31 0.20
42 9 0.06
43 35 0.23
44 9 0.06
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (40 bp):
ACTATATTAATATTAATATACTATATAGTTTATAAAATAT
Found at i:3563501 original size:21 final size:21
Alignment explanation
Indices: 3563391--3563494 Score: 77
Period size: 21 Copynumber: 4.9 Consensus size: 21
3563381 TTATCTTAAC
*
3563391 TATAATTTATATTAATATACTA
1 TATAATTTATA-AAATATACTA
* **
3563413 TATAGTTTATAAGCTATACTA
1 TATAATTTATAAAATATACTA
* * *
3563434 TATTAA--TATTAATTATATTAA
1 TA-TAATTTATAAAATATACT-A
*
3563455 CTATAGTTTATAAAATATACTA
1 -TATAATTTATAAAATATACTA
*
3563477 TATAATTTATAACATATA
1 TATAATTTATAAAATATA
3563495 GTTTATATTA
Statistics
Matches: 62, Mismatches: 15, Indels: 11
0.70 0.17 0.12
Matches are distributed among these distances:
20 9 0.15
21 28 0.45
22 15 0.24
23 10 0.16
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (21 bp):
TATAATTTATAAAATATACTA
Found at i:3563527 original size:118 final size:117
Alignment explanation
Indices: 3563163--3563533 Score: 386
Period size: 118 Copynumber: 3.2 Consensus size: 117
3563153 TAATCAATAG
* * *** * *
3563163 TTTATATTAGTGTACTATATAGTTTATACTTTATAACCTATAGT-ATA-TAATT-TATAAACTAT
1 TTTATATTAATATACTATATAGTTTATAAACTAT-A-CTATATTAATATTAATTATATTAACTAT
* * * * *
3563225 ATTTTATATTAATGTA-T-TATAGTTTATATTAAT-ATTAATTATCTTAACTATAA
64 AGTTTATATAAATATACTATATAATTTATA-TAATGA-TAATTATATTAACTATAA
*
3563278 TTTATATTAATATAGTATATAGTTTATAAACTATACTATATTAATATTAATTATATTAACTATAG
1 TTTATATTAATATACTATATAGTTTATAAACTATACTATATTAATATTAATTATATTAACTATAG
* * * * *
3563343 TTTATATTAATGTACTATATAGTTTATATTAATGTTAATTATCTTAACTATAA
66 TTTATATAAATATACTATATAATTTATA-TAATGATAATTATATTAACTATAA
*
3563396 TTTATATTAATATACTATATAGTTTATAAGCTATACTATATTAATATTAATTATATTAACTATAG
1 TTTATATTAATATACTATATAGTTTATAAACTATACTATATTAATATTAATTATATTAACTATAG
*
3563461 TTTATA-AAATATACTATATAATTTATA-ACAT-ATAGTTTATATTAA-TATTAA
66 TTTATATAAATATACTATATAATTTATATA-ATGATA-ATTATATTAACTA-TAA
3563512 TGTTATA-TACTATATACTATAT
1 T-TTATATTA--ATATACTATAT
3563534 TTTATATTAA
Statistics
Matches: 226, Mismatches: 18, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
113 6 0.03
114 4 0.02
115 38 0.17
116 40 0.18
117 24 0.11
118 114 0.50
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.49
Consensus pattern (117 bp):
TTTATATTAATATACTATATAGTTTATAAACTATACTATATTAATATTAATTATATTAACTATAG
TTTATATAAATATACTATATAATTTATATAATGATAATTATATTAACTATAA
Found at i:3563583 original size:34 final size:35
Alignment explanation
Indices: 3563491--3563586 Score: 104
Period size: 38 Copynumber: 2.7 Consensus size: 35
3563481 ATTTATAACA
* * *
3563491 TATAGTTTATATTAATATTAATGTTATATACTATATAC
1 TATA-TTTATATTAATATTAA--TTACAAACTATAAAC
* *
3563529 TATATTTTATATTAACATTAATTACAAATTATAAAC
1 TATA-TTTATATTAATATTAATTACAAACTATAAAC
3563565 TATA-TTATATTAATATTAATTA
1 TATATTTATATTAATATTAATTA
3563587 TATTAATATT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
34 17 0.33
36 15 0.29
38 19 0.37
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (35 bp):
TATATTTATATTAATATTAATTACAAACTATAAAC
Found at i:3563592 original size:43 final size:43
Alignment explanation
Indices: 3563545--3563631 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
3563535 TTATATTAAC
3563545 ATTAATTACAAATTATAA-ACTAT-ATTATATTAATATTAATTAT
1 ATTAA-TACAAATTATAATA-TATAATTATATTAATATTAATTAT
** *
3563588 ATTAATATTAATTATAATATATAATTATTTTAATATTAATTAT
1 ATTAATACAAATTATAATATATAATTATATTAATATTAATTAT
3563631 A
1 A
3563632 AATAGTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
42 13 0.33
43 26 0.67
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (43 bp):
ATTAATACAAATTATAATATATAATTATATTAATATTAATTAT
Found at i:3563615 original size:28 final size:27
Alignment explanation
Indices: 3563575--3563643 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 27
3563565 TATATTATAT
3563575 TAATATTAATTATATTAATATTAATTA
1 TAATATTAATTATATTAATATTAATTA
*
3563602 TAATATATAATTATTTTAATATTAATTA
1 TAATAT-TAATTATATTAATATTAATTA
3563630 TAAATAGTTAATTA
1 T-AATA-TTAATTA
3563644 ATAAAAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
27 6 0.16
28 21 0.55
29 10 0.26
30 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
TAATATTAATTATATTAATATTAATTA
Found at i:3563629 original size:15 final size:15
Alignment explanation
Indices: 3563568--3563643 Score: 97
Period size: 15 Copynumber: 5.3 Consensus size: 15
3563558 TATAAACTAT
3563568 ATTATATTAATATTA
1 ATTATATTAATATTA
3563583 ATTATATTAATATTA
1 ATTATATTAATATTA
*
3563598 ATTATAAT-ATA-TA
1 ATTATATTAATATTA
*
3563611 ATTATTTTAATATTA
1 ATTATATTAATATTA
3563626 ATTATA--AATAGTTA
1 ATTATATTAATA-TTA
3563640 ATTA
1 ATTA
3563644 ATAAAAATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
13 12 0.22
14 13 0.24
15 29 0.54
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
ATTATATTAATATTA
Found at i:3563678 original size:21 final size:21
Alignment explanation
Indices: 3563652--3563692 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3563642 TAATAAAAAT
*
3563652 TATATAGGGATGAAATTGAAA
1 TATATAAGGATGAAATTGAAA
* *
3563673 TATATAATGATTAAATTGAA
1 TATATAAGGATGAAATTGAA
3563693 TCATTAAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (21 bp):
TATATAAGGATGAAATTGAAA
Found at i:3564389 original size:6 final size:6
Alignment explanation
Indices: 3564378--3564464 Score: 61
Period size: 6 Copynumber: 14.7 Consensus size: 6
3564368 CCTAAACTAG
* ** * * *
3564378 AACCCA AACCC- -ACCCA AACCTA AACCTT AACCCT AACCCT AACCCT
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* ** *
3564424 AACCCA AACCTA AACCTG AACCCA AACCTA AACCCGA AACC
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCC-A AACC
3564465 AACTCTGAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
4 4 0.06
6 59 0.87
7 5 0.07
ACGTcount: A:0.43, C:0.45, G:0.02, T:0.10
Consensus pattern (6 bp):
AACCCA
Found at i:3564415 original size:18 final size:18
Alignment explanation
Indices: 3564389--3564457 Score: 95
Period size: 18 Copynumber: 3.8 Consensus size: 18
3564379 ACCCAAACCC
3564389 ACCCAAACCTAAACCTTA
1 ACCCAAACCTAAACCTTA
* *
3564407 ACCCTAACCCT-AACCCTA
1 ACCC-AAACCTAAACCTTA
*
3564425 ACCCAAACCTAAACCTGA
1 ACCCAAACCTAAACCTTA
3564443 ACCCAAACCTAAACC
1 ACCCAAACCTAAACC
3564458 CGAAACCAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
17 5 0.11
18 34 0.77
19 5 0.11
ACGTcount: A:0.42, C:0.43, G:0.01, T:0.13
Consensus pattern (18 bp):
ACCCAAACCTAAACCTTA
Found at i:3564466 original size:18 final size:18
Alignment explanation
Indices: 3564389--3564466 Score: 86
Period size: 18 Copynumber: 4.3 Consensus size: 18
3564379 ACCCAAACCC
**
3564389 ACCCAAACCTAAACCTTA
1 ACCCAAACCTAAACCCGA
* *
3564407 ACCCTAACCCT-AACCCTA
1 ACCC-AAACCTAAACCCGA
*
3564425 ACCCAAACCTAAACCTGA
1 ACCCAAACCTAAACCCGA
3564443 ACCCAAACCTAAACCCGA
1 ACCCAAACCTAAACCCGA
*
3564461 AACCAA
1 ACCCAA
3564467 CTCTGAACCC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
17 5 0.10
18 41 0.80
19 5 0.10
ACGTcount: A:0.44, C:0.42, G:0.03, T:0.12
Consensus pattern (18 bp):
ACCCAAACCTAAACCCGA
Found at i:3564993 original size:120 final size:120
Alignment explanation
Indices: 3564773--3565148 Score: 637
Period size: 120 Copynumber: 3.1 Consensus size: 120
3564763 GTAAATATAC
*
3564773 TTTAATTTGTAGCTACTATTGATTTGTTTCCTCTGTAGTCCTTGTTTGTATTGTTGGTTGTTCAT
1 TTTAATTTGTAGCTACTATTGATTTGTTTCCTCTGTAGTCCTTGTTTGTGTTGTTGGTTGTTCAT
* * *
3564838 TCGGATTACTTCTATAAGGTTGTTAGCTACTTTTATTTAGGATTTAAATAAACTG
66 TCGGATTGCTTGTATAAGGTTGTTAGCTACCTTTATTTAGGATTTAAATAAACTG
* * * *
3564893 TTTAATTTGTAGCTACTGTTGATTTGTTTCCTTTGTAGTCTTTTTTTGTGTTGTTGGTTGTTCAT
1 TTTAATTTGTAGCTACTATTGATTTGTTTCCTCTGTAGTCCTTGTTTGTGTTGTTGGTTGTTCAT
* *
3564958 TCAGATTGCTTGTATAAGGTTGTTAGCTTCCTTTATTTAGGATTTAAATAAACTG
66 TCGGATTGCTTGTATAAGGTTGTTAGCTACCTTTATTTAGGATTTAAATAAACTG
3565013 TTTAATTTGTAGCTACTATTGATTTGTTTCCTCTGTAGTCCTTGTTTGTGTTGTTGGTTGTTCAT
1 TTTAATTTGTAGCTACTATTGATTTGTTTCCTCTGTAGTCCTTGTTTGTGTTGTTGGTTGTTCAT
*
3565078 TCGGATTGCTTGTATAAGGTTGTTAGCTGCCTTTATTTA-GATTTAAATAAACTG
66 TCGGATTGCTTGTATAAGGTTGTTAGCTACCTTTATTTAGGATTTAAATAAACTG
*
3565132 TTTAATTTGTAACTACT
1 TTTAATTTGTAGCTACT
3565149 GTTTAATTTT
Statistics
Matches: 239, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
119 31 0.13
120 208 0.87
ACGTcount: A:0.20, C:0.11, G:0.18, T:0.51
Consensus pattern (120 bp):
TTTAATTTGTAGCTACTATTGATTTGTTTCCTCTGTAGTCCTTGTTTGTGTTGTTGGTTGTTCAT
TCGGATTGCTTGTATAAGGTTGTTAGCTACCTTTATTTAGGATTTAAATAAACTG
Found at i:3568285 original size:14 final size:14
Alignment explanation
Indices: 3568266--3568312 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
3568256 ATTTTTTCTT
3568266 TATATAAATTAAAC
1 TATATAAATTAAAC
3568280 TATAT-AATT----
1 TATATAAATTAAAC
3568289 TATATAAATTAAAC
1 TATATAAATTAAAC
*
3568303 TATATTAATT
1 TATATAAATT
3568313 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:3568291 original size:23 final size:24
Alignment explanation
Indices: 3568264--3568313 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
3568254 TTATTTTTTC
3568264 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
3568287 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
3568311 TTT
1 TTT
3568314 TCCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:3568602 original size:16 final size:17
Alignment explanation
Indices: 3568577--3568609 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3568567 CGGATCATTT
*
3568577 ACAGGTCAGGTT-AAAA
1 ACAGGCCAGGTTGAAAA
3568593 ACAGGCCAGGTTGAAAA
1 ACAGGCCAGGTTGAAAA
3568610 TATGGCAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.15
Consensus pattern (17 bp):
ACAGGCCAGGTTGAAAA
Found at i:3580958 original size:31 final size:30
Alignment explanation
Indices: 3580916--3580979 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
3580906 TTGACGTATT
*
3580916 AAATTTAATAAAACAATAACGTAATTAACC
1 AAATTTAATAAAACAATAACGTAAGTAACC
* *
3580946 AAATATTAATAAAACGATAACGTAAGTGACC
1 AAAT-TTAATAAAACAATAACGTAAGTAACC
3580977 AAA
1 AAA
3580980 ACTTATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.23
Consensus pattern (30 bp):
AAATTTAATAAAACAATAACGTAAGTAACC
Found at i:3581240 original size:18 final size:18
Alignment explanation
Indices: 3581213--3581247 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3581203 TCTAAAACCC
*
3581213 TAAAAAAATTACTAATAA
1 TAAAAAAATTACAAATAA
*
3581231 TAAAATAATTACAAATA
1 TAAAAAAATTACAAATA
3581248 TTCTCGACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAAAATTACAAATAA
Found at i:3583889 original size:14 final size:13
Alignment explanation
Indices: 3583871--3583920 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 13
3583861 TGAACGTTTG
3583871 GTTATGTTCGTTC
1 GTTATGTTCGTTC
3583884 GATTATGTTCG-T-
1 G-TTATGTTCGTTC
3583896 -TTATGTTCGTTC
1 GTTATGTTCGTTC
3583908 GGTTATGTTCGTT
1 -GTTATGTTCGTT
3583921 TATGTTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
10 9 0.28
11 1 0.03
13 2 0.06
14 20 0.62
ACGTcount: A:0.10, C:0.12, G:0.24, T:0.54
Consensus pattern (13 bp):
GTTATGTTCGTTC
Found at i:3583899 original size:10 final size:10
Alignment explanation
Indices: 3583880--3583927 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
3583870 GGTTATGTTC
*
3583880 GTTCGATTAT
1 GTTCGTTTAT
3583890 GTTCGTTTAT
1 GTTCGTTTAT
3583900 GTTCGTTCGGTTAT
1 GTTCG-T---TTAT
3583914 GTTCGTTTAT
1 GTTCGTTTAT
3583924 GTTC
1 GTTC
3583928 ATTCATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.10, C:0.12, G:0.23, T:0.54
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:3583899 original size:24 final size:24
Alignment explanation
Indices: 3583872--3583940 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
3583862 GAACGTTTGG
3583872 TTATGTTCGTTCGATTATGTTCGT
1 TTATGTTCGTTCGATTATGTTCGT
*
3583896 TTATGTTCGTTCGGTTATGTTCGT
1 TTATGTTCGTTCGATTATGTTCGT
*
3583920 TTATGTTCATTC-ATTTATGTT
1 TTATGTTCGTTCGA-TTATGTT
3583941 TAACCAATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.13, C:0.12, G:0.19, T:0.57
Consensus pattern (24 bp):
TTATGTTCGTTCGATTATGTTCGT
Found at i:3585060 original size:16 final size:14
Alignment explanation
Indices: 3585039--3585073 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
3585029 ATTTATGCCG
3585039 TTTATGTTCGTGTTCA
1 TTTATGTTCGT-TT-A
3585055 TTTATGTTCGTTTA
1 TTTATGTTCGTTTA
3585069 TTTAT
1 TTTAT
3585074 TAAATGAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 2 0.11
16 11 0.58
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.63
Consensus pattern (14 bp):
TTTATGTTCGTTTA
Found at i:3593585 original size:19 final size:21
Alignment explanation
Indices: 3593558--3593600 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
3593548 CACTCACTAT
*
3593558 TGTATTACTTGCATCGAT-TA
1 TGTATTACTTGCATAGATATA
3593578 TGTA-TACTTGCATAGATATA
1 TGTATTACTTGCATAGATATA
3593598 TGT
1 TGT
3593601 GTCATAGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (21 bp):
TGTATTACTTGCATAGATATA
Found at i:3601860 original size:20 final size:20
Alignment explanation
Indices: 3601831--3601868 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3601821 TAGAGATTTT
*
3601831 ATCCCAAACGGCTAGAAATC
1 ATCCCAAACGGATAGAAATC
*
3601851 ATCCCCAACGGATAGAAA
1 ATCCCAAACGGATAGAAA
3601869 CGACCACAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.29, G:0.16, T:0.13
Consensus pattern (20 bp):
ATCCCAAACGGATAGAAATC
Found at i:3608765 original size:135 final size:138
Alignment explanation
Indices: 3608509--3608768 Score: 336
Period size: 135 Copynumber: 1.9 Consensus size: 138
3608499 ATAAATTGTA
*
3608509 TATAAAAGTTATCGATCGATTTTGTTTAATGCATAACGATGCATTTTCGTATAAGTATTGTGTGT
1 TATAAAAGTTATCGATCGATTTTGTTTAATGCATAACGATGCATTTTCGTATAAGTACTGTGTGT
* * * *
3608574 ACTTTTGGCACTAGAAGTGTTATCATGGTAATCATAATGAGTTTGTTAATCACCATTTCGTTATA
66 ACTTTTGGCACTAGAAGTGTCATCATGGTAATCATAATAAGTTTCTGAATCACCATTTCGTTATA
3608639 CAATTATG
131 CAATTATG
* *
3608647 TATAAAAGTTATCGATCGATTTTG-TTAATGCATAAC-AGTGCATTTTTGTATCAGTACT-T-TG
1 TATAAAAGTTATCGATCGATTTTGTTTAATGCATAACGA-TGCATTTTCGTATAAGTACTGTGTG
* * **
3608708 TACTTTTGGCACT--ATGTGTGCATCCATGG-AATTCGTAATAAGTTTCTGAATTTCCATTTCG
65 TACTTTTGGCACTAGAAGTGT-CAT-CATGGTAA-TCATAATAAGTTTCTGAATCACCATTTCG
3608769 GTACTTCAGC
Statistics
Matches: 107, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
133 5 0.05
134 4 0.04
135 43 0.40
136 2 0.02
137 29 0.27
138 24 0.22
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (138 bp):
TATAAAAGTTATCGATCGATTTTGTTTAATGCATAACGATGCATTTTCGTATAAGTACTGTGTGT
ACTTTTGGCACTAGAAGTGTCATCATGGTAATCATAATAAGTTTCTGAATCACCATTTCGTTATA
CAATTATG
Found at i:3624081 original size:19 final size:19
Alignment explanation
Indices: 3624057--3624099 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
3624047 TACATTGGGC
*
3624057 TATGAATCT-AAAGTAAAGT
1 TATGAATCTGAAAATAAA-T
3624076 TATGAATCTGAAAATAAAT
1 TATGAATCTGAAAATAAAT
3624095 TATGA
1 TATGA
3624100 GTTTGGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.33
Consensus pattern (19 bp):
TATGAATCTGAAAATAAAT
Found at i:3624301 original size:125 final size:125
Alignment explanation
Indices: 3624079--3624328 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
3624069 GTAAAGTTAT
3624079 GAATCTGAAAATAAATTATGAGTTTGGAAATCACTTCTAAATATGAAATAAAACGTGAAAAAGAA
1 GAATCTGAAAATAAATTATGAGTTTGGAAATCACTTCTAAATATGAAATAAAACGTGAAAAAGAA
3624144 TATGACATAATTATTATGTTTGATATTGATTATTATGGTTTTGACAGAATCATGAGATGA
66 TATGACATAATTATTATGTTTGATATTGATTATTATGGTTTTGACAGAATCATGAGATGA
3624204 GAATCTGAAAATAAATTATGAGTTTGGAAATCACTTCTAAATATGAAATAAAACGTGAAAAAGAA
1 GAATCTGAAAATAAATTATGAGTTTGGAAATCACTTCTAAATATGAAATAAAACGTGAAAAAGAA
3624269 TATGACATAATTATTATGTTTGATATTGATTATTATGGTTTTGACAGAATCATGAGATGA
66 TATGACATAATTATTATGTTTGATATTGATTATTATGGTTTTGACAGAATCATGAGATGA
3624329 CAATTTTCAG
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.34
Consensus pattern (125 bp):
GAATCTGAAAATAAATTATGAGTTTGGAAATCACTTCTAAATATGAAATAAAACGTGAAAAAGAA
TATGACATAATTATTATGTTTGATATTGATTATTATGGTTTTGACAGAATCATGAGATGA
Found at i:3625167 original size:11 final size:11
Alignment explanation
Indices: 3625151--3625177 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3625141 ATATTGACTA
3625151 AATAAAATAAT
1 AATAAAATAAT
3625162 AATAAAATAAT
1 AATAAAATAAT
3625173 AATAA
1 AATAA
3625178 TTAAAGTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:3626435 original size:119 final size:119
Alignment explanation
Indices: 3626291--3626529 Score: 460
Period size: 119 Copynumber: 2.0 Consensus size: 119
3626281 GCTCCAATGA
3626291 CTGCAGTTTCCTCGGTAAGTTTCTCTCTTCTCTTTTCTTTCGATATTTGGCTGTTGGGTGGTTGC
1 CTGCAGTTTCCTCGGTAAGTTTCTCTCTTCTCTTTTCTTTCGATATTTGGCTGTTGGGTGGTTGC
3626356 TGTTTGTTTCCCCTTTTATGCTGTGTTGGGTATGGTTCTCCTTTGTTCCTCCGT
66 TGTTTGTTTCCCCTTTTATGCTGTGTTGGGTATGGTTCTCCTTTGTTCCTCCGT
3626410 CTGCAGTTTCCTCGGTAAGTTTCTCTCTTCTCTTTTCTTTCGATATTTGGCTGTTGGGTGGTTGC
1 CTGCAGTTTCCTCGGTAAGTTTCTCTCTTCTCTTTTCTTTCGATATTTGGCTGTTGGGTGGTTGC
* *
3626475 TGTTTGTTTCCCCTTTTTTTCTGTGTTGGGTATGGTTCTCCTTTGTTCCTCCGT
66 TGTTTGTTTCCCCTTTTATGCTGTGTTGGGTATGGTTCTCCTTTGTTCCTCCGT
3626529 C
1 C
3626530 CTCTTCTGTG
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 118 1.00
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.50
Consensus pattern (119 bp):
CTGCAGTTTCCTCGGTAAGTTTCTCTCTTCTCTTTTCTTTCGATATTTGGCTGTTGGGTGGTTGC
TGTTTGTTTCCCCTTTTATGCTGTGTTGGGTATGGTTCTCCTTTGTTCCTCCGT
Found at i:3626803 original size:39 final size:39
Alignment explanation
Indices: 3626741--3626818 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
3626731 CACCTGGCAG
* * *
3626741 TGCTGGAAGCTGCTGCAACTGATGCGTGGAGGGGTTGCT
1 TGCTGGAAGCTGCTGCAAATGATGCGTGAAGGGGCTGCT
* *
3626780 TGCTGGAAGCTGTTGGAAATGATGCGTGAAGGGGCTGCT
1 TGCTGGAAGCTGCTGCAAATGATGCGTGAAGGGGCTGCT
3626819 GGATGGAGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.18, C:0.15, G:0.41, T:0.26
Consensus pattern (39 bp):
TGCTGGAAGCTGCTGCAAATGATGCGTGAAGGGGCTGCT
Found at i:3627639 original size:112 final size:112
Alignment explanation
Indices: 3627435--3627640 Score: 306
Period size: 112 Copynumber: 1.8 Consensus size: 112
3627425 ATAGAGTTAT
3627435 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTCA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTCA
** * *
3627500 TTATGAACTTTCTCTGGCAACGCTGATCCATCGGGTGATGAATTTGA
66 TTATGAACACTCTCTGGAAACACTGATCCATCGGGTGATGAATTTGA
* * * *
3627547 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATAAATTCTTCTC
* *
3627612 ATTATGAACACT-TCTGGAAATATTGATCC
65 ATTATGAACACTCTCTGGAAACACTGATCC
3627641 TCAAATGAGG
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
112 54 0.65
113 29 0.35
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (112 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTCA
TTATGAACACTCTCTGGAAACACTGATCCATCGGGTGATGAATTTGA
Found at i:3627872 original size:113 final size:113
Alignment explanation
Indices: 3627690--3627985 Score: 418
Period size: 113 Copynumber: 2.6 Consensus size: 113
3627680 GAATCAATGC
* *
3627690 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTC-T-TTTCCTCTTCAGATAAGTTCTTCTCATT
1 AAGGTTGAACAAGTTCTTCTCATTATGAA-TTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATT
* * * *
3627753 ATGAACTTTCTA-TGGAAAAGTTGATCCATCAAGTGATGAATTTAAGCAA
65 ATGAACTAT-AACTGGAAAAGCTGATCCACCAAGTGATGAATTTAAGCAA
* *
3627802 AAGGTTGAACAAATTCTTGTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTA
* ** **
3627867 TGAACTATAACTGGCACTGCTGATCCACCGGGTGATGAATTTAAGCAA
66 TGAACTATAACTGGAAAAGCTGATCCACCAAGTGATGAATTTAAGCAA
* *
3627915 AAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTA
3627980 TGAACT
66 TGAACT
3627986 CTTCCGGAAA
Statistics
Matches: 164, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
111 4 0.02
112 29 0.18
113 131 0.80
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (113 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTATAACTGGAAAAGCTGATCCACCAAGTGATGAATTTAAGCAA
Found at i:3627960 original size:374 final size:368
Alignment explanation
Indices: 3627059--3627983 Score: 1400
Period size: 375 Copynumber: 2.5 Consensus size: 368
3627049 GATGTTATTG
* * * *
3627059 AGCAAAAAGTTGAACAAATTCTTCTCATTACGAACTTCTTCTTCTTTTTCATATGAGTTCTTCTC
1 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTC
3627124 ATTATGAACTTTCTCTGGCAACGCTGATCCATCGGGTGATGAATTTGAGCAAAAGGTTGAACAAG
66 ATTATGAACTTTCTCTGGCAACGCTGATCCATCGGGTGATGAATTTGAGCAAAAGGTTGAACAAG
**
3627189 TTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATTTCTTCTCATTATGAAGTTCCTCTG
131 TTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATTTCTTCTCATTATGAAGCACCTCTG
* *
3627254 AAAATATTGATCCTCAAATGAGGTTCTTCTTTCATTCAATTTCATAGGAGATGAATCAATGCAAG
196 AAAATATTGATCCTCAAATGAGGTTATTCTTTCATTCAATTCCATAGGAGATGAATCAATGCAAG
*
3627319 GTTGAACAAGTTCTTCTCATTATGAATTTTCTTTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
261 GTTGAACAAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
* * **
3627384 CTTTCTCTGGAAAATTTGGTGTTGATCTATCTCCTTCTGTGATAGAGTTA
326 CTTTCTATGGAAAA-----TGTTGATCCA-CTCC-TAAGTGATAGAGTTA
* ** * *
3627434 TGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTC
1 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTC
3627499 ATTATGAACTTTCTCTGGCAACGCTGATCCATCGGGTGATGAATTTGAGCAAAAGGTTGAACAAG
66 ATTATGAACTTTCTCTGGCAACGCTGATCCATCGGGTGATGAATTTGAGCAAAAGGTTGAACAAG
* *
3627564 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTT-TTCTCATTATGAA-CACTTCT
131 TTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGA-TTTCTTCTCATTATGAAGCACCTCT
*
3627627 GGAAATATTGATCCTCAAATGAGGTTATTCTTTCATTCAATTCCATAGGAGATGAATCAATGCAA
195 GAAAATATTGATCCTCAAATGAGGTTATTCTTTCATTCAATTCCATAGGAGATGAATCAATGCAA
3627692 GGTTGAACAAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAGATAAGTTCTTCTCATTATGA
260 GGTTGAACAAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAGATAAGTTCTTCTCATTATGA
*
3627757 ACTTTCTATGGAAAA-GTTGATCCA-T-C-AAGTGAT-GAATTTA
325 ACTTTCTATGGAAAATGTTGATCCACTCCTAAGTGATAG-AGTTA
* *
3627797 AGCAAAAGGTTGAACAAATTCTTGTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-TTCTTCTTCAGATGAGTTCTTCT
* ** * * *
3627862 CATTATGAACTATAACTGGC-ACTGCTGATCCACCGGGTGATGAATTTAAGCAAAAAGTTGAACA
65 CATTATGAACTTTCTCTGGCAAC-GCTGATCCATCGGGTGATGAATTTGAGCAAAAGGTTGAACA
*
3627926 AGTTCTTCTCATTATGAACTTCTTCTTTC-TTCTTCAGATGAGTTCTTCTCATTATGAA
129 AGTTCTTCTCATTATGAACTTCTTC-TTCATTCTTCAGATGATTTCTTCTCATTATGAA
3627984 CTCTTCCGGA
Statistics
Matches: 508, Mismatches: 36, Indels: 23
0.90 0.06 0.04
Matches are distributed among these distances:
362 1 0.00
363 49 0.10
364 126 0.25
365 4 0.01
366 1 0.00
368 8 0.02
374 144 0.28
375 172 0.34
376 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (368 bp):
AGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGCAACGCTGATCCATCGGGTGATGAATTTGAGCAAAAGGTTGAACAAG
TTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGATTTCTTCTCATTATGAAGCACCTCTG
AAAATATTGATCCTCAAATGAGGTTATTCTTTCATTCAATTCCATAGGAGATGAATCAATGCAAG
GTTGAACAAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
CTTTCTATGGAAAATGTTGATCCACTCCTAAGTGATAGAGTTA
Found at i:3629268 original size:75 final size:76
Alignment explanation
Indices: 3629145--3629616 Score: 596
Period size: 75 Copynumber: 6.3 Consensus size: 76
3629135 GATATGGGCC
* * * ** * *
3629145 TTCAGCATGCCCCAACA-ATTGTTGATACGAACGTTCAAAATACATCAACATTCATGATTCTGAT
1 TTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAAGATACATCAACATTCATGATTCTGAT
*
3629209 TGAAATA-GGCT
66 TGAAA-AGGGTT
* * ** * * ** *
3629220 TTCAGCATGCCCCAACA-ATTGCTGATACGAACGTTCAAAATACATCAACATTTTTCATTCTGAT
1 TTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAAGATACATCAACATTCATGATTCTGAT
*
3629284 T-AAAAGGGCT
66 TGAAAAGGGTT
* * * *
3629294 TTCAGCATGCCCTAGCATTTTGCTGATATAAACACTCAGGATACATCAATATTCCAT-ATTCTGA
1 TTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAAGATACATCAACATT-CATGATTCTGA
*
3629358 TTGAAAGGGGTT
65 TTGAAAAGGGTT
* * *
3629370 TTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAGGATACATCAATATTCTTGATTCTGAT
1 TTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAAGATACATCAACATTCATGATTCTGAT
3629435 TGAAAAGGGTT
66 TGAAAAGGGTT
*
3629446 TTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAAGATACATCAACATTCCTGATT-TGAT
1 TTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAAGATACATCAACATTCATGATTCTGAT
3629510 TGAAAAGGGTT
66 TGAAAAGGGTT
* * * *
3629521 TTCAGTATGCCCCAGCATTTTACTGATATAAACATTCAGGATACATCAACATTCCTGATTCTGAT
1 TTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAAGATACATCAACATTCATGATTCTGAT
3629586 TGAAAAGGGTT
66 TGAAAAGGGTT
*
3629597 TTCAGCATGCCCCAACATTT
1 TTCAGCATGCCCCAGCATTT
3629617 GCTTCTTGTT
Statistics
Matches: 361, Mismatches: 30, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
73 1 0.00
74 22 0.06
75 171 0.47
76 167 0.46
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (76 bp):
TTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAAGATACATCAACATTCATGATTCTGAT
TGAAAAGGGTT
Found at i:3629396 original size:76 final size:75
Alignment explanation
Indices: 3629184--3629616 Score: 579
Period size: 76 Copynumber: 5.7 Consensus size: 75
3629174 AACGTTCAAA
* * *
3629184 ATACATCAACATTCATGATTCTGATTGAAATA-GGCTTTCAGCATGCCCCAACA-ATTGCTGATA
1 ATACATCAACATTC-TGATTCTGATTGAAA-AGGGTTTTCAGCATGCCCCAGCATTTTGCTGATA
** * **
3629247 CGAACGTTCAAA
64 TAAACATTCAGG
* * * *
3629259 ATACATCAACATTTTTCATTCTGATT-AAAAGGGCTTTCAGCATGCCCTAGCATTTTGCTGATAT
1 ATACATCAACA-TTCTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATAT
*
3629323 AAACACTCAGG
65 AAACATTCAGG
* *
3629334 ATACATCAATATTCCAT-ATTCTGATTGAAAGGGGTTTTCAGCATGCCCCAGCATTTTGCTGATA
1 ATACATCAACATT-C-TGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATA
3629398 TAAACATTCAGG
64 TAAACATTCAGG
*
3629410 ATACATCAATATTCTTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATAT
1 ATACATCAACATTC-TGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATAT
*
3629475 AAACATTCAAG
65 AAACATTCAGG
* *
3629486 ATACATCAACATTCCTGATT-TGATTGAAAAGGGTTTTCAGTATGCCCCAGCATTTTACTGATAT
1 ATACATCAACATT-CTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATAT
3629550 AAACATTCAGG
65 AAACATTCAGG
*
3629561 ATACATCAACATTCCTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAACATTT
1 ATACATCAACATT-CTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTT
3629617 GCTTCTTGTT
Statistics
Matches: 323, Mismatches: 26, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
73 1 0.00
74 24 0.07
75 129 0.40
76 168 0.52
77 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (75 bp):
ATACATCAACATTCTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATATA
AACATTCAGG
Found at i:3629547 original size:151 final size:152
Alignment explanation
Indices: 3629145--3629616 Score: 623
Period size: 151 Copynumber: 3.1 Consensus size: 152
3629135 GATATGGGCC
* * ** * * *
3629145 TTCAGCATGCCCCAACA-ATTGTTGATACGAACGTTCAAAATACATCAACATTCATGATTCTGAT
1 TTCAGCATGCCCCAACATTTTGCTGATATAAACATTCAAGATACATCAACATTCCTGATTCTGAT
* * * ** * **
3629209 TGAAATA-GGCTTTCAGCATGCCCCAACA-ATTGCTGATACGAACGTTCAAAATACATCAACATT
66 TGAAA-AGGGTTTTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAGGATACATCAACATT
* * *
3629272 TTTCATTCTGATT-AAAAGGGCT
130 CTTGATTCTGATTGAAAAGGGTT
* * * * *
3629294 TTCAGCATGCCCTAGCATTTTGCTGATATAAACACTCAGGATACATCAATATTCCAT-ATTCTGA
1 TTCAGCATGCCCCAACATTTTGCTGATATAAACATTCAAGATACATCAACATTCC-TGATTCTGA
* *
3629358 TTGAAAGGGGTTTTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAGGATACATCAATATT
65 TTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAGGATACATCAACATT
3629423 CTTGATTCTGATTGAAAAGGGTT
130 CTTGATTCTGATTGAAAAGGGTT
*
3629446 TTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAAGATACATCAACATTCCTGATT-TGAT
1 TTCAGCATGCCCCAACATTTTGCTGATATAAACATTCAAGATACATCAACATTCCTGATTCTGAT
* *
3629510 TGAAAAGGGTTTTCAGTATGCCCCAGCATTTTACTGATATAAACATTCAGGATACATCAACATTC
66 TGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAGGATACATCAACATTC
*
3629575 CTGATTCTGATTGAAAAGGGTT
131 TTGATTCTGATTGAAAAGGGTT
3629597 TTCAGCATGCCCCAACATTT
1 TTCAGCATGCCCCAACATTT
3629617 GCTTCTTGTT
Statistics
Matches: 282, Mismatches: 35, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
149 15 0.05
150 59 0.21
151 146 0.52
152 62 0.22
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (152 bp):
TTCAGCATGCCCCAACATTTTGCTGATATAAACATTCAAGATACATCAACATTCCTGATTCTGAT
TGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATATAAACATTCAGGATACATCAACATTC
TTGATTCTGATTGAAAAGGGTT
Found at i:3636081 original size:14 final size:15
Alignment explanation
Indices: 3636047--3636085 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3636037 CATAAAAATA
*
3636047 CAAATGCAAAGATGC
1 CAAATGTAAAGATGC
*
3636062 CAAATGTAAATATG-
1 CAAATGTAAAGATGC
3636076 CAAATGTAAA
1 CAAATGTAAA
3636086 AATTGTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (15 bp):
CAAATGTAAAGATGC
Found at i:3636416 original size:43 final size:43
Alignment explanation
Indices: 3636343--3636428 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
3636333 CCGTGCACTA
* * *
3636343 AACAAAACTTTATATATAGGGGACATCTTTCAGTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* * *
3636386 AACAAAACTTTACATATATGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
3636429 TCTAAAGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (43 bp):
AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:3637842 original size:28 final size:26
Alignment explanation
Indices: 3637787--3637844 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
3637777 AAACATTAAT
*
3637787 AAAATAATATACATATAAATATTATG
1 AAAATAATATACATATAAAAATTATG
* *
3637813 AAAATAATAAGTATATATAAAAATTTTG
1 AAAATAAT-A-TACATATAAAAATTATG
3637841 AAAA
1 AAAA
3637845 GAAAGAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 8 0.30
27 1 0.04
28 18 0.67
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATG
Found at i:3638463 original size:16 final size:13
Alignment explanation
Indices: 3638430--3638454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3638420 CTCCTTTCTT
3638430 TAATATTAATAAA
1 TAATATTAATAAA
3638443 TAATATTAATAA
1 TAATATTAATAA
3638455 GATATAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATTAATAAA
Found at i:3639915 original size:39 final size:39
Alignment explanation
Indices: 3639854--3639930 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
3639844 ACCTGGCAGT
* *
3639854 GCTGGAAGCTGCTGCAACTGATGCGTGGAGGGGCTGCTC
1 GCTGGAAACTGCTGCAAATGATGCGTGGAGGGGCTGCTC
*
3639893 GCTGGAAACTGCTGGAAATGATGCGTGGAGGGGCTGCT
1 GCTGGAAACTGCTGCAAATGATGCGTGGAGGGGCTGCT
3639931 GGATGGAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.18, C:0.19, G:0.42, T:0.21
Consensus pattern (39 bp):
GCTGGAAACTGCTGCAAATGATGCGTGGAGGGGCTGCTC
Found at i:3644699 original size:21 final size:21
Alignment explanation
Indices: 3644675--3644714 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3644665 TTAAGTGAAT
3644675 AAATAA-AAAATATAATAAATA
1 AAATAAGAAAA-ATAATAAATA
*
3644696 AAATAAGAGAAATAATAAA
1 AAATAAGAAAAATAATAAA
3644715 GTTGAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAATAAGAAAAATAATAAATA
Done.