Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 311 of 349
Found at i:103806730 original size:18 final size:18
Alignment explanation
Indices: 103806709--103806744 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
103806699 CTTAATTCTA
* *
103806709 AAAAATTTAAAGAAATAT
1 AAAAATATAAAAAAATAT
103806727 AAAAATATAAAAAAATAT
1 AAAAATATAAAAAAATAT
103806745 TTTATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAATATAAAAAAATAT
Found at i:103807279 original size:12 final size:12
Alignment explanation
Indices: 103807264--103807288 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103807254 AATGATTAAA
103807264 AAAATAAAAAAT
1 AAAATAAAAAAT
103807276 AAAATAAAAAAT
1 AAAATAAAAAAT
103807288 A
1 A
103807289 GTTTTCTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:103821221 original size:32 final size:32
Alignment explanation
Indices: 103821176--103821240 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
103821166 CAAACACTAC
*
103821176 TTTATTATGTTTGTTTTACTAAAAATAACTTT
1 TTTATTATATTTGTTTTACTAAAAATAACTTT
103821208 TTTATTATATTTGTTTTACTAAAAATAACTTT
1 TTTATTATATTTGTTTTACTAAAAATAACTTT
103821240 T
1 T
103821241 GAAAAATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (32 bp):
TTTATTATATTTGTTTTACTAAAAATAACTTT
Found at i:103822497 original size:30 final size:29
Alignment explanation
Indices: 103822432--103822497 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
103822422 AATTGAACCA
* * *
103822432 TCCATCAAAATATAAACATCAATAAAGTT
1 TCCATCAAAATACAAACATCAATAAACTG
* *
103822461 TCCATCAAAATACAACCATTAATTAAACTG
1 TCCATCAAAATACAAACATCAA-TAAACTG
103822491 TCCATCA
1 TCCATCA
103822498 TTGAAATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (29 bp):
TCCATCAAAATACAAACATCAATAAACTG
Found at i:103823329 original size:23 final size:24
Alignment explanation
Indices: 103823287--103823334 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
103823277 TTTTCCTTAG
*
103823287 AATAGGAGGGTTAATTGTTCCCAT
1 AATAGGAGGGTCAATTGTTCCCAT
103823311 AATAGGA-GGTCAATTGTTCCCAT
1 AATAGGAGGGTCAATTGTTCCCAT
103823334 A
1 A
103823335 TCAATTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (24 bp):
AATAGGAGGGTCAATTGTTCCCAT
Found at i:103834464 original size:47 final size:46
Alignment explanation
Indices: 103834382--103834529 Score: 158
Period size: 46 Copynumber: 3.2 Consensus size: 46
103834372 CCAAAAACGA
* * * *
103834382 TCTTACACTGACTTACATCTCAAGTCGAA-GCCATGTTCTAGACATGG
1 TCTTACACTGACTTACATCTCGAGGCCAATG-CATGTCCTAGACAT-G
*
103834429 TCTTACACTGAC-TATCATCTCGTA-GCCATTGCATGTCCTAGACATG
1 TCTTACACTGACTTA-CATCTCG-AGGCCAATGCATGTCCTAGACATG
* * * *
103834475 TCTTATACTGGCTTACGTCTCGAGGCCAATGCATGTCCCAGACATG
1 TCTTACACTGACTTACATCTCGAGGCCAATGCATGTCCTAGACATG
103834521 TCTTACACT
1 TCTTACACT
103834530 AGCACTCGTC
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
45 1 0.01
46 47 0.55
47 35 0.41
48 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (46 bp):
TCTTACACTGACTTACATCTCGAGGCCAATGCATGTCCTAGACATG
Found at i:103834540 original size:46 final size:46
Alignment explanation
Indices: 103834453--103834580 Score: 123
Period size: 46 Copynumber: 2.7 Consensus size: 46
103834443 TCATCTCGTA
* * * * * *
103834453 GCCATTGCATGTCCTAGACATGTCTTATACTGGCTTACGTCTCGAG
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAG
*
103834499 GCCAATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAAT
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGC-CTACGTCTCAAG
** **
103834545 GCTGATGCCACATCCCAGACATAGTCTTACACTAGC
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTAGC
103834581 TCTCACAAGT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 42 0.62
47 13 0.19
48 13 0.19
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAG
Found at i:103834925 original size:45 final size:45
Alignment explanation
Indices: 103834861--103834952 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
103834851 TTCTTGATCT
*
103834861 ATAATAGAAAAATACACTTATTTAATCACTAAATGAAATTAAGAA
1 ATAATAGAAAAATACACTTATTTAATCACTAAATAAAATTAAGAA
*
103834906 ATAATGGAAAAATACACTTATTTAATCACTAAATAAAATTAAGAA
1 ATAATAGAAAAATACACTTATTTAATCACTAAATAAAATTAAGAA
103834951 AT
1 AT
103834953 TGAAAATTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (45 bp):
ATAATAGAAAAATACACTTATTTAATCACTAAATAAAATTAAGAA
Found at i:103839760 original size:13 final size:13
Alignment explanation
Indices: 103839742--103839773 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
103839732 CTGTGCATTC
103839742 TTAGTTTAAATAA
1 TTAGTTTAAATAA
103839755 TTAGTTTAAATAA
1 TTAGTTTAAATAA
103839768 TTAGTT
1 TTAGTT
103839774 AATTAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (13 bp):
TTAGTTTAAATAA
Found at i:103845183 original size:45 final size:47
Alignment explanation
Indices: 103845126--103845247 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 47
103845116 TGTAGTCAAC
* *
103845126 GCATGTCTCAGACATGTCTTACACTAGCTTA-T-GTCTCGAGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-TACTCGTCTCAAGGCTGAT
*
103845172 G-ATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTCAAGGTTGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTACTCGTCTCAAGGCTGAT
* *
103845217 GCCACGTCCCAGACATTATCTTACACTAGCT
1 G-CATGTCCCAGACA-TGTCTTACACTAGCT
103845248 CTCACAAATG
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
43 1 0.02
44 1 0.02
45 38 0.58
46 1 0.02
47 11 0.17
48 13 0.20
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
GCATGTCCCAGACATGTCTTACACTAGCTACTCGTCTCAAGGCTGAT
Found at i:103847821 original size:27 final size:27
Alignment explanation
Indices: 103847788--103847869 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
103847778 ATCTATTCCA
103847788 CATTTAATTCATGAATATATAACTCAT
1 CATTTAATTCATGAATATATAACTCAT
* * * * *
103847815 CATTTAAATAATG-GTACTATCTATTCCA-
1 CATTTAATTCATGAATA-TAT-AACT-CAT
103847843 CATTTAATTCATGAATATATAACTCAT
1 CATTTAATTCATGAATATATAACTCAT
103847870 GTATTCAATG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
26 4 0.10
27 16 0.40
28 16 0.40
29 4 0.10
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (27 bp):
CATTTAATTCATGAATATATAACTCAT
Found at i:103847842 original size:55 final size:55
Alignment explanation
Indices: 103847758--103847869 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
103847748 TTATTCACGT
103847758 ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
1 ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
103847813 ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
1 ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
103847868 AT
1 AT
103847870 GTATTCAATG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.40
Consensus pattern (55 bp):
ATCATTTAAATAATGGTACTATCTATTCCACATTTAATTCATGAATATATAACTC
Found at i:103854854 original size:40 final size:40
Alignment explanation
Indices: 103854671--103854840 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
103854661 TCCTCGTTCA
* * * *
103854671 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
103854710 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
103854750 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
103854790 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
103854830 AAGGCCTTCGG
1 AATGCCTTCGG
103854841 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 35 0.30
40 83 0.70
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:103862512 original size:5 final size:5
Alignment explanation
Indices: 103862502--103862535 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
103862492 TTACCTATTT
103862502 ATATA ATATA ATATA ATATA ATAT- ATAATA ATAT
1 ATATA ATATA ATATA ATATA ATATA AT-ATA ATAT
103862536 TCTTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 2 0.07
5 23 0.85
6 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:103865520 original size:57 final size:57
Alignment explanation
Indices: 103865400--103865522 Score: 144
Period size: 58 Copynumber: 2.1 Consensus size: 57
103865390 TTACAGAATG
* * *
103865400 GATTTAGCCTAGACTGGTAATCCTGATATAAGCCCTCTTGAGCATATGATAAAGATA
1 GATTTAGCCCAGACGGGTAATCCTGATATAAGCCCTCTTGAGCATATGATAAAGAAA
* *
103865457 GAATTTAGCCCAGACGGGTAATCCTGAT-TAAGCTCT-TATGAGCATATGTTGAAA-ACAA
1 G-ATTTAGCCCAGACGGGTAATCCTGATATAAGCCCTCT-TGAGCATATGAT-AAAGA-AA
103865515 GATTTAGC
1 GATTTAGC
103865523 TTGGACAAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
56 1 0.02
57 27 0.47
58 29 0.51
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (57 bp):
GATTTAGCCCAGACGGGTAATCCTGATATAAGCCCTCTTGAGCATATGATAAAGAAA
Found at i:103874265 original size:26 final size:27
Alignment explanation
Indices: 103874215--103874268 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 27
103874205 TTGCCTCAAG
103874215 TTCAAATCTTTTTGAGTCATCAAATAT
1 TTCAAATCTTTTTGAGTCATCAAATAT
103874242 TTCAAA-CTTTTGTGA-TCAGT-AAATAT
1 TTCAAATCTTTT-TGAGTCA-TCAAATAT
103874268 T
1 T
103874269 CGACACTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (27 bp):
TTCAAATCTTTTTGAGTCATCAAATAT
Found at i:103878625 original size:16 final size:16
Alignment explanation
Indices: 103878606--103878636 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
103878596 CTTCTTCACT
103878606 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
103878622 TACTTACTTACTTAA
1 TACTCACTTACTTAA
103878637 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:103878642 original size:20 final size:20
Alignment explanation
Indices: 103878603--103878642 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
103878593 AAACTTCTTC
* *
103878603 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
103878623 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
103878643 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:103879066 original size:55 final size:54
Alignment explanation
Indices: 103878829--103879083 Score: 188
Period size: 55 Copynumber: 4.8 Consensus size: 54
103878819 ACACGGGTAC
* * * * *
103878829 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGATAT-CTT---TTTGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
103878878 CTTACC-ATTTCCATGTCTCGACAAGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * * *
103878931 CTCACTAA-TGCCTTGCCTTGGCGTGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
** * ** **
103878986 CTTATTAA-TGTCATGTTTTGACATGGTCTTACATTATATCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
103879039 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
103879084 AAACCCTAAT
Statistics
Matches: 156, Mismatches: 37, Indels: 20
0.73 0.17 0.09
Matches are distributed among these distances:
49 32 0.21
50 3 0.02
52 2 0.01
53 41 0.26
54 11 0.07
55 65 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:103882787 original size:4 final size:4
Alignment explanation
Indices: 103882765--103882802 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
103882755 ACAATGCTAA
*
103882765 ACAT AACAT ACAT ATAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT -ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
103882803 AACTTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:103882969 original size:10 final size:9
Alignment explanation
Indices: 103882947--103883070 Score: 65
Period size: 9 Copynumber: 14.6 Consensus size: 9
103882937 GCATAACATG
103882947 CATAATATA
1 CATAATATA
103882956 CATAATAGTA
1 CATAATA-TA
103882966 C---ATA-A
1 CATAATATA
103882971 CATAA-ATA
1 CATAATATA
103882979 CA-AATATA
1 CATAATATA
*
103882987 CAAAATA-A
1 CATAATATA
*
103882995 C-T-ATAAA
1 CATAATATA
*
103883002 CATAACATA
1 CATAATATA
*
103883011 CAT-GTATAA
1 CATAATAT-A
103883020 CACTACATA-A
1 CA-TA-ATATA
*
103883030 CAT-ACATA
1 CATAATATA
103883038 CATAATAGTA
1 CATAATA-TA
*
103883048 CATAACATA
1 CATAATATA
103883057 CATAATATA
1 CATAATATA
103883066 CATAA
1 CATAA
103883071 CAGTTTAAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 34
0.67 0.08 0.26
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 10 0.11
8 18 0.20
9 38 0.43
10 15 0.17
12 2 0.02
ACGTcount: A:0.56, C:0.16, G:0.02, T:0.26
Consensus pattern (9 bp):
CATAATATA
Found at i:103883028 original size:23 final size:23
Alignment explanation
Indices: 103883001--103883060 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
103882991 ATAACTATAA
**
103883001 ACATAACATACATGTATAACACT
1 ACATAACATACATACATAACACT
* *
103883024 ACATAACATACATACATAATAGT
1 ACATAACATACATACATAACACT
103883047 ACATAACATACATA
1 ACATAACATACATA
103883061 ATATACATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.52, C:0.20, G:0.03, T:0.25
Consensus pattern (23 bp):
ACATAACATACATACATAACACT
Found at i:103883067 original size:18 final size:19
Alignment explanation
Indices: 103883029--103883072 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
103883019 ACACTACATA
103883029 ACAT-ACATACATAATAGT
1 ACATAACATACATAATAGT
103883047 ACATAACATACATAATA-T
1 ACATAACATACATAATAGT
103883065 ACATAACA
1 ACATAACA
103883073 GTTTAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.55, C:0.18, G:0.02, T:0.25
Consensus pattern (19 bp):
ACATAACATACATAATAGT
Found at i:103883114 original size:82 final size:80
Alignment explanation
Indices: 103882953--103883119 Score: 183
Period size: 82 Copynumber: 2.0 Consensus size: 80
103882943 CATGCATAAT
* * **
103882953 ATACATAATAGTACATAACATAAATACAAATATACAAAATAACTATAAACATAACATACATGTAT
1 ATACATAATAGTACATAACATAAAT--AAATATACAAAACAACTAAAAACATAACATACATACAT
* *
103883018 AACACTACATAACATAC
64 AACACTAAAAAACATAC
* * **
103883035 ATACATAATAGTACATAACATACAT-AATATACATAACAGTTTAAAAACATAACATACATACATA
1 ATACATAATAGTACATAACATAAATAAATATACAAAACA-ACTAAAAACATAACATACATACAT-
*
103883099 AACAGTAAAGAAACATAC
64 AACACTAAA-AAACATAC
103883117 ATA
1 ATA
103883120 ACAGACATAC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 11 0.15
80 19 0.27
81 7 0.10
82 34 0.48
ACGTcount: A:0.56, C:0.16, G:0.04, T:0.24
Consensus pattern (80 bp):
ATACATAATAGTACATAACATAAATAAATATACAAAACAACTAAAAACATAACATACATACATAA
CACTAAAAAACATAC
Found at i:103891539 original size:45 final size:45
Alignment explanation
Indices: 103891483--103891581 Score: 164
Period size: 45 Copynumber: 2.2 Consensus size: 45
103891473 AGCAGTAATA
*
103891483 GTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAACAGTAACG
1 GTAACAGTATTCAACACACAAAGTGTC-GAATCGGTAACAGTAACG
*
103891528 GTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAACG
1 GTAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAACG
103891573 GTAACAGTA
1 GTAACAGTA
103891582 ACAGTAGTCG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
45 50 0.98
46 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (45 bp):
GTAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAACG
Found at i:103891576 original size:12 final size:12
Alignment explanation
Indices: 103891559--103891583 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103891549 AGTGTCGAAT
103891559 CGGTAACAGTAA
1 CGGTAACAGTAA
103891571 CGGTAACAGTAA
1 CGGTAACAGTAA
103891583 C
1 C
103891584 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:103892971 original size:3 final size:3
Alignment explanation
Indices: 103892963--103893029 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
103892953 AATTTATTTT
* * *
103892963 TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA T-A TAAA TTA TAA T-T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
*
103893006 TAA T-A GAA TAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA
103893030 ATATCTATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
2 5 0.10
3 40 0.80
4 5 0.10
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:103892987 original size:23 final size:23
Alignment explanation
Indices: 103892961--103893029 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 23
103892951 TTAATTTATT
103892961 TTTAATAATAATAATAATAATAA
1 TTTAATAATAATAATAATAATAA
*
103892984 TTTAATAAT-AT-A-AATTATAA
1 TTTAATAATAATAATAATAATAA
103893004 TTTAATAGAATAATAATAAATAATAA
1 TTTAAT--AATAATAAT-AATAATAA
103893030 ATATCTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 13 0.34
21 1 0.03
22 5 0.13
23 11 0.29
24 1 0.03
26 7 0.18
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (23 bp):
TTTAATAATAATAATAATAATAA
Found at i:103894010 original size:21 final size:21
Alignment explanation
Indices: 103893962--103894011 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
103893952 TAAAAGAAAA
*
103893962 GAAAAGATCTTTTGGAGAGTT
1 GAAAAGGTCTTTTGGAGAGTT
103893983 GAAAAGGTCTTTTGGAGAGTT
1 GAAAAGGTCTTTTGGAGAGTT
103894004 GAAAAGGT
1 GAAAAGGT
103894012 TTAGAGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.04, G:0.32, T:0.30
Consensus pattern (21 bp):
GAAAAGGTCTTTTGGAGAGTT
Found at i:103901405 original size:70 final size:70
Alignment explanation
Indices: 103901266--103901416 Score: 218
Period size: 70 Copynumber: 2.2 Consensus size: 70
103901256 AAAAAAGTAT
* *
103901266 TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACGAAAAAAATGAAAATTTTTTA
1 TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACGAAAAAAATGAAAATATTGTA
103901331 TTGTA
66 TTGTA
*
103901336 TTCTATTGTATTTTATATCAATAATATATACTTATTTACAATCTACGAAAAAAACT-AAAA-ATT
1 TTCTATTGTATTTTACATCAAT-A-ATATACTTATTTACAATCTACGAAAAAAA-TGAAAATATT
103901399 GT-TTGTA
63 GTATTGTA
*
103901406 TTGTATTGTAT
1 TTCTATTGTAT
103901417 ACTTATTTAC
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
70 36 0.49
71 4 0.05
72 33 0.45
73 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (70 bp):
TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACGAAAAAAATGAAAATATTGTA
TTGTA
Found at i:103901460 original size:51 final size:52
Alignment explanation
Indices: 103901362--103901460 Score: 157
Period size: 51 Copynumber: 1.9 Consensus size: 52
103901352 ATCAATAATA
**
103901362 TATACTTATTTACAATCTACGAAAAAAACTAAAAATTGTTTGTATTGTATTG
1 TATACTTATTTACAATCTACGAAAAAAACTAAAAATTGTTTACATTGTATTG
103901414 TATACTTATTTACAATCTACG-AAAAAA-TGAAAAATTGTTTACATTGT
1 TATACTTATTTACAATCTACGAAAAAAACT-AAAAATTGTTTACATTGT
103901461 TTTCTAGGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 1 0.02
51 22 0.50
52 21 0.48
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.39
Consensus pattern (52 bp):
TATACTTATTTACAATCTACGAAAAAAACTAAAAATTGTTTACATTGTATTG
Found at i:103907559 original size:10 final size:10
Alignment explanation
Indices: 103907544--103907591 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
103907534 TAACGTGTTG
103907544 AATTTTAATT
1 AATTTTAATT
*
103907554 AATTTTGTAATA
1 AA-TTT-TAATT
103907566 AATTTTAATT
1 AATTTTAATT
*
103907576 AATTTTGATT
1 AATTTTAATT
*
103907586 TATTTT
1 AATTTT
103907592 CAACAGATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 20 0.62
11 6 0.19
12 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (10 bp):
AATTTTAATT
Found at i:103913842 original size:118 final size:118
Alignment explanation
Indices: 103913634--103913874 Score: 482
Period size: 118 Copynumber: 2.0 Consensus size: 118
103913624 CACATGGGCG
103913634 TGTGTCTCAGCCGTGTGTGGCACACAGTTATGTTACACGGCCGTGTGTCCCCTGATGTTGAATTA
1 TGTGTCTCAGCCGTGTGTGGCACACAGTTATGTTACACGGCCGTGTGTCCCCTGATGTTGAATTA
103913699 AAAATCAAATTAGTATGCTCCACACGGCCTAGCACATGAGCGTGTGACTTGGC
66 AAAATCAAATTAGTATGCTCCACACGGCCTAGCACATGAGCGTGTGACTTGGC
103913752 TGTGTCTCAGCCGTGTGTGGCACACAGTTATGTTACACGGCCGTGTGTCCCCTGATGTTGAATTA
1 TGTGTCTCAGCCGTGTGTGGCACACAGTTATGTTACACGGCCGTGTGTCCCCTGATGTTGAATTA
103913817 AAAATCAAATTAGTATGCTCCACACGGCCTAGCACATGAGCGTGTGACTTGGC
66 AAAATCAAATTAGTATGCTCCACACGGCCTAGCACATGAGCGTGTGACTTGGC
103913870 TGTGT
1 TGTGT
103913875 GGTATAAGTT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 123 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (118 bp):
TGTGTCTCAGCCGTGTGTGGCACACAGTTATGTTACACGGCCGTGTGTCCCCTGATGTTGAATTA
AAAATCAAATTAGTATGCTCCACACGGCCTAGCACATGAGCGTGTGACTTGGC
Found at i:103919800 original size:6 final size:6
Alignment explanation
Indices: 103919784--103919823 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
103919774 TTAGAACATG
* *
103919784 AAAAAT GAAAAT AAAAAT AAAAAT AAAAAT AAAAAC AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
103919824 GAGAAAGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:103939779 original size:33 final size:33
Alignment explanation
Indices: 103939737--103939803 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
103939727 GGATATCGTA
103939737 CCCAAGGGAACCAAAAGTACTAGTAATAACTAT
1 CCCAAGGGAACCAAAAGTACTAGTAATAACTAT
103939770 CCCAAGGGAACCAAAAGTACTAGTAATAACTAT
1 CCCAAGGGAACCAAAAGTACTAGTAATAACTAT
103939803 C
1 C
103939804 TTTTTATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (33 bp):
CCCAAGGGAACCAAAAGTACTAGTAATAACTAT
Found at i:103942767 original size:6 final size:6
Alignment explanation
Indices: 103942738--103942825 Score: 92
Period size: 6 Copynumber: 14.7 Consensus size: 6
103942728 TGTGTCTCTC
* *
103942738 AAAAT- AAAATAA TAAAATA GAAATG AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAAT-A -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
103942787 AAAATA AAAAT- AAAAT- AAAATA AGAGTA AATAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA AAAA
103942826 AATAGGAGGA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
5 15 0.21
6 44 0.63
7 6 0.09
8 5 0.07
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:103958247 original size:21 final size:21
Alignment explanation
Indices: 103958221--103958261 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
103958211 ATGTGGAGTT
103958221 AAATGCAGTTTGCTCAGCCAA
1 AAATGCAGTTTGCTCAGCCAA
*
103958242 AAATGCAGTTTGCTTAGCCA
1 AAATGCAGTTTGCTCAGCCA
103958262 TACTACAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (21 bp):
AAATGCAGTTTGCTCAGCCAA
Found at i:103961628 original size:6 final size:6
Alignment explanation
Indices: 103961612--103961657 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
103961602 GTTTAAAGAC
* * *
103961612 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTCA CTTTTA TCTTTA TTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
103961658 ATCTTCTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:103964195 original size:45 final size:44
Alignment explanation
Indices: 103964095--103964201 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
103964085 TGTCTTTGAC
** * * * *
103964095 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATATATAAT
*
103964139 ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATATTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATA-TATAAT
103964184 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
103964202 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 32 0.58
45 23 0.42
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATATATAAT
Found at i:103966116 original size:65 final size:65
Alignment explanation
Indices: 103966012--103966137 Score: 252
Period size: 65 Copynumber: 1.9 Consensus size: 65
103966002 ACCATAATTT
103966012 ATAAATATTTTTACCCCATGCGTAGCACATTTTTAGATGATTTATCCTTAGATTTGGTGAAATCG
1 ATAAATATTTTTACCCCATGCGTAGCACATTTTTAGATGATTTATCCTTAGATTTGGTGAAATCG
103966077 ATAAATATTTTTACCCCATGCGTAGCACATTTTTAGATGATTTATCCTTAGATTTGGTGAA
1 ATAAATATTTTTACCCCATGCGTAGCACATTTTTAGATGATTTATCCTTAGATTTGGTGAA
103966138 TTCTATACTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (65 bp):
ATAAATATTTTTACCCCATGCGTAGCACATTTTTAGATGATTTATCCTTAGATTTGGTGAAATCG
Found at i:103966400 original size:13 final size:13
Alignment explanation
Indices: 103966382--103966408 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
103966372 GGAGAAATCA
103966382 CACACGGGCGTGT
1 CACACGGGCGTGT
103966395 CACACGGGCGTGT
1 CACACGGGCGTGT
103966408 C
1 C
103966409 CTTGTCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:103972165 original size:14 final size:14
Alignment explanation
Indices: 103972145--103972178 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
103972135 TCTTGTCCCA
*
103972145 ACAATGGGCAGTCC
1 ACAATGGGCAATCC
*
103972159 GCAATGGGCAATCC
1 ACAATGGGCAATCC
103972173 ACAATG
1 ACAATG
103972179 AACTCTCCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.26, T:0.15
Consensus pattern (14 bp):
ACAATGGGCAATCC
Found at i:103973580 original size:2 final size:2
Alignment explanation
Indices: 103973573--103973600 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
103973563 AATAACCTTT
103973573 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
103973601 TATATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:103975472 original size:30 final size:30
Alignment explanation
Indices: 103975414--103975472 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
103975404 ATTTTCGGGC
* **
103975414 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
103975444 CTAGGGGCAAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
103975473 ATATGAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:103975856 original size:46 final size:46
Alignment explanation
Indices: 103975803--103976019 Score: 212
Period size: 46 Copynumber: 4.7 Consensus size: 46
103975793 ACTGTGAGCT
*
103975803 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAAAGTC
* * *
103975849 AGTGTAAGACCATGTTTGGGACATGACATCGG-CATTGAGACG--AGTGC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCA-CGAGATGAAAGT-C
* * * *
103975896 TAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAAAGTC
* * *
103975943 AGTGTAAGACATGTCTGGGACATGCATCGACTACGAGATG--TGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAAAGTC
*
103975987 AGTGCAAGACCATGTCTGGGACATTGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGGC
103976020 ACCTTACCCC
Statistics
Matches: 144, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
44 11 0.08
45 13 0.09
46 67 0.47
47 32 0.22
48 20 0.14
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAAAGTC
Found at i:104028378 original size:22 final size:23
Alignment explanation
Indices: 104028343--104028388 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
104028333 AAGAAAAACT
*
104028343 AGTAAATTAAAATAATAA-AAAA
1 AGTAAATTAAAATAAAAATAAAA
**
104028365 AGTAAATTGCAATAAAAATAAAA
1 AGTAAATTAAAATAAAAATAAAA
104028388 A
1 A
104028389 TGGCTAAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (23 bp):
AGTAAATTAAAATAAAAATAAAA
Found at i:104030447 original size:38 final size:39
Alignment explanation
Indices: 104030384--104030464 Score: 146
Period size: 38 Copynumber: 2.1 Consensus size: 39
104030374 ATTATAATAT
104030384 TGACCATAAATATATAATGTAAAAATTTCAAATGTTGATA
1 TGACCATAAATATATAATG-AAAAATTTCAAATGTTGATA
104030424 TGACCATAAATATATAATG-AAAATTTCAAATGTTGATA
1 TGACCATAAATATATAATGAAAAATTTCAAATGTTGATA
104030462 TGA
1 TGA
104030465 GGTTCATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 22 0.54
40 19 0.46
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (39 bp):
TGACCATAAATATATAATGAAAAATTTCAAATGTTGATA
Found at i:104030738 original size:30 final size:30
Alignment explanation
Indices: 104030702--104030762 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
104030692 ATAAATAAAG
*
104030702 TAGAGATCTACCTCTAATGATTATTAGAAT
1 TAGAGATCTACCTCTAATGACTATTAGAAT
* *
104030732 TAGAGATCTACTTTTAATGACTATTAGAAT
1 TAGAGATCTACCTCTAATGACTATTAGAAT
104030762 T
1 T
104030763 TAAAATACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.39
Consensus pattern (30 bp):
TAGAGATCTACCTCTAATGACTATTAGAAT
Found at i:104032162 original size:47 final size:47
Alignment explanation
Indices: 104032070--104032391 Score: 509
Period size: 47 Copynumber: 6.8 Consensus size: 47
104032060 AAAATAGGAA
*
104032070 GATGTGATGAATGTGAAAGGGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCC
104032119 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
104032166 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
*
104032215 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
*
104032262 GATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
104032309 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
104032356 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
104032392 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 15, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
47 191 0.75
49 65 0.25
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
Found at i:104032209 original size:96 final size:96
Alignment explanation
Indices: 104032070--104032391 Score: 526
Period size: 96 Copynumber: 3.4 Consensus size: 96
104032060 AAAATAGGAA
*
104032070 GATGTGATGAATGTGAAAGGGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
104032135 AAGTGTATATATGTGATAAGGCCTAATGGCC
66 AAGTGTATATATGTGATAAGGCCTAATGGCC
104032166 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
104032231 AAGTGTATATATGTGATAAGGCCTAATAGCC
66 AAGTGTATATATGTGATAAGGCCTAATGGCC
*
104032262 GATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * *
104032325 AAGTGTATATATGTGACAGGGCCGAGTGGCC
66 AAGTGTATATATGTGATAAGGCCTAATGGCC
* * *
104032356 AACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
104032392 TCCCGAAGGG
Statistics
Matches: 212, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 94 0.44
95 1 0.00
96 117 0.55
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (96 bp):
GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAGTGTATATATGTGATAAGGCCTAATGGCC
Found at i:104032303 original size:143 final size:141
Alignment explanation
Indices: 104032070--104032391 Score: 509
Period size: 143 Copynumber: 2.3 Consensus size: 141
104032060 AAAATAGGAA
* *
104032070 GATGTGATGAATGTGAAAGGGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
104032135 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
64 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
104032200 TAAGGCCTAATGGCC
127 CAAGGCCGAATGGCC
104032215 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
* *
104032280 GTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGG
66 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAG
*
104032345 GCCGAGTGGCC
131 GCCGAATGGCC
* * * *
104032356 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
104032392 TCCCGAAGGG
Statistics
Matches: 166, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
141 54 0.33
143 94 0.57
145 18 0.11
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (141 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAG
GCCGAATGGCC
Found at i:104039361 original size:13 final size:13
Alignment explanation
Indices: 104039343--104039369 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
104039333 GGAGTAATCG
104039343 CACACGGGCGTGT
1 CACACGGGCGTGT
104039356 CACACGGGCGTGT
1 CACACGGGCGTGT
104039369 C
1 C
104039370 CCTGCCGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:104043158 original size:40 final size:40
Alignment explanation
Indices: 104043103--104043223 Score: 224
Period size: 40 Copynumber: 3.0 Consensus size: 40
104043093 AAGTTTTTGT
* *
104043103 TCTTAAATGGAACCCTTCTTCAATCACAATGGCAACCATA
1 TCTTAAATAGAACCCTTCTTCAATCCCAATGGCAACCATA
104043143 TCTTAAATAGAACCCTTCTTCAATCCCAATGGCAACCATA
1 TCTTAAATAGAACCCTTCTTCAATCCCAATGGCAACCATA
104043183 TCTTAAATAGAACCCTTCTTCAATCCCAATGGCAACCATA
1 TCTTAAATAGAACCCTTCTTCAATCCCAATGGCAACCATA
104043223 T
1 T
104043224 TCAATTTTTG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.28
Consensus pattern (40 bp):
TCTTAAATAGAACCCTTCTTCAATCCCAATGGCAACCATA
Found at i:104043911 original size:20 final size:20
Alignment explanation
Indices: 104043888--104043960 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
104043878 ATGTGCACTT
*
104043888 ATCTTGTTAGCACTATGGTG
1 ATCTTGATAGCACTATGGTG
* * *
104043908 ATCTTGATAGTACTTTTGT-
1 ATCTTGATAGCACTATGGTG
* * *
104043927 ACTCATGTTAGCACTACGGTG
1 A-TCTTGATAGCACTATGGTG
*
104043948 CTCTTGATAGCAC
1 ATCTTGATAGCAC
104043961 ATTTGTGCCC
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
19 1 0.03
20 37 0.97
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
ATCTTGATAGCACTATGGTG
Found at i:104045885 original size:47 final size:47
Alignment explanation
Indices: 104045832--104045961 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
104045822 ACAATCGATA
*
104045832 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATC-CTGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCT-G
* *
104045879 AGTACCTATACCATGGCCCGTAACCAAATCAAGGTAACTCCTCTCTG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
* * *
104045926 AATACCTATACTATGGCCCATAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
104045962 TTATTTGCAC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
47 73 0.97
48 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
Found at i:104053690 original size:18 final size:18
Alignment explanation
Indices: 104053667--104053718 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
104053657 TTCAGCATGC
*
104053667 ATATATATAATGATATAT
1 ATATATATAATCATATAT
* *
104053685 ATATATATTATCATATGT
1 ATATATATAATCATATAT
*
104053703 ATATATATTATCATAT
1 ATATATATAATCATAT
104053719 CTTTGCAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (18 bp):
ATATATATAATCATATAT
Found at i:104056499 original size:2 final size:2
Alignment explanation
Indices: 104056492--104056518 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
104056482 GTGCAATTGT
104056492 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
104056519 GAGTCTTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104058530 original size:69 final size:69
Alignment explanation
Indices: 104058419--104058683 Score: 300
Period size: 69 Copynumber: 3.8 Consensus size: 69
104058409 AAGAGGTTCT
* * * ** *
104058419 AGGTGTAAGGCCATAGCTTGACTATGGTAACCAATAGAGTCCATCAGGACAGTGAACACGAGGAT
1 AGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCCATCAGGACAGTAAACACGAGGAT
104058484 TTCA
66 TTCA
* * *
104058488 AGGTGTAAGACCATAGTTCGGCTATGACAACCAATAGAGTCCACCAGGACAGTAAACACGAAGAT
1 AGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCCATCAGGACAGTAAACACGAGGAT
104058553 TTCA
66 TTCA
** * * * *
104058557 AGGTGTAATTCCATAGCTCGGCTATGGA-AACCAATAAAGTTCATC-GAGACAATAAACACGGGG
1 AGGTGTAAGACCATAGCTCGGCTAT-GACAACCAATAGAGTCCATCAG-GACAGTAAACACGAGG
104058620 ATTTCA
64 ATTTCA
* * * * ** *
104058626 ATGCGTAAGACCATGGCTCAGCTATGACAACCAATAGAGTCTGTCAGGACATTAAACA
1 AGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCCATCAGGACAGTAAACA
104058684 TTGGTTCATA
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
68 3 0.02
69 157 0.96
70 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (69 bp):
AGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCCATCAGGACAGTAAACACGAGGAT
TTCA
Found at i:104068064 original size:56 final size:56
Alignment explanation
Indices: 104067978--104068089 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
104067968 CAAGAAGCTG
104067978 TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
1 TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
104068034 TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
1 TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
104068090 CATCCATCTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (56 bp):
TTGATATAGTTCAGAATCATTCACGAAGTGTAAGTTTATGCCTCAATATTTTATGT
Found at i:104072317 original size:3 final size:3
Alignment explanation
Indices: 104072309--104072334 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
104072299 GTAAGAGAAG
104072309 AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AG
104072335 AAACAACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.35, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:104072345 original size:6 final size:6
Alignment explanation
Indices: 104072336--104072378 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
104072326 CAGCAGCAGA
* * *
104072336 AACAAC AACACC AACACC AACACC AACATC AACCACC ACCACC
1 AACACC AACACC AACACC AACACC AACACC AA-CACC AACACC
104072379 TTGTGGGTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.02
Consensus pattern (6 bp):
AACACC
Found at i:104072581 original size:24 final size:24
Alignment explanation
Indices: 104072529--104072583 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
104072519 GAGCGGTGAG
* *
104072529 GGAACAGGAAGGGATACCAGAGCTA
1 GGAAGAGGAAGGGATACCAAAGC-A
104072554 -GAAGAGGAAGGAGATACCAAAG-A
1 GGAAGAGGAAGG-GATACCAAAGCA
104072577 GGAAGAG
1 GGAAGAG
104072584 AAAAAAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 16 0.62
25 9 0.35
ACGTcount: A:0.45, C:0.11, G:0.38, T:0.05
Consensus pattern (24 bp):
GGAAGAGGAAGGGATACCAAAGCA
Found at i:104077811 original size:2 final size:2
Alignment explanation
Indices: 104077804--104077829 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
104077794 ATACAGAAAA
104077804 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
104077830 GGTTGGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:104081167 original size:34 final size:34
Alignment explanation
Indices: 104081124--104081191 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
104081114 CAAATTTAGA
104081124 TTCTTTAAGAAAAATCTTAACTCAATCTATCAGC
1 TTCTTTAAGAAAAATCTTAACTCAATCTATCAGC
104081158 TTCTTTAAGAAAAATCTTAACTCAATCTATCAGC
1 TTCTTTAAGAAAAATCTTAACTCAATCTATCAGC
104081192 AATCATCGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (34 bp):
TTCTTTAAGAAAAATCTTAACTCAATCTATCAGC
Found at i:104092415 original size:17 final size:17
Alignment explanation
Indices: 104092393--104092427 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
104092383 CTATCTTCAA
104092393 GCCTCCTTATTTCAATG
1 GCCTCCTTATTTCAATG
104092410 GCCTCCTTATTTCAATG
1 GCCTCCTTATTTCAATG
104092427 G
1 G
104092428 TGCAAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.29, G:0.14, T:0.40
Consensus pattern (17 bp):
GCCTCCTTATTTCAATG
Found at i:104093065 original size:21 final size:21
Alignment explanation
Indices: 104093039--104093083 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
104093029 AATATTTTTA
104093039 TAAATATTTAAGGAATGTCAT
1 TAAATATTTAAGGAATGTCAT
104093060 TAAATATTTAAGGAATGTCAT
1 TAAATATTTAAGGAATGTCAT
104093081 TAA
1 TAA
104093084 GGTGGTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
TAAATATTTAAGGAATGTCAT
Found at i:104094615 original size:32 final size:32
Alignment explanation
Indices: 104094579--104094643 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
104094569 TGTATGCATT
104094579 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
104094611 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
104094643 T
1 T
104094644 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:104101399 original size:17 final size:17
Alignment explanation
Indices: 104101379--104101413 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
104101369 TATATTACTT
104101379 TTATTTTAATATAAATA
1 TTATTTTAATATAAATA
* *
104101396 TTATTTTTATATACATA
1 TTATTTTAATATAAATA
104101413 T
1 T
104101414 AAACCTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATTTTAATATAAATA
Found at i:104101413 original size:23 final size:22
Alignment explanation
Indices: 104101365--104101431 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
104101355 TAAAAAAATT
* * *
104101365 TATATATATTACTTTTATTTTAA
1 TATAAATATTATTTTTA-TATAA
104101388 TATAAATATTATTTTTATATACA
1 TATAAATATTATTTTTATATA-A
**
104101411 TATAAACCTTATTTATTATAT
1 TATAAATATTATTT-TTATAT
104101432 TATTATTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 3 0.08
23 28 0.76
24 6 0.16
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (22 bp):
TATAAATATTATTTTTATATAA
Found at i:104101436 original size:8 final size:8
Alignment explanation
Indices: 104101419--104101496 Score: 56
Period size: 8 Copynumber: 9.5 Consensus size: 8
104101409 CATATAAACC
104101419 TTAT-TTA
1 TTATATTA
104101426 TTATATTA
1 TTATATTA
*
104101434 TTATTTTCA
1 TTATATT-A
104101443 -TATATTA
1 TTATATTA
104101450 TTTTATATTTA
1 --TTATA-TTA
104101461 TATATATTA
1 T-TATATTA
104101470 TTATATTA
1 TTATATTA
104101478 TT-TATT-
1 TTATATTA
*
104101484 TTAAATTA
1 TTATATTA
104101492 CTTAT
1 -TTAT
104101497 TATATAATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
6 2 0.04
7 12 0.21
8 23 0.40
9 9 0.16
10 8 0.14
11 3 0.05
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (8 bp):
TTATATTA
Found at i:104101450 original size:13 final size:12
Alignment explanation
Indices: 104101426--104101486 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
104101416 ACCTTATTTA
104101426 TTATATTATTATT
1 TTATA-TATTATT
104101439 TTCATATATTATT
1 TT-ATATATTATT
104101452 TTATAT-TTA--
1 TTATATATTATT
104101461 -TATATATTATT
1 TTATATATTATT
*
104101472 ATAT-TATTTATT
1 TTATATA-TTATT
104101484 TTA
1 TTA
104101487 AATTACTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
8 5 0.12
9 3 0.07
11 5 0.12
12 14 0.34
13 11 0.27
14 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATATATTATT
Found at i:104101452 original size:28 final size:30
Alignment explanation
Indices: 104101419--104101483 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
104101409 CATATAAACC
*
104101419 TTATTTATTATA-TTAT-TATTTTCA-TATA
1 TTATTTATTATATTTATATATATT-ATTATA
104101447 TTATTT--TATATTTATATATATTATTATA
1 TTATTTATTATATTTATATATATTATTATA
104101475 TTATTTATT
1 TTATTTATT
104101484 TTAAATTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
26 4 0.13
27 5 0.16
28 21 0.68
30 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (30 bp):
TTATTTATTATATTTATATATATTATTATA
Found at i:104101463 original size:18 final size:18
Alignment explanation
Indices: 104101420--104101476 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
104101410 ATATAAACCT
104101420 TATTTAT-TATATTATTA
1 TATTTATATATATTATTA
104101437 T-TTTCATATATTATT-TTA
1 TATTT-ATATA-TATTATTA
104101455 TATTTATATATATTATTA
1 TATTTATATATATTATTA
104101473 TATT
1 TATT
104101477 ATTTATTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.09
17 7 0.20
18 18 0.51
19 7 0.20
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTATATATATTATTA
Found at i:104101496 original size:26 final size:27
Alignment explanation
Indices: 104101443--104101506 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
104101433 ATTATTTTCA
*
104101443 TATATTATTTTATATTTATATATATTAT
1 TATATTA-TTTATATTTAAATATATTAT
104101471 TATATTATTTAT-TTTAAAT-TACTTAT
1 TATATTATTTATATTTAAATATA-TTAT
*
104101497 TATATAATTT
1 TATATTATTT
104101507 TTAAAATTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 2 0.06
26 19 0.58
27 5 0.15
28 7 0.21
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
TATATTATTTATATTTAAATATATTAT
Found at i:104107194 original size:36 final size:36
Alignment explanation
Indices: 104107147--104107219 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
104107137 CATAGAAAAC
104107147 TAGAACATGTTAGTATGAGCATATTGCACAAATTAG
1 TAGAACATGTTAGTATGAGCATATTGCACAAATTAG
104107183 TAGAACATGTTAGTATGAGCATATTGCACAAATTAG
1 TAGAACATGTTAGTATGAGCATATTGCACAAATTAG
104107219 T
1 T
104107220 TTAAAATGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (36 bp):
TAGAACATGTTAGTATGAGCATATTGCACAAATTAG
Found at i:104110152 original size:20 final size:19
Alignment explanation
Indices: 104110128--104110187 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 19
104110118 TTGATAGCTT
104110128 TTAAAAATTATCGATACCTGA
1 TTAAAAA-TATCGATACCT-A
*
104110149 -TAAAAAGTATTGATACCTA
1 TTAAAAA-TATCGATACCTA
104110168 TTTAAAAATATCGATACCTA
1 -TTAAAAATATCGATACCTA
104110188 CCGGGTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 1 0.03
20 27 0.79
21 6 0.18
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.33
Consensus pattern (19 bp):
TTAAAAATATCGATACCTA
Found at i:104116455 original size:26 final size:26
Alignment explanation
Indices: 104116426--104116478 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
104116416 AATAGGTAAG
104116426 TTGGTATGAATATATGTGATAATAGT
1 TTGGTATGAATATATGTGATAATAGT
104116452 TTGGTATGAATATATGTGATAATAGT
1 TTGGTATGAATATATGTGATAATAGT
104116478 T
1 T
104116479 AATACCTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (26 bp):
TTGGTATGAATATATGTGATAATAGT
Found at i:104117269 original size:26 final size:26
Alignment explanation
Indices: 104117230--104117279 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
104117220 TTGAGTTAAT
*
104117230 AAAATTCTCTTTGATTTTTCTTTTTA
1 AAAATTCTCTTTGACTTTTCTTTTTA
104117256 AAAATT-TCTCTTGACTTTTCTTTT
1 AAAATTCTCT-TTGACTTTTCTTTT
104117280 AGAAGAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.60
Consensus pattern (26 bp):
AAAATTCTCTTTGACTTTTCTTTTTA
Found at i:104119782 original size:7 final size:7
Alignment explanation
Indices: 104119770--104119797 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
104119760 CTGCTATTTG
104119770 GAATCCT
1 GAATCCT
104119777 GAATCCT
1 GAATCCT
104119784 GAATCCT
1 GAATCCT
104119791 GAATCCT
1 GAATCCT
104119798 TATTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (7 bp):
GAATCCT
Found at i:104122218 original size:7 final size:7
Alignment explanation
Indices: 104122206--104122230 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
104122196 TTATGGGTAT
104122206 AATTTTA
1 AATTTTA
104122213 AATTTTA
1 AATTTTA
104122220 AATTTTA
1 AATTTTA
104122227 AATT
1 AATT
104122231 AATTTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:104130004 original size:4 final size:4
Alignment explanation
Indices: 104129977--104130009 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
104129967 TCATGCATGC
*
104129977 ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
104130010 CAAATTAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:104132664 original size:25 final size:25
Alignment explanation
Indices: 104132634--104132692 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
104132624 TAGACATTTA
104132634 TTAAAGAATAAGAAGATTCTTTCAT
1 TTAAAGAATAAGAAGATTCTTTCAT
104132659 TTAAAGAATAAGAAGATTCTTTCAT
1 TTAAAGAATAAGAAGATTCTTTCAT
104132684 TTAAAGAAT
1 TTAAAGAAT
104132693 TCTTAGGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (25 bp):
TTAAAGAATAAGAAGATTCTTTCAT
Found at i:104140332 original size:29 final size:31
Alignment explanation
Indices: 104140300--104140363 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
104140290 GATATTTAAT
104140300 AATAAA-TT-TAA-AAT-ATAATATATAATAAA
1 AATAAATTTATAAGAATAATAAT-TAT-ATAAA
*
104140329 AATATATTTATAAGAATAATAATTATATAAA
1 AATAAATTTATAAGAATAATAATTATATAAA
104140360 AATA
1 AATA
104140364 TAAAATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
29 5 0.17
30 2 0.07
31 12 0.40
32 6 0.20
33 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (31 bp):
AATAAATTTATAAGAATAATAATTATATAAA
Found at i:104140340 original size:17 final size:17
Alignment explanation
Indices: 104140309--104140365 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
104140299 TAATAAATTT
*
104140309 AAAATATAATATATAATA
1 AAAATAT-ATTTATAATA
*
104140327 AAAATATATTTATAAGA
1 AAAATATATTTATAATA
*
104140344 ATAATA-A-TTAT-ATA
1 AAAATATATTTATAATA
104140358 AAAATATA
1 AAAATATA
104140366 AAATATATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 7 0.21
15 5 0.15
16 1 0.03
17 13 0.39
18 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATATTTATAATA
Found at i:104141116 original size:19 final size:19
Alignment explanation
Indices: 104141092--104141182 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
104141082 AATTATATCT
*
104141092 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
104141111 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
104141129 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
104141146 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
104141165 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
104141183 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:104141150 original size:35 final size:37
Alignment explanation
Indices: 104141092--104141182 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
104141082 AATTATATCT
*
104141092 TCTAAGATTGTATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
104141129 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
104141165 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
104141183 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:104141161 original size:14 final size:15
Alignment explanation
Indices: 104141106--104141161 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
104141096 AGATTGTATA
104141106 TCATATCTAAGATTG
1 TCATATCTAAGATTG
104141121 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
104141139 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
104141156 -CATATC
1 TCATATC
104141162 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:104143154 original size:24 final size:22
Alignment explanation
Indices: 104143127--104143171 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
104143117 ATGTAACATA
*
104143127 TATTTTTAAATGATTACTATATTT
1 TATTATTAAAT-ATTA-TATATTT
*
104143151 TATTATTAAGTATTATATATT
1 TATTATTAAATATTATATATT
104143172 ATCAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 4 0.21
24 9 0.47
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (22 bp):
TATTATTAAATATTATATATTT
Found at i:104163446 original size:132 final size:132
Alignment explanation
Indices: 104163208--104163473 Score: 360
Period size: 132 Copynumber: 2.0 Consensus size: 132
104163198 AACCTATGAA
* ** * *
104163208 CTTACTAAACATTCAAAATGCTTCTTCTGTTTTGTTTTCTGTTTCTGTAGTGGTTTTTTTGCGAT
1 CTTACTAAACATTCAAAATGCTTCTTCTATTTCATTTTCTGTTTCTATAGTGGTTATTTTGCGAT
* * * *
104163273 CCATGTCGATTGGATCACCTTGGAGCTTAAACTACCTAGCTTCTGACTCGATAGACTTTTAAATG
66 ACACGTCGATTGGATCACCTTGGAGCTCAAACTACCTAGCTTCTGACTCGATAGACTTTTAAACG
104163338 TT
131 TT
* *
104163340 CTTACTAAGCATTCAAAATGCTTAC-TCTATTTCATTTTCTGTTTCTATAGTTGTTATTTTGCG-
1 CTTACTAAACATTCAAAATGCTT-CTTCTATTTCATTTTCTGTTTCTATAGTGGTTATTTTGCGA
*
104163403 TAACACGTCGATTGGATCA-CTTCGGAGCTCAAACTATCC-AGCTTCTGACTCGGTAGACTTTTA
65 T-ACACGTCGATTGGATCACCTT-GGAGCTCAAACTA-CCTAGCTTCTGACTCGATAGACTTTTA
104163466 AACGTT
127 AACGTT
104163472 CT
1 CT
104163474 GGACTCAGTT
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
131 4 0.03
132 111 0.94
133 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (132 bp):
CTTACTAAACATTCAAAATGCTTCTTCTATTTCATTTTCTGTTTCTATAGTGGTTATTTTGCGAT
ACACGTCGATTGGATCACCTTGGAGCTCAAACTACCTAGCTTCTGACTCGATAGACTTTTAAACG
TT
Found at i:104164015 original size:20 final size:19
Alignment explanation
Indices: 104163947--104164015 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 19
104163937 TGCAAATTTG
104163947 GTATCGATAC-TAGTATAAA
1 GTATCGATACTTA-TATAAA
*
104163966 GTATCGATACTTAATCCTAAA
1 GTATCGATACTT-AT-ATAAA
**
104163987 G-ATTAATACTTATATAAAA
1 GTATCGATACTTATAT-AAA
104164006 GTATCGATAC
1 GTATCGATAC
104164016 AAATTAACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 1 0.03
19 16 0.41
20 16 0.41
21 6 0.15
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (19 bp):
GTATCGATACTTATATAAA
Found at i:104165683 original size:19 final size:20
Alignment explanation
Indices: 104165659--104165705 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
104165649 TTAAGGTTAG
* *
104165659 TTAATTAAGCTTATTTA-AA
1 TTAATTAAGATTAATTAGAA
*
104165678 TTAATTAAGATTAATTAGAT
1 TTAATTAAGATTAATTAGAA
104165698 TTAATTAA
1 TTAATTAA
104165706 ATATTTAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (20 bp):
TTAATTAAGATTAATTAGAA
Found at i:104165690 original size:10 final size:10
Alignment explanation
Indices: 104165659--104165705 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
104165649 TTAAGGTTAG
*
104165659 TTAATTAAGC
1 TTAATTAAGA
*
104165669 TTATTTAA-A
1 TTAATTAAGA
104165678 TTAATTAAGA
1 TTAATTAAGA
104165688 TTAATT-AGA
1 TTAATTAAGA
104165697 TTTAATTAA
1 -TTAATTAA
104165706 ATATTTAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 10 0.32
10 20 0.65
11 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (10 bp):
TTAATTAAGA
Found at i:104168198 original size:26 final size:26
Alignment explanation
Indices: 104168158--104168213 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
104168148 ATATAATAAT
104168158 AATATAATAAATAATACA-AATTTAAA
1 AATATAATAAATAATA-ATAATTTAAA
** *
104168184 AATATAATACTTAATAATAATTTCAA
1 AATATAATAAATAATAATAATTTAAA
104168210 AATA
1 AATA
104168214 GCATTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (26 bp):
AATATAATAAATAATAATAATTTAAA
Found at i:104181615 original size:90 final size:90
Alignment explanation
Indices: 104181462--104181747 Score: 360
Period size: 90 Copynumber: 3.2 Consensus size: 90
104181452 ACTATTATTC
* * *
104181462 AAAATGTTCATATTATTTTTGTATCC-GTAAATCAATTTTAGTCTGTATTATTTGTTGGTCGAAT
1 AAAATGTTCGTATTATTTTTGCA-CCTGTAAATAAATTTTAGTCTGTATTATTTGTTGGTCGAAT
*
104181526 TTTATATTTTCGTATATCAGTTTTGT
65 TTTATATTTTCGTATATCAATTTTGT
* * ** * *
104181552 AAAATGTTTGTATTATTTTTGGATTTGTAAA-AATATTTTAGTCTGTATTATTTGTCGATCGAAT
1 AAAATGTTCGTATTATTTTTGCACCTGTAAATAA-ATTTTAGTCTGTATTATTTGTTGGTCGAAT
*
104181616 TTTATATTTTCGTATATCAATTTTAT
65 TTTATATTTTCGTATATCAATTTTGT
* * * *
104181642 AAAATGTTCGTATTATTTTTGCACCTGTAAATAAAATTTAGTCGGTATTATCTGTTGGTTGAATT
1 AAAATGTTCGTATTATTTTTGCACCTGTAAATAAATTTTAGTCTGTATTATTTGTTGGTCGAATT
* * *
104181707 ATATATTTTTGTATATTAATTTTGT
66 TTATATTTTCGTATATCAATTTTGT
* *
104181732 AGAATATTCGTATTAT
1 AAAATGTTCGTATTAT
104181748 CTTGTATATG
Statistics
Matches: 167, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
89 1 0.01
90 164 0.98
91 2 0.01
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.51
Consensus pattern (90 bp):
AAAATGTTCGTATTATTTTTGCACCTGTAAATAAATTTTAGTCTGTATTATTTGTTGGTCGAATT
TTATATTTTCGTATATCAATTTTGT
Found at i:104184504 original size:54 final size:53
Alignment explanation
Indices: 104184393--104184505 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 53
104184383 TTTTTATTGC
* * *
104184393 TTTTTAATTAAAATCTATCTATTCAATTATTTTTTATTTATACTTTAAATAAT
1 TTTTTAATTAAAATCGATCTACTCAATTATTTTTTATTTATACTTTAAATAAA
* * * *
104184446 TTTTTAATTAAAATCGATCTACTCGATTATTTTTTAATTTATGCTTTGATTAAA
1 TTTTTAATTAAAATCGATCTACTCAATTATTTTTT-ATTTATACTTTAAATAAA
104184500 TTTTTA
1 TTTTTA
104184506 TTCTTTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
53 32 0.62
54 20 0.38
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.56
Consensus pattern (53 bp):
TTTTTAATTAAAATCGATCTACTCAATTATTTTTTATTTATACTTTAAATAAA
Found at i:104184513 original size:63 final size:63
Alignment explanation
Indices: 104184445--104184965 Score: 474
Period size: 64 Copynumber: 8.6 Consensus size: 63
104184435 CTTTAAATAA
* * * * *
104184445 TTTTTTAATTAAAATCGATCTACTCGATTATTTTTTAATTTATGCTTTGATTAAATTTTTATTC
1 TTTTTTAATTAAAATCTATCTATTCAATTATTTTTTAATTTATACTTTAATT-AATTTTTATTC
* * * *
104184509 TTTTTTTAATAAAAATATATCTATTCGATTATTTTTT-ATTTATACTTAAATTAATTTTTTATTC
1 -TTTTTTAATTAAAATCTATCTATTCAATTATTTTTTAATTTATACTTTAATTAA-TTTTTATTC
* * * *
104184573 TTTTTTAATAAAAATATATCTATTCATTTATTTTTTAATTTATACTTTAATTGATTTTTTATTC
1 TTTTTTAATTAAAATCTATCTATTCAATTATTTTTTAATTTATACTTTAATT-AATTTTTATTC
** **
104184637 TTTTTTAATTAAAATCTATCTATTTGATTA-CATTTAATTTATACTTTAATT-A-----A-T-
1 TTTTTTAATTAAAATCTATCTATTCAATTATTTTTTAATTTATACTTTAATTAATTTTTATTC
* * *
104184691 TTTTTTAATT--AA--TATATATTCAATTATTTTATTTATAGTTTA-A--TTAATT-TTTTATTC
1 TTTTTTAATTAAAATCTATCTATTCAATTA-TTT-TTTA-A-TTTATACTTTAATTAATTT-TTA
*
104184748 CT-
61 TTC
* *
104184750 TTTT--AATTAAAATCTATCTATTCAATTA-TTTTTAATATATACTTTAATTACTTTTTTTATTC
1 TTTTTTAATTAAAATCTATCTATTCAATTATTTTTTAATTTATACTTTAATTA--ATTTTTATTC
* *
104184812 TTTTTTAATTAAAATCTATCTATTCCATTATTTTTTAATTTATACTTTAAATAATTTTT-TTC
1 TTTTTTAATTAAAATCTATCTATTCAATTATTTTTTAATTTATACTTTAATTAATTTTTATTC
* *
104184874 -TTTTTAATTAAAA--TA--TATTCAATTATTTTTT-ATTTATGCCTTAATTAATTTTT-TTC
1 TTTTTTAATTAAAATCTATCTATTCAATTATTTTTTAATTTATACTTTAATTAATTTTTATTC
*
104184930 TTTTTTAATT-AAATCTATCTATTCAATTGTTTTTTA
1 TTTTTTAATTAAAATCTATCTATTCAATTATTTTTTA
104184966 TCTAAATTTG
Statistics
Matches: 382, Mismatches: 39, Indels: 74
0.77 0.08 0.15
Matches are distributed among these distances:
50 11 0.03
52 8 0.02
53 4 0.01
54 12 0.03
55 5 0.01
56 29 0.08
57 30 0.08
58 6 0.02
59 17 0.04
60 15 0.04
61 29 0.08
62 11 0.03
63 60 0.16
64 92 0.24
65 53 0.14
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (63 bp):
TTTTTTAATTAAAATCTATCTATTCAATTATTTTTTAATTTATACTTTAATTAATTTTTATTC
Found at i:104184540 original size:118 final size:115
Alignment explanation
Indices: 104184356--104184928 Score: 483
Period size: 111 Copynumber: 4.8 Consensus size: 115
104184346 TATCTATACA
* *
104184356 ATTTTTTTATTTATACTTAAATTAATATTTTTATTGC-TTTTTAATTAAAATCTATCTATTCAAT
1 ATTTTTTAATTTATACTTTAATTAA-ATTTTTATT-CTTTTTTAATTAAAATCTATCTATTCAAT
* *
104184420 TATTTTTTATTTATACTTTAAATAA-TTTTTTAATTAAAATCGATCTACTCGATT
64 TATTTTTAATTTATACTTTAAATAATTTTTTTAATTAAAAT--ATCTATTC-ATT
* * * * *
104184474 ATTTTTTAATTTATGCTTTGATTAAATTTTTATTCTTTTTTTAATAAAAATATATCTATTCGATT
1 ATTTTTTAATTTATACTTTAATTAAATTTTTATTC-TTTTTTAATTAAAATCTATCTATTCAATT
* *
104184539 ATTTTTTATTTATAC-TTAAATTAATTTTTTATTCTTTTTTAATAAAAATATATCTATTCATTT
65 ATTTTTAATTTATACTTTAAA-T-A------A-T-TTTTTTAAT-TAAA-ATATCTATTCA-TT
* * **
104184602 ATTTTTTAATTTATACTTTAATTGATTTTTTATTCTTTTTTAATTAAAATCTATCTATTTGATTA
1 ATTTTTTAATTTATACTTTAATTAAATTTTTATTCTTTTTTAATTAAAATCTATCTATTCAATTA
** * *
104184667 CATTTAATTTATACTTTAATTAATTTTTTTAATT--AATATATATTCA--
66 TTTTTAATTTATACTTTAAATAATTTTTTTAATTAAAATATCTATTCATT
* * *
104184713 ATTATTTT-ATTTATAGTTTAATTAATTTTTTATTCCTTTTTAATTAAAATCTATCTATTCAATT
1 ATT-TTTTAATTTATACTTTAATTAAATTTTTATTCTTTTTTAATTAAAATCTATCTATTCAATT
* *
104184777 ATTTTTAATATATACTTTAATTACTTTTTTTATTCTTTTTTAATTAAAATCTATCTATTCCATT
65 ATTTTTAATTTATACTTTAA--A-------TAAT-TTTTTTAATTAAAA--TATCTATT-CATT
*
104184841 ATTTTTTAATTTATACTTTAAAT-AATTTTT-TTC-TTTTTAATTAAAA--TA--TATTCAATTA
1 ATTTTTTAATTTATACTTTAATTAAATTTTTATTCTTTTTTAATTAAAATCTATCTATTCAATTA
* * * *
104184899 TTTTTTATTTATGCCTTAATTAATTTTTTT
66 TTTTTAATTTATACTTTAAATAATTTTTTT
104184929 CTTTTTTAAT
Statistics
Matches: 377, Mismatches: 42, Indels: 79
0.76 0.08 0.16
Matches are distributed among these distances:
111 77 0.20
112 7 0.02
114 10 0.03
115 1 0.00
116 1 0.00
117 14 0.04
118 71 0.19
119 2 0.01
120 4 0.01
121 35 0.09
123 4 0.01
125 21 0.06
126 6 0.02
127 50 0.13
128 69 0.18
129 3 0.01
130 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (115 bp):
ATTTTTTAATTTATACTTTAATTAAATTTTTATTCTTTTTTAATTAAAATCTATCTATTCAATTA
TTTTTAATTTATACTTTAAATAATTTTTTTAATTAAAATATCTATTCATT
Found at i:104184544 original size:30 final size:29
Alignment explanation
Indices: 104184510--104184611 Score: 82
Period size: 30 Copynumber: 3.3 Consensus size: 29
104184500 TTTTTATTCT
104184510 TTTTTTAATAAAAATATATCTATTCGATTA
1 TTTTTTAATAAAAATATATCTATTC-ATTA
* * * *
104184540 TTTTTTATTTATACTTAAAT-TAAT-TTTTTATTC
1 TTTTTTA---ATA--AAAATAT-ATCTATTCATTA
104184573 TTTTTTAATAAAAATATATCTATTCATTTA
1 TTTTTTAATAAAAATATATCTATTCA-TTA
104184603 TTTTTTAAT
1 TTTTTTAAT
104184612 TTATACTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
28 6 0.11
29 5 0.09
30 21 0.38
33 13 0.24
34 4 0.07
35 6 0.11
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTTTTAATAAAAATATATCTATTCATTA
Found at i:104184702 original size:29 final size:28
Alignment explanation
Indices: 104184670--104184725 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
104184660 TTGATTACAT
* *
104184670 TTAATTTATACTTTAATTAATTTT-TTTAA
1 TTAATATATA-TTCAATT-ATTTTATTTAA
104184699 TTAATATATATTCAATTATTTTATTTA
1 TTAATATATATTCAATTATTTTATTTA
104184726 TAGTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.21
28 10 0.42
29 9 0.38
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTAATATATATTCAATTATTTTATTTAA
Found at i:104184739 original size:24 final size:23
Alignment explanation
Indices: 104184668--104184746 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
104184658 ATTTGATTAC
*
104184668 ATTTAATTTATACTTTAATTAATT
1 ATTTTATTTATA-TTTAATTAATT
* * *
104184692 TTTTTAATTA-ATATATATTCAATT
1 ATTTTATTTATATTTA-ATT-AATT
104184716 ATTTTATTTATAGTTTAATTAATT
1 ATTTTATTTATA-TTTAATTAATT
104184740 -TTTTATT
1 ATTTTATT
104184747 CCTTTTTAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
22 3 0.07
23 11 0.25
24 23 0.52
25 4 0.09
26 3 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (23 bp):
ATTTTATTTATATTTAATTAATT
Found at i:104184770 original size:175 final size:179
Alignment explanation
Indices: 104184530--104184965 Score: 577
Period size: 175 Copynumber: 2.4 Consensus size: 179
104184520 AAAATATATC
* * * * *
104184530 TATTCGATTATTTTTTATTTATACTTAAATTAATTTTTTATTCTTTTTTAATAAAAATATATCTA
1 TATTCAATTA-TTTTTATTTATAGTTTAATTAATTTTTTATTCTTTTTTAATTAAAATCTATCTA
* *
104184595 TTCATTTATTTTTTAATTTATACTTTAATTGA-TTTTTTATTCTTTTTTAATTAAAATCTATCTA
65 TTCAATTATTTTTTAATATATACTTTAATT-ACTTTTTTATTCTTTTTTAATTAAAATCTATCTA
** * *
104184659 TTTGATTA-CATTTAATTTATACTTTAATTAA-TT-TTTTTAATTAATATA
129 TTCCATTATCATTTAATTTATACTTTAAATAATTTCTTTTTAATTAAAATA
*
104184707 TATTCAATTA-TTTTATTTATAGTTTAATTAATTTTTTATTCCTTTTTAATTAAAATCTATCTAT
1 TATTCAATTATTTTTATTTATAGTTTAATTAATTTTTTATTCTTTTTTAATTAAAATCTATCTAT
104184771 TCAATTA-TTTTTAATATATACTTTAATTACTTTTTTTATTCTTTTTTAATTAAAATCTATCTAT
66 TCAATTATTTTTTAATATATACTTTAATTAC-TTTTTTATTCTTTTTTAATTAAAATCTATCTAT
**
104184835 TCCATTATTTTTTAATTTATACTTTAAATAATTTTTTTCTTTTTAATTAAAATA
130 TCCATTATCATTTAATTTATACTTTAAATAA----TTTCTTTTTAATTAAAATA
*
104184889 TATTCAATTATTTTTTATTTAT-GCCTTAATTAA-TTTTT-TTCTTTTTTAATT-AAATCTATCT
1 TATTCAATTA-TTTTTATTTATAG-TTTAATTAATTTTTTATTCTTTTTTAATTAAAATCTATCT
*
104184950 ATTCAATTGTTTTTTA
64 ATTCAATTATTTTTTA
104184966 TCTAAATTTG
Statistics
Matches: 229, Mismatches: 17, Indels: 21
0.86 0.06 0.08
Matches are distributed among these distances:
173 1 0.00
174 20 0.09
175 93 0.41
176 20 0.09
177 9 0.04
181 20 0.09
182 42 0.18
183 6 0.03
184 18 0.08
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (179 bp):
TATTCAATTATTTTTATTTATAGTTTAATTAATTTTTTATTCTTTTTTAATTAAAATCTATCTAT
TCAATTATTTTTTAATATATACTTTAATTACTTTTTTATTCTTTTTTAATTAAAATCTATCTATT
CCATTATCATTTAATTTATACTTTAAATAATTTCTTTTTAATTAAAATA
Found at i:104184941 original size:239 final size:238
Alignment explanation
Indices: 104184356--104184928 Score: 625
Period size: 239 Copynumber: 2.4 Consensus size: 238
104184346 TATCTATACA
* * * *
104184356 ATTTTTTTATTTATAC-TTAAATTAATATTTTTATTGC-TTTTTAATTAAAATCTATCT-ATTCA
1 ATTTTTTAATTTATACTTTAAA-TGA-ATTTTTATT-CTTTTTTAATTAAAATATATCTAATT-G
* * * * * *
104184418 ATTATTTTTTATTTATACTTTAAATAA-TTTTTTAATTAAAATCGATCTACTCGATTATTTTTTA
62 ATTA--TTTAATTTATACCTTAATTAATTTTTTTAATT--AAT--ATATATTCAATTA--TTTTA
* * * *
104184482 ATTTATGCTTTGATTAAATTTTTATTCTTTTTTTAATAAAAATATATCTATTCGATTATTTTTTA
119 ATTTATGCTTTAATTAAATTTTTATTCTCTTTTTAATAAAAATATATCTATTCAATTATTTTTAA
*
104184547 TTTATACTTAAATTAATTTTTTATTCTTTTTTAATAAAAATATATCTATTCATTT
184 TATATACTTAAATTAATTTTTTATTCTTTTTTAATAAAAATATATCTATTCATTT
* * * *
104184602 ATTTTTTAATTTATACTTTAATTGATTTTTTATTCTTTTTTAATTAAAATCTATCTATTTGATTA
1 ATTTTTTAATTTATACTTTAAATGAATTTTTATTCTTTTTTAATTAAAATATATCTAATTGATT-
*
104184667 CATTTAATTTATACTTTAATTAATTTTTTTAATTAATATATATTCAATTATTTT-ATTTATAG-T
65 -ATTTAATTTATACCTTAATTAATTTTTTTAATTAATATATATTCAATTATTTTAATTTAT-GCT
* * *
104184730 TTAATTAATTTTTTATTC-CTTTTTAATTAAAATCTATCTATTCAATTATTTTTAATATATACTT
128 TTAATTAAATTTTTATTCTCTTTTTAATAAAAATATATCTATTCAATTATTTTTAATATATACTT
* * * *
104184794 TAATTACTTTTTTTATTCTTTTTTAATTAAAATCTATCTATTCCA-TT
193 AAATTA-ATTTTTTATTCTTTTTTAATAAAAATATATCTATT-CATTT
104184841 ATTTTTTAATTTATACTTTAAAT-AATTTTT-TTC-TTTTTAATTAAAATATAT-TCAATT-ATT
1 ATTTTTTAATTTATACTTTAAATGAATTTTTATTCTTTTTTAATTAAAATATATCT-AATTGATT
* *
104184901 -TTTTATTTATGCCTTAATTAATTTTTTT
65 ATTTAATTTATACCTTAATTAATTTTTTT
104184929 CTTTTTTAAT
Statistics
Matches: 287, Mismatches: 30, Indels: 34
0.82 0.09 0.10
Matches are distributed among these distances:
232 25 0.09
235 4 0.01
236 20 0.07
237 3 0.01
238 51 0.18
239 79 0.28
240 7 0.02
242 10 0.03
244 4 0.01
245 50 0.17
246 29 0.10
247 5 0.02
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (238 bp):
ATTTTTTAATTTATACTTTAAATGAATTTTTATTCTTTTTTAATTAAAATATATCTAATTGATTA
TTTAATTTATACCTTAATTAATTTTTTTAATTAATATATATTCAATTATTTTAATTTATGCTTTA
ATTAAATTTTTATTCTCTTTTTAATAAAAATATATCTATTCAATTATTTTTAATATATACTTAAA
TTAATTTTTTATTCTTTTTTAATAAAAATATATCTATTCATTT
Found at i:104187192 original size:39 final size:39
Alignment explanation
Indices: 104187134--104187213 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
104187124 TTCTGAAGTA
*
104187134 GAAAAATTTATTCCGATTAATTTTTATAATTTATTGAGT
1 GAAAAATTTATTCCAATTAATTTTTATAATTTATTGAGT
104187173 GAAAAATTTATTCCAATTAATTTTTATAATTTATTGAGT
1 GAAAAATTTATTCCAATTAATTTTTATAATTTATTGAGT
104187212 GA
1 GA
104187214 TTAGATGCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (39 bp):
GAAAAATTTATTCCAATTAATTTTTATAATTTATTGAGT
Found at i:104190306 original size:14 final size:14
Alignment explanation
Indices: 104190270--104190314 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
104190260 ATCTTGAAAC
104190270 AATACAAATTTAGAA
1 AATACAAATTTA-AA
*
104190285 AA-ATAAATTTAAA
1 AATACAAATTTAAA
*
104190298 AATACAAATTGAAA
1 AATACAAATTTAAA
104190312 AAT
1 AAT
104190315 CTTGAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 4 0.15
14 20 0.77
15 2 0.08
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (14 bp):
AATACAAATTTAAA
Found at i:104190359 original size:19 final size:19
Alignment explanation
Indices: 104190319--104190359 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
104190309 AAAAATCTTG
*
104190319 AAAAAAATACAAATAGATC
1 AAAAAAATACAAATAGAAC
104190338 AAAAAAATA-AAATATGAAC
1 AAAAAAATACAAATA-GAAC
104190357 AAA
1 AAA
104190360 TCAATTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAAAAATACAAATAGAAC
Found at i:104193263 original size:29 final size:29
Alignment explanation
Indices: 104193200--104193267 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
104193190 TAATCAACCG
*
104193200 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
104193229 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
104193258 CGCACACTTA
1 CGCACACTTA
104193268 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:104193434 original size:29 final size:29
Alignment explanation
Indices: 104193374--104193441 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
104193364 TAATCAACCA
*
104193374 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
**
104193403 CGCACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
104193432 CGCACACTTA
1 CGCACACTTA
104193442 CCTTTTCCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:104193582 original size:29 final size:30
Alignment explanation
Indices: 104193543--104193621 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
104193533 CTTAATAATC
104193543 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
104193573 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
104193602 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
104193622 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:104193615 original size:174 final size:174
Alignment explanation
Indices: 104193089--104193590 Score: 950
Period size: 174 Copynumber: 2.9 Consensus size: 174
104193079 AACTCAAGGT
* * * *
104193089 ACTTACCTTTTCCACTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
*
104193154 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
104193219 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
104193263 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
104193328 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
104193393 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
104193437 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
104193502 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
104193567 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCGCACACTTAGTGC
104193591 TGTACAATTT
Statistics
Matches: 322, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 322 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:104201598 original size:29 final size:29
Alignment explanation
Indices: 104201535--104201602 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
104201525 TAATCAACCG
*
104201535 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
104201564 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
104201593 CGCACACTTA
1 CGCACACTTA
104201603 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:104201771 original size:29 final size:30
Alignment explanation
Indices: 104201709--104201777 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
104201699 TAATCAACCA
*
104201709 CGCACACTTAGTGCACATGTACTTTAAACT
1 CGCACACTTAGTGCACATGCACTTTAAACT
**
104201739 CGCACACTTAGTGC-CATGCA-TTTCAAGTT
1 CGCACACTTAGTGCACATGCACTTT-AAACT
104201768 CGCACACTTA
1 CGCACACTTA
104201778 CCTTTTCCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 3 0.09
29 18 0.51
30 14 0.40
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (30 bp):
CGCACACTTAGTGCACATGCACTTTAAACT
Found at i:104201810 original size:175 final size:174
Alignment explanation
Indices: 104201424--104201926 Score: 952
Period size: 175 Copynumber: 2.9 Consensus size: 174
104201414 AACTCAAGGT
* * *
104201424 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
*
104201489 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
104201554 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
104201598 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
104201663 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCACATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGC-CATG
104201728 TACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
130 TACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
104201773 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
104201838 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
104201903 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCGCACACTTAGTGC
104201927 TGTACAATTT
Statistics
Matches: 323, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
174 150 0.46
175 173 0.54
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:104201918 original size:29 final size:30
Alignment explanation
Indices: 104201879--104201957 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
104201869 CTTAATAATC
104201879 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
104201909 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
104201938 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
104201958 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:104209450 original size:49 final size:49
Alignment explanation
Indices: 104209330--104209647 Score: 388
Period size: 49 Copynumber: 6.5 Consensus size: 49
104209320 ACTATGTGAT
* * * * *
104209330 TATGTGATCCCGTATAAGACCATATCTAGGATATGGCATCAGTGTGATTA
1 TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATG-TAA
* * *
104209380 TATGT--TTTCGTATAAGACCATATATGGGATATGGCATTGGTATGTAA
1 TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTAA
* *
104209427 TATGTGATTCCGTATAAGACCATATATGGGATATGGCATTGGTATGTAA
1 TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTAA
* *
104209476 TATGTGATTCCGTATAAGACCATATCTGGGATATGACATCGGTATGTGA
1 TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTAA
* * * *
104209525 TATATGATTCCGTATAATACCATATCTGGGATATGGCATCGGTACGTGA
1 TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTAA
* * * * *
104209574 TATGTGATTCCGTATAAGACCATATTTGGGCTATGGCATTGGTTTGTGAT
1 TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGT-AA
* * *
104209624 TATGTGACTCTGTTTAAGACCATA
1 TATGTGATTCCGTATAAGACCATA
104209648 GTTTTACTAT
Statistics
Matches: 236, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
47 7 0.03
48 32 0.14
49 171 0.72
50 26 0.11
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (49 bp):
TATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTAA
Found at i:104209562 original size:147 final size:147
Alignment explanation
Indices: 104209322--104209647 Score: 449
Period size: 147 Copynumber: 2.2 Consensus size: 147
104209312 AACATGTGAC
* * * *
104209322 TATGTGATTATGTGATCCCGTATAAGACCATATCTAGGATATGGCATCAGTGTGATTATATGTTT
1 TATGTGAATATGTGATTCCGTATAAGACCATATCTAGGATATGACATCAGTGTGATTATATGATT
* * *
104209387 TCGTATAAGACCATATATGGGATATGGCATTGGTATGTAATATGTGATTCCGTATAAGACCATAT
66 CCGTATAAGACCATATATGGGATATGGCATCGGTACGTAATATGTGATTCCGTATAAGACCATAT
104209452 ATGGGATATGGCATTGG
131 ATGGGATATGGCATTGG
* *
104209469 TATGT-AATATGTGATTCCGTATAAGACCATATCTGGGATATGACATCGGTATGTGA-TATATGA
1 TATGTGAATATGTGATTCCGTATAAGACCATATCTAGGATATGACATCAG--TGTGATTATATGA
* * *
104209532 TTCCGTATAATACCATATCTGGGATATGGCATCGGTACGTGATATGTGATTCCGTATAAGACCAT
64 TTCCGTATAAGACCATATATGGGATATGGCATCGGTACGTAATATGTGATTCCGTATAAGACCAT
* *
104209597 ATTTGGGCTATGGCATTGG
129 ATATGGGATATGGCATTGG
* * * * *
104209616 TTTGTGATTATGTGACTCTGTTTAAGACCATA
1 TATGTGAATATGTGATTCCGTATAAGACCATA
104209648 GTTTTACTAT
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
146 39 0.25
147 91 0.58
148 27 0.17
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (147 bp):
TATGTGAATATGTGATTCCGTATAAGACCATATCTAGGATATGACATCAGTGTGATTATATGATT
CCGTATAAGACCATATATGGGATATGGCATCGGTACGTAATATGTGATTCCGTATAAGACCATAT
ATGGGATATGGCATTGG
Found at i:104211542 original size:20 final size:20
Alignment explanation
Indices: 104211505--104211547 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
104211495 AAAATAAACA
* **
104211505 TATAATTATTCATTTAATAT
1 TATAACTATTCAAATAATAT
*
104211525 TATAACTATTCAAATAATTT
1 TATAACTATTCAAATAATAT
104211545 TAT
1 TAT
104211548 TTAAATAGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAACTATTCAAATAATAT
Found at i:104213328 original size:53 final size:54
Alignment explanation
Indices: 104213213--104213341 Score: 165
Period size: 53 Copynumber: 2.4 Consensus size: 54
104213203 ATATATTAAA
* *
104213213 GGGGTGTC-AGCCATAAGTGTCCCAACACCTAATTTTTTTTTAAAAATCTGGTATT
1 GGGGTGTCGA-CCATCAGTGTCCCAACACCCAATTTTTTTTT-AAAATCTGGTATT
* * *
104213268 GGGGTGTCGATCATTAGTGTCCCAATACCCCAA-TTTTTTTT-AAATCTGGTATT
1 GGGGTGTCGACCATCAGTGTCCCAACA-CCCAATTTTTTTTTAAAATCTGGTATT
104213321 GGGGTGTCGACCATCAGTGTC
1 GGGGTGTCGACCATCAGTGTC
104213342 TGAGCACCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
53 31 0.47
55 30 0.45
56 5 0.08
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (54 bp):
GGGGTGTCGACCATCAGTGTCCCAACACCCAATTTTTTTTTAAAATCTGGTATT
Found at i:104214833 original size:17 final size:18
Alignment explanation
Indices: 104214802--104214835 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
104214792 AATTTAACTT
104214802 TAATTAAATTATTTAAAC
1 TAATTAAATTATTTAAAC
*
104214820 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
104214836 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAC
Found at i:104230628 original size:31 final size:31
Alignment explanation
Indices: 104230593--104230662 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
104230583 CTTGTCACTT
* * *
104230593 GTAGCCGAAGCTATCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
* * *
104230624 GTAGCCGGAGCTACCATTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
104230655 GTAGCCGA
1 GTAGCCGA
104230663 TGATCAGGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAA
Found at i:104230684 original size:46 final size:46
Alignment explanation
Indices: 104230617--104230708 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
104230607 CACTATTCAC
* *
104230617 TGATCAGGTAGCCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * *
104230663 TGATCAGGTAGCCGAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
104230709 AGCTACCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Done.