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 335 of 349
Found at i:111065833 original size:28 final size:27
Alignment explanation
Indices: 111065794--111065847 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
111065784 TGTAAACCCT
111065794 AAAAAAGAAAAACATTAAACATTAAAC
1 AAAAAAGAAAAACATTAAACATTAAAC
* * *
111065821 AAAAAATACAAAACCTTAAACCTTAAA
1 AAAAAAGA-AAAACATTAAACATTAAA
111065848 AAACCTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.67, C:0.15, G:0.02, T:0.17
Consensus pattern (27 bp):
AAAAAAGAAAAACATTAAACATTAAAC
Found at i:111065852 original size:17 final size:18
Alignment explanation
Indices: 111065830--111065868 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
111065820 CAAAAAATAC
111065830 AAAACC-TTAAACCTTAA
1 AAAACCTTTAAACCTTAA
111065847 AAAACCTTTAAACCTTAA
1 AAAACCTTTAAACCTTAA
111065865 AAAA
1 AAAA
111065869 ACAAAGAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAACCTTTAAACCTTAA
Found at i:111066967 original size:30 final size:31
Alignment explanation
Indices: 111066908--111066971 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
111066898 ACTTAATAAG
111066908 CAAATGCCTCTAAAATAATAAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATTAA
* *
111066939 CAAATGCCTTTAAAATAAT-AACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATTAA
111066969 CAA
1 CAA
111066972 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.23
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATAAAAAAAATTAA
Found at i:111067896 original size:21 final size:21
Alignment explanation
Indices: 111067853--111067905 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
111067843 TTCGCACTTC
* *
111067853 AATTTTATAAAATATTCATTTT
1 AATTTT-TAAAATATTAAATTT
*
111067875 AATTTTTAAAATTTTAAATTT
1 AATTTTTAAAATATTAAATTT
111067896 ATATTGTTTA
1 A-ATT-TTTA
111067906 TTAAAGCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 13 0.50
22 9 0.35
23 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
AATTTTTAAAATATTAAATTT
Found at i:111068042 original size:19 final size:18
Alignment explanation
Indices: 111068014--111068049 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
111068004 TTTAAAGTAA
*
111068014 TTTAATAAATAATATAAAT
1 TTTAAAAAATAA-ATAAAT
111068033 TTTAAAAAATAAATAAA
1 TTTAAAAAATAAATAAA
111068050 AAAAGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TTTAAAAAATAAATAAAT
Found at i:111072775 original size:30 final size:30
Alignment explanation
Indices: 111072739--111072800 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
111072729 CTTATTTTAC
*
111072739 TGTTAATTTTGTTATTATTTTAAAGATATT
1 TGTTAATTTTGTTATTATTTTAAAGACATT
*
111072769 TGTTAATTTTGTTATTATTTTAGAGACATT
1 TGTTAATTTTGTTATTATTTTAAAGACATT
111072799 TG
1 TG
111072801 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TGTTAATTTTGTTATTATTTTAAAGACATT
Found at i:111073221 original size:73 final size:73
Alignment explanation
Indices: 111073102--111073248 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
111073092 CACCTCTAGC
111073102 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
1 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
111073167 ATAGTGAT
66 ATAGTGAT
*
111073175 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAATCGTATGTTTG
1 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
111073240 ATAGTGAT
66 ATAGTGAT
111073248 T
1 T
111073249 CATTCTCCAT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (73 bp):
TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
ATAGTGAT
Found at i:111074104 original size:47 final size:47
Alignment explanation
Indices: 111074035--111074128 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
111074025 GTTAATCAGA
111074035 CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
1 CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
111074082 CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
1 CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
111074129 ACTTGTTTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (47 bp):
CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
Found at i:111074691 original size:31 final size:31
Alignment explanation
Indices: 111074655--111074714 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
111074645 TTTTATTTTA
* *
111074655 AAAGAGTAAATTAGTCTCTGTATGT-TAAATG
1 AAAGAGCAAATCAGTC-CTGTATGTATAAATG
*
111074686 AAAGAGCAAATCAGTCCTTTATGTATAAA
1 AAAGAGCAAATCAGTCCTGTATGTATAAA
111074715 AACTTCACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (31 bp):
AAAGAGCAAATCAGTCCTGTATGTATAAATG
Found at i:111078312 original size:46 final size:46
Alignment explanation
Indices: 111078260--111078669 Score: 552
Period size: 46 Copynumber: 8.8 Consensus size: 46
111078250 AGTGTGCTTT
*
111078260 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
111078306 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
111078352 GTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
111078398 CTGATATGGAATGTGTAAGACAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGT---A-AGACCATGGTTGAAAGATACCATGGCAAC
*
111078448 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
111078494 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
111078540 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
111078586 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
111078633 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
111078670 TATGACATCA
Statistics
Matches: 337, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
46 251 0.74
47 43 0.13
49 1 0.00
50 42 0.12
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:111078513 original size:142 final size:138
Alignment explanation
Indices: 111078260--111078669 Score: 588
Period size: 142 Copynumber: 2.9 Consensus size: 138
111078250 AGTGTGCTTT
*
111078260 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAG
* *
111078325 ACCATGGTTGAAAGATACCATGGCAACGTGATATGGAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAGTAAGACCATGGTTGAAAGATACC
111078390 ATGGCAAC
131 ATGGCAAC
**
111078398 CTGATATGGAATGTGTAAGACAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAATGTG
1 CTGATATGGAATGTGT---A-AGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTG
*
111078463 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGA
62 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAGTAAGACCATGGTTGAAAGA
111078528 TACCATGGCAAC
127 TACCATGGCAAC
* * * *** **
111078540 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAA
1 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAA
* * * * *
111078605 GACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATA
65 GACCATGGTTGAAAGATACCATGGCAACGTGATATG-AAATGAGTAAGACCATGGTTGAAAGATA
111078669 C
129 C
111078670 TATGACATCA
Statistics
Matches: 245, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
138 49 0.20
139 66 0.27
141 1 0.00
142 129 0.53
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (138 bp):
CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAGTAAGACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:111081356 original size:30 final size:30
Alignment explanation
Indices: 111081320--111081380 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
111081310 TCCTTAACTC
111081320 AAACTTTAGAAAATTTACAATTTTGCCCCT
1 AAACTTTAGAAAATTTACAATTTTGCCCCT
* * * *
111081350 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAATTTACAATTTTGCCCCT
111081380 A
1 A
111081381 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTAGAAAATTTACAATTTTGCCCCT
Found at i:111082807 original size:4 final size:4
Alignment explanation
Indices: 111082798--111082837 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
111082788 TCTTTTTCTC
*
111082798 TTTA TTTA TTTA TTTTA TTTA TTTTA CTTA TTTA TTTA TT
1 TTTA TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA TTTA TT
111082838 ATTAACTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 24 0.75
5 8 0.25
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:111082814 original size:13 final size:13
Alignment explanation
Indices: 111082798--111082837 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
111082788 TCTTTTTCTC
111082798 TTTATTTATTTAT
1 TTTATTTATTTAT
111082811 TTTATTTATTT-T
1 TTTATTTATTTAT
*
111082823 ACTTATTTATTTAT
1 -TTTATTTATTTAT
111082837 T
1 T
111082838 ATTAACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:111082816 original size:9 final size:9
Alignment explanation
Indices: 111082798--111082837 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
111082788 TCTTTTTCTC
111082798 TTTA-TTTA
1 TTTATTTTA
111082806 TTTATTTTA
1 TTTATTTTA
111082815 TTTATTTTA
1 TTTATTTTA
*
111082824 CTTA-TTTA
1 TTTATTTTA
111082832 TTTATT
1 TTTATT
111082838 ATTAACTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 11 0.39
9 17 0.61
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:111082893 original size:38 final size:33
Alignment explanation
Indices: 111082851--111082926 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 33
111082841 AACTTTAAAA
111082851 ATTTTGAAATATATATTTGAAATATTTTATTAATATAT
1 ATTTTGAAAT-TATATTTGAAA-ATTTTA--AATAT-T
* *
111082889 ATTTTGAAATTATTTTTTAAAATTTTAAATATT
1 ATTTTGAAATTATATTTGAAAATTTTAAATATT
111082922 ATTTT
1 ATTTT
111082927 TTAATATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
33 6 0.17
34 5 0.14
36 6 0.17
37 9 0.25
38 10 0.28
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (33 bp):
ATTTTGAAATTATATTTGAAAATTTTAAATATT
Found at i:111082902 original size:26 final size:23
Alignment explanation
Indices: 111082858--111082944 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 23
111082848 AAAATTTTGA
111082858 AATATATATTTGAAATATTTTATT
1 AATATATATTTGAAATATTTT-TT
111082882 AATATATATTTTGAAATTATTTTTT
1 AATATATA-TTTGAAA-TATTTTTT
111082907 AA-A-AT-TTT-AAATATTATTTT
1 AATATATATTTGAAATATT-TTTT
*
111082927 -TTA-ATATTT-AAATATTTT
1 AATATATATTTGAAATATTTT
111082945 AAACTTTCAA
Statistics
Matches: 57, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
19 4 0.07
20 12 0.21
21 13 0.23
23 2 0.04
24 9 0.16
25 11 0.19
26 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AATATATATTTGAAATATTTTTT
Found at i:111082908 original size:25 final size:25
Alignment explanation
Indices: 111082858--111082933 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 25
111082848 AAAATTTTGA
111082858 AATATATA-TTTGAAA-TATTTTATT
1 AATATATATTTTGAAATTATTTT-TT
111082882 AATATATATTTTGAAATTATTTTTT
1 AATATATATTTTGAAATTATTTTTT
*
111082907 -A-A-A-ATTTTAAATATTATTTTTT
1 AATATATATTTTGAA-ATTATTTTTT
111082929 AATAT
1 AATAT
111082934 TTAAATATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
21 7 0.16
22 11 0.24
23 2 0.04
24 10 0.22
25 9 0.20
26 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (25 bp):
AATATATATTTTGAAATTATTTTTT
Found at i:111082982 original size:36 final size:38
Alignment explanation
Indices: 111082904--111082983 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 38
111082894 GAAATTATTT
* * *
111082904 TTTAAAATTTTAAATATTATTTTTTAATATTTAAATAT
1 TTTAAAATTTCAAATATTATTTATTAATATTTAAATAA
*
111082942 TTTAAACTTTCAAAT-TTA-TTATTAAT-TTTATAATAA
1 TTTAAAATTTCAAATATTATTTATTAATATTTA-AATAA
111082978 TTTAAA
1 TTTAAA
111082984 TATTATTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 4 0.11
36 17 0.46
37 3 0.08
38 13 0.35
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (38 bp):
TTTAAAATTTCAAATATTATTTATTAATATTTAAATAA
Found at i:111082991 original size:22 final size:21
Alignment explanation
Indices: 111082897--111082991 Score: 77
Period size: 22 Copynumber: 4.3 Consensus size: 21
111082887 ATATTTTGAA
111082897 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAA-TTTAAAT
*
111082919 ATTATTTTTTAATATTTAAAT
1 ATTATTTTTTAAAATTTAAAT
* * *
111082940 ATT-TTAAACTTTCAAATTT-ATT
1 ATTATT---TTTTAAAATTTAAAT
*
111082962 ATTAATTTTATAATAATTTAAAT
1 ATT-ATTTTTTAA-AATTTAAAT
111082985 ATTATTT
1 ATTATTT
111082992 AATTTGTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
20 2 0.04
21 13 0.23
22 27 0.47
23 13 0.23
24 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTATTTTTTAAAATTTAAAT
Found at i:111083323 original size:22 final size:23
Alignment explanation
Indices: 111083271--111083329 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
111083261 ATATCTTTAA
111083271 AAATAAT-TTAAAAATCATAATT
1 AAATAATATTAAAAATCATAATT
*
111083293 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATTA-AAAATCATAATT
111083314 AAATAATATTAAAAAT
1 AAATAATATTAAAAAT
111083330 ATTAACAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATAATATTAAAAATCATAATT
Found at i:111083547 original size:22 final size:21
Alignment explanation
Indices: 111083517--111083558 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
111083507 AAATTTTTTA
*
111083517 AAATTAATAACAAAAAATAAAT
1 AAATAAATAA-AAAAAATAAAT
*
111083539 AAATAAATAAACAAAATAAA
1 AAATAAATAAAAAAAATAAA
111083559 ACAAGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATAAATAAAAAAAATAAAT
Found at i:111083786 original size:13 final size:14
Alignment explanation
Indices: 111083753--111083785 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
111083743 TTTGAATATC
111083753 TTTAAAAA--ATAA
1 TTTAAAAATCATAA
111083765 TTTAAAAATCATAA
1 TTTAAAAATCATAA
111083779 TTTAAAA
1 TTTAAAA
111083786 TATTATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
14 11 0.58
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
TTTAAAAATCATAA
Found at i:111083811 original size:22 final size:23
Alignment explanation
Indices: 111083759--111083811 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
111083749 TATCTTTAAA
111083759 AAATAAT-TTAAAAATCATAATT
1 AAATAATATTAAAAATCATAATT
*
111083781 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATTA-AAAATCATAATT
111083802 AAATAATATT
1 AAATAATATT
111083812 TACATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 9 0.35
22 13 0.50
23 4 0.15
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATAATATTAAAAATCATAATT
Found at i:111083878 original size:22 final size:22
Alignment explanation
Indices: 111083851--111083906 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
111083841 GAAAGTTTAA
111083851 AATATTTAAATATTAAAAAAAT
1 AATATTTAAATATTAAAAAAAT
*
111083873 AATATTTAAA-ATTTAAAAAAGT
1 AATATTTAAATA-TTAAAAAAAT
*
111083895 AAT-TTCAAATAT
1 AATATTTAAATAT
111083907 ATATTAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 7 0.23
22 23 0.77
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATTTAAATATTAAAAAAAT
Found at i:111083934 original size:13 final size:13
Alignment explanation
Indices: 111083896--111083940 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
111083886 TAAAAAAGTA
111083896 ATTTCAAATATAT
1 ATTTCAAATATAT
*
111083909 A-TT--AATAAAAT
1 ATTTCAAAT-ATAT
111083920 ATTTCAAATATAT
1 ATTTCAAATATAT
111083933 ATTTCAAA
1 ATTTCAAA
111083941 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
10 3 0.12
11 4 0.15
12 4 0.15
13 12 0.46
14 3 0.12
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTTCAAATATAT
Found at i:111083976 original size:14 final size:15
Alignment explanation
Indices: 111083953--111083981 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
111083943 TTTTAAAATT
111083953 AATAATAATAAATAA
1 AATAATAATAAATAA
111083968 AATAA-AATAAATAA
1 AATAATAATAAATAA
111083982 TGAGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAATAAATAA
Found at i:111091561 original size:22 final size:22
Alignment explanation
Indices: 111091534--111091577 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
111091524 AATATTAAAA
111091534 TATATATTTT-TAATTAATATTT
1 TATATATTTTATAATTAA-ATTT
111091556 TATATATTTTATAATTAAATTT
1 TATATATTTTATAATTAAATTT
111091578 AATTAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TATATATTTTATAATTAAATTT
Found at i:111093935 original size:30 final size:31
Alignment explanation
Indices: 111093862--111093925 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
111093852 TTATAGAATT
* ** *
111093862 GTCATTGAACTATTTGAAAGTTTTCATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTCAA
111093893 GTCACTGAACTATTCAAAAGTTTT-ATTCAA
1 GTCACTGAACTATTCAAAAGTTTTCATTCAA
111093923 GTC
1 GTC
111093926 CTTAGACTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTTCATTCAA
Found at i:111102220 original size:60 final size:60
Alignment explanation
Indices: 111102089--111102245 Score: 181
Period size: 60 Copynumber: 2.6 Consensus size: 60
111102079 TTTGAGTTAT
* * * * *
111102089 TGTCTTTTGTTATTACCCTATGTGCTAGGTTTATTATGTGATTGCTTTTGATTTATTGCCATC
1 TGTCTTTTGTTACT--CC-ATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
* *
111102152 CG-CTTTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTGTTGCAATA
1 TGTC-TTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
* * *
111102212 TGTCTTTTGTTACACTATGTGCTAGATTTATCAT
1 TGTCTTTTGTTACTCCATGTGCTAGGTTTATCAT
111102246 TATGTTTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
60 67 0.83
61 3 0.04
62 1 0.01
63 10 0.12
ACGTcount: A:0.17, C:0.15, G:0.18, T:0.50
Consensus pattern (60 bp):
TGTCTTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
Found at i:111112262 original size:85 final size:85
Alignment explanation
Indices: 111112092--111112262 Score: 191
Period size: 85 Copynumber: 2.0 Consensus size: 85
111112082 GACGCTCCAT
* * * * * * *
111112092 ATACTTGTGTTGTTGTAGGTGCGTTATAAGATTATCCAAAATTGGATTTTGACCTGATCTCTGAC
1 ATACTTGTGCTGTTGCAGGTACGTTACAAGATAATCCAAAATTGGATTATGACATGATCTCTGAC
* ***
111112157 ATTGGCTTACATATTTTGAA
66 ATTAGCTTACATACAGTGAA
* **
111112177 ATACTTGTGCTGTTGCAGGTATGTTACAAGATAATCCAATTTTGGATTATGACATGATCTCTGAC
1 ATACTTGTGCTGTTGCAGGTACGTTACAAGATAATCCAAAATTGGATTATGACATGATCTCTGAC
*
111112242 ATTATCTTATC-TACAGTGAA
66 ATTAGCTTA-CATACAGTGAA
111112262 A
1 A
111112263 GTGAGTCTTA
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
85 69 0.99
86 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (85 bp):
ATACTTGTGCTGTTGCAGGTACGTTACAAGATAATCCAAAATTGGATTATGACATGATCTCTGAC
ATTAGCTTACATACAGTGAA
Found at i:111114632 original size:21 final size:20
Alignment explanation
Indices: 111114608--111114653 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
111114598 GAGTTCAACG
111114608 TATAATAGAGTAATATACCAT
1 TATAATA-AGTAATATACCAT
*
111114629 TATAA-ATGTAATATACCAT
1 TATAATAAGTAATATACCAT
111114648 T-TAATA
1 TATAATA
111114654 TATTACAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 1 0.04
21 5 0.22
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (20 bp):
TATAATAAGTAATATACCAT
Found at i:111117388 original size:63 final size:63
Alignment explanation
Indices: 111117202--111117389 Score: 243
Period size: 64 Copynumber: 3.0 Consensus size: 63
111117192 TTTATTCATT
* * *
111117202 TTTTTCGTAAATTGTAAATATGTATATTATTGATGTAAAAATACAATACAAACAATTTTTGCA
1 TTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAACATTTTTTTCA
* * * * * *
111117265 ATTTTCTTAAATTGTAAAAAAAGTATATTATTGATATAAAAATACAATAAAAATATTTTTTTCA
1 TTTTTCGTAAATTGT-AAATAAGTATATTATTGATGTAAAAATACAATACAAACATTTTTTTCA
* * *
111117329 TTTTTCGTAAATTATAAATAAGTATATTATTGATGTAAAAAAATAA-ACAAACACTTTTTTT
1 TTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAACA-TTTTTTT
111117390 ATAAAATGTG
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
62 5 0.05
63 47 0.45
64 53 0.50
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (63 bp):
TTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAACATTTTTTTCA
Found at i:111119957 original size:35 final size:37
Alignment explanation
Indices: 111119887--111119966 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 37
111119877 AATATAATTA
* *
111119887 TAATTATAATTTAAAATTATTAATTCACATATAAAAT
1 TAATTATAATATAAAATTATTAATTCACATATAAAAC
* *
111119924 TAATTATAATAT-ACATTA-TAATT-ACAATTTAAAAC
1 TAATTATAATATAAAATTATTAATTCAC-ATATAAAAC
111119959 TAATTATA
1 TAATTATA
111119967 GAATATGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 2 0.05
35 20 0.53
36 5 0.13
37 11 0.29
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.42
Consensus pattern (37 bp):
TAATTATAATATAAAATTATTAATTCACATATAAAAC
Found at i:111126839 original size:19 final size:19
Alignment explanation
Indices: 111126796--111126840 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
111126786 CAAATATATA
* *
111126796 ATTATATTTTTTTAAAAGT
1 ATTATATTATCTTAAAAGT
* *
111126815 AATATATTATCTTAAAATT
1 ATTATATTATCTTAAAAGT
111126834 ATTATAT
1 ATTATAT
111126841 AATTATATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTATATTATCTTAAAAGT
Found at i:111126864 original size:18 final size:19
Alignment explanation
Indices: 111126841--111126886 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
111126831 ATTATTATAT
111126841 AATTATATTT-TAAAAATA
1 AATTATATTTCTAAAAATA
*
111126859 AATTATATTTCTAAAATTA
1 AATTATATTTCTAAAAATA
*
111126878 AAATATATT
1 AATTATATT
111126887 ATTATTGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATTATATTTCTAAAAATA
Found at i:111126874 original size:43 final size:44
Alignment explanation
Indices: 111126788--111126903 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 44
111126778 TCTAATAACA
*
111126788 AATATATAATTATATTTTTTTAAAAGT-AATATATTATCTTAAAATT
1 AATATATAATTATA---TTTTAAAAATAAATATATTATCTTAAAATT
*
111126834 ATTATATAATTATATTTTAAAAATAAATTATATT-TC-TAAAATT
1 AATATATAATTATATTTTAAAAATAAA-TATATTATCTTAAAATT
*
111126877 AAAATAT-ATTATTATTGTATAAAAATA
1 AATATATAATTA-TATT-T-TAAAAATA
111126904 GCTTTTGTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
42 4 0.07
43 25 0.41
44 5 0.08
45 14 0.23
46 13 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (44 bp):
AATATATAATTATATTTTAAAAATAAATATATTATCTTAAAATT
Found at i:111128011 original size:22 final size:22
Alignment explanation
Indices: 111127986--111128029 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
111127976 TAGTCTTATA
111127986 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
111128008 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
111128030 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:111128159 original size:47 final size:47
Alignment explanation
Indices: 111128052--111128162 Score: 115
Period size: 47 Copynumber: 2.3 Consensus size: 47
111128042 TAATTTTATT
111128052 TTAATAATAAAT-TTTAAAAAATATTATTCACATATTATTGAAAATA
1 TTAATAATAAATGTTTAAAAAATATTATTCACATATTATTGAAAATA
* *
111128098 TTCAATATTGAAATGTTAATAATAAATATTTATT-ACA-ATTA-T-AAATATA
1 TT-AATAAT-AAATGTT--TAAAAAATA-TTATTCACATATTATTGAAA-ATA
111128147 TTAATAATAAATGTTT
1 TTAATAATAAATGTTT
111128163 TGTGGTATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
45 1 0.02
46 2 0.04
47 12 0.22
48 12 0.22
49 8 0.15
50 4 0.07
51 11 0.20
52 5 0.09
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (47 bp):
TTAATAATAAATGTTTAAAAAATATTATTCACATATTATTGAAAATA
Found at i:111130658 original size:26 final size:26
Alignment explanation
Indices: 111130629--111130686 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
111130619 TGGTACAAAT
111130629 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
111130655 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
111130681 TGATAA
1 TGATAA
111130687 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:111135142 original size:50 final size:50
Alignment explanation
Indices: 111135067--111135243 Score: 266
Period size: 50 Copynumber: 3.5 Consensus size: 50
111135057 CCATGGAAAC
111135067 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
111135117 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
111135167 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * *
111135217 CAACTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
111135244 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
50 89 0.78
51 25 0.22
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:111135259 original size:31 final size:31
Alignment explanation
Indices: 111135221--111135460 Score: 327
Period size: 31 Copynumber: 7.7 Consensus size: 31
111135211 AAATGACAAC
111135221 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
111135252 TGAAAAGTGGTAGCTTCAGCTATCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * *
111135283 TGAAAAGTGATAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
111135314 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
111135345 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * *
111135376 TGAAAAGTAGTAGCTCCGGCTACTTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* ** *
111135407 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * *
111135438 TGAATAGTGGTACCTTTGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
111135461 AAGTGACAAG
Statistics
Matches: 183, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 183 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:111135471 original size:7 final size:7
Alignment explanation
Indices: 111135459--111135491 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
111135449 ACCTTTGGCT
111135459 ACAAGTG
1 ACAAGTG
111135466 ACAAGTG
1 ACAAGTG
111135473 ACAAGTG
1 ACAAGTG
111135480 ACAAGTG
1 ACAAGTG
111135487 ACAAG
1 ACAAG
111135492 CGATTTCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.27, T:0.12
Consensus pattern (7 bp):
ACAAGTG
Found at i:111135585 original size:47 final size:48
Alignment explanation
Indices: 111135498--111135623 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 48
111135488 CAAGCGATTT
* * *
111135498 CTGTATAAGACCATATCTGGGATATGGTATCGGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
111135545 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
111135593 C-GTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
111135624 TTATGTAAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 65 0.96
48 3 0.04
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:111146064 original size:29 final size:30
Alignment explanation
Indices: 111146006--111146064 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
111145996 GAATTTGATT
111146006 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
* *
111146036 AAATCAAAATTT-ATGTATACAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTACACA
111146065 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:111151920 original size:35 final size:35
Alignment explanation
Indices: 111151870--111152036 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
111151860 TCCTCATTAA
** *
111151870 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
111151905 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
111151945 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
111151980 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
111152015 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
111152037 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:111151953 original size:75 final size:71
Alignment explanation
Indices: 111151870--111152036 Score: 212
Period size: 75 Copynumber: 2.3 Consensus size: 71
111151860 TCCTCATTAA
** * * **
111151870 AATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACTCAGT
1 AATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACTCAGT
111151934 ATGGATTTG
65 ATGGA--TG
*
111151943 ATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACTCAG
1 --AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTCAG
111152008 TATGGATG
64 TATGGATG
111152016 -ATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
111152037 CTTTGCCATG
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
70 21 0.25
73 2 0.02
74 3 0.04
75 58 0.69
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (71 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTCAGTA
TGGATG
Found at i:111155571 original size:20 final size:19
Alignment explanation
Indices: 111155540--111155592 Score: 88
Period size: 19 Copynumber: 2.7 Consensus size: 19
111155530 TCGACCTTCT
111155540 TTTTGTTTAAAAAAATAAA
1 TTTTGTTTAAAAAAATAAA
111155559 TTTTGTTTAAAAAAATAAA
1 TTTTGTTTAAAAAAATAAA
*
111155578 TTTTCTTTTAAAAAA
1 TTTT-GTTTAAAAAA
111155593 GAGGATTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 23 0.72
20 9 0.28
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (19 bp):
TTTTGTTTAAAAAAATAAA
Found at i:111158759 original size:4 final size:4
Alignment explanation
Indices: 111158750--111158802 Score: 51
Period size: 4 Copynumber: 14.0 Consensus size: 4
111158740 CCATGACTAA
* *
111158750 CATT CATT CA-T CATT TATT CA-A CATT CATT --TGT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CAT-T CATT CATT CATT
111158795 CATT CATT
1 CATT CATT
111158803 GCATATACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
2 1 0.03
3 6 0.15
4 32 0.80
5 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.02, T:0.49
Consensus pattern (4 bp):
CATT
Found at i:111158769 original size:11 final size:11
Alignment explanation
Indices: 111158750--111158802 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
111158740 CCATGACTAA
111158750 CATTCATTCAT
1 CATTCATTCAT
* *
111158761 CATTTATTCAA
1 CATTCATTCAT
**
111158772 CATTCATTTGT
1 CATTCATTCAT
111158783 CATTCATTCATT
1 CATTCATTCA-T
111158795 CATTCATT
1 CATTCATT
111158803 GCATATACAT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
11 24 0.73
12 9 0.27
ACGTcount: A:0.26, C:0.23, G:0.02, T:0.49
Consensus pattern (11 bp):
CATTCATTCAT
Found at i:111167146 original size:75 final size:75
Alignment explanation
Indices: 111167043--111167433 Score: 425
Period size: 75 Copynumber: 5.1 Consensus size: 75
111167033 TGATGTTTTT
* * * *
111167043 ATTTCTGTTTTCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACATGTTGA
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGA
111167107 GGTATTTTCA
66 GGTATTTTCA
111167117 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTG
*
111167181 AGGTAATGTT-A
65 AGGT-ATTTTCA
* * *
111167192 ATTTCTGTTCTTCAGTTTGTGTTTCAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGTCTTA
1 ATTTCTGTT-TTCA-----------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
**
111167257 GGTCACACATTGAGGTATTTTCA
54 GG-CACACGCTGAGGTATTTTCA
* *
111167280 ATTTATG-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTG
*
111167342 AGGTATTTTTA
65 AGGTATTTTCA
* * *
111167353 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACACT
1 ATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCT
*
111167418 TAGGTATTTTCA
64 GAGGTATTTTCA
111167430 ATTT
1 ATTT
111167434 TTACCTTTTC
Statistics
Matches: 270, Mismatches: 26, Indels: 39
0.81 0.08 0.12
Matches are distributed among these distances:
73 61 0.23
74 9 0.03
75 72 0.27
76 4 0.01
77 60 0.22
86 42 0.16
87 5 0.02
88 17 0.06
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (75 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGA
GGTATTTTCA
Found at i:111167334 original size:73 final size:74
Alignment explanation
Indices: 111167202--111167433 Score: 324
Period size: 73 Copynumber: 3.1 Consensus size: 74
111167192 ATTTCTGTTC
* * *
111167202 TTCAGTTTGTGTTTCAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACAT
1 TTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACAT
111167267 TGAGGTATT
66 TGAGGTATT
* ** **
111167276 TTCAATTTATGTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
1 TTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACAT
111167340 TGAGGTATT
66 TGAGGTATT
* *
111167349 TTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACA
1 TTCAATTTATG--TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACA
111167414 CACTT-AGGTATT
63 CA-TTGAGGTATT
111167426 TTCAATTT
1 TTCAATTT
111167434 TTACCTTTTC
Statistics
Matches: 137, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
73 61 0.45
74 13 0.09
75 4 0.03
77 58 0.42
78 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (74 bp):
TTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACAT
TGAGGTATT
Found at i:111167340 original size:161 final size:154
Alignment explanation
Indices: 111167051--111167433 Score: 478
Period size: 161 Copynumber: 2.5 Consensus size: 154
111167041 TTATTTCTGT
* * * * **
111167051 TTTCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACATGTTGAGGTATTT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACATTGAGGTATTT
*
111167114 TCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
65 TCAATTTATG-CTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
111167179 TGAGGTAATGTTAATTTCTGTTCTTCA
128 TGAGGTAATGTTAATTTCTGTTCTTCA
*
111167206 GTTTGTGTTTCAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACATTGAG
1 -------TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACATTGAG
*
111167271 GTATTTTCAATTTATG-TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
59 GTATTTTCAATTTATGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
* * *
111167334 ACACGCTGAGGTATTTTTAATTTCTGTTTTTCA
122 ACACGCTGAGGTAATGTTAATTTCTGTTCTTCA
111167367 ----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACACTT-AGGTATTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACA-TTGAGGTATTT
111167427 TCAATTT
65 TCAATTT
111167434 TTACCTTTTC
Statistics
Matches: 203, Mismatches: 13, Indels: 22
0.85 0.05 0.09
Matches are distributed among these distances:
150 63 0.31
151 2 0.01
159 40 0.20
161 71 0.35
162 4 0.02
163 23 0.11
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (154 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACATTGAGGTATTTT
CAATTTATGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTAATGTTAATTTCTGTTCTTCA
Found at i:111169129 original size:3 final size:3
Alignment explanation
Indices: 111169118--111169170 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
111169108 TTTTATTTAT
*
111169118 TTA TT- TTA TTA TTA TTA TT- TATA CTA TTA -TA TT- TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA -TTA
111169161 TTA TTA TTA T
1 TTA TTA TTA T
111169171 ATCCATTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
2 7 0.17
3 32 0.76
4 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:111169135 original size:22 final size:21
Alignment explanation
Indices: 111169105--111169170 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
111169095 TCACTTTTCC
*
111169105 TTTTTTTATTTATTTATTTTA
1 TTTTATTATTTATTTATTTTA
* *
111169126 TTATTATTATTTATACTATTATA
1 TT-TTATTATTTAT-TTATTTTA
111169149 TTTTATTATTTA-TTATTATTA
1 TTTTATTATTTATTTATT-TTA
111169170 T
1 T
111169171 ATCCATTCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 4 0.11
21 5 0.14
22 20 0.54
23 8 0.22
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATTATTTATTTATTTTA
Found at i:111169137 original size:18 final size:18
Alignment explanation
Indices: 111169114--111169170 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
111169104 CTTTTTTTAT
111169114 TTATTTATTTTATTATTA
1 TTATTTATTTTATTATTA
**
111169132 TTATTTATACTATTA-TA
1 TTATTTATTTTATTATTA
*
111169149 TTTTATTA-TTTATTATTA
1 TTAT-TTATTTTATTATTA
111169167 TTAT
1 TTAT
111169171 ATCCATTCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTATTTTATTATTA
Found at i:111169326 original size:23 final size:23
Alignment explanation
Indices: 111169299--111169910 Score: 146
Period size: 22 Copynumber: 26.7 Consensus size: 23
111169289 ATCATTTCTA
*
111169299 ATATATATATATCGTATATGTTTTT
1 ATATATAT-TAT-GTATATATTTTT
111169324 ATATATATTATGTATATATTTTT
1 ATATATATTATGTATATATTTTT
111169347 A-ATATTATTA-GTTATATATCTTTT
1 ATATA-TATTATG-TATATAT-TTTT
111169371 ATACTAT-TTCATGTATATATTTTT
1 ATA-TATATT-ATGTATATATTTTT
*** *
111169395 ATAT-TAACCT-TAT-TATTATT
1 ATATATATTATGTATATATTTTT
*
111169415 AT-TA-A-TAT-TAGTATATGTTT
1 ATATATATTATGTA-TATATTTTT
*
111169435 -TAT-TA-TATGTATATATCTTT
1 ATATATATTATGTATATATTTTT
*
111169455 A-ATATATATATGTATATATTTAT
1 ATATATAT-TATGTATATATTTTT
*
111169478 GTA-ATATTAT-TA-ATAGTTGTTT
1 ATATATATTATGTATATA-TT-TTT
**
111169500 -T-T-TAACAT-TAT-TATTTCTAAT
1 ATATATATTATGTATATATTT-T--T
* * **
111169521 ATGCATATACTATGTAAATATTTCA
1 AT--ATATATTATGTATATATTTTT
*
111169546 ATACTATATTATGTATACATTTTTT
1 ATA-TATATTATGTATATA-TTTTT
*
111169571 ATATATATTACGTATATATATCTTT
1 ATATATATTATGTATATAT-T-TTT
* *
111169596 TTA-ATA-T-TGTAT-T-TTTAT
1 ATATATATTATGTATATATTTTT
* * *
111169614 ATATGTCATGTA--TATAT-TTCTA
1 ATATAT-AT-TATGTATATATTTTT
*
111169636 ATACTATATTA--CAT-T-TTTTT
1 ATA-TATATTATGTATATATTTTT
*
111169656 ACATATTATCTTATGTATATATTTTTT
1 --ATA-TATATTATGTATATA-TTTTT
* *
111169683 AAAACTATATTATGTATGTATTTTT
1 -ATA-TATATTATGTATATATTTTT
* * * *
111169708 AACACTATATTACGTACATACTTTTA
1 -ATA-TATATTATGTATATA-TTTTT
111169734 ATATCATTATTATGTATATATTTTT
1 ATAT-A-TATTATGTATATATTTTT
*
111169759 A-ATATATATATGTGTATA--TTT
1 ATATATAT-TATGTATATATTTTT
*
111169780 ATGTAGTATTAT-TA-ATAGTTGTTT
1 ATATA-TATTATGTATATA-TT-TTT
* *
111169804 TTA-ATATTAT-TAT-TATTTCTA
1 ATATATATTATGTATATATTT-TT
*
111169825 ATATGTATATAT-TATATATATTTT
1 ATATATAT-TATGTATATAT-TTTT
* *
111169849 -CA-ATACTATGTATATACTTTTT
1 ATATATATTATGTATATA-TTTTT
* *
111169871 AATACTATTATTATGTTTATATTTTA
1 -ATA-TA-TATTATGTATATATTTTT
111169897 ATATATA-TATGTAT
1 ATATATATTATGTAT
111169911 TTATATAGGT
Statistics
Matches: 439, Mismatches: 74, Indels: 151
0.66 0.11 0.23
Matches are distributed among these distances:
18 8 0.02
19 9 0.02
20 49 0.11
21 34 0.08
22 73 0.17
23 71 0.16
24 63 0.14
25 67 0.15
26 42 0.10
27 18 0.04
28 5 0.01
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (23 bp):
ATATATATTATGTATATATTTTT
Found at i:111169484 original size:21 final size:23
Alignment explanation
Indices: 111169301--111169395 Score: 61
Period size: 23 Copynumber: 4.0 Consensus size: 23
111169291 CATTTCTAAT
* *
111169301 ATATATATATCGTATATGT-TTTT
1 ATATATATAT-GTATATATCTTTA
*
111169324 ATATATATTATGTATATATTTTTA
1 ATATATA-TATGTATATATCTTTA
*
111169348 ATAT-TAT-TAGTTATATATCTTTT
1 ATATATATAT-G-TATATATCTTTA
* *
111169371 ATACTATTTCATGTATATATTTTTA
1 ATA-TATAT-ATGTATATATCTTTA
111169396 TATTAACCTT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
21 1 0.02
22 2 0.04
23 29 0.51
24 11 0.19
25 12 0.21
26 1 0.02
27 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (23 bp):
ATATATATATGTATATATCTTTA
Found at i:111169695 original size:26 final size:24
Alignment explanation
Indices: 111169605--111169910 Score: 150
Period size: 25 Copynumber: 13.0 Consensus size: 24
111169595 TTTAATATTG
* *
111169605 TATTTTT-ATATATGTCATGTATA
1 TATTTTTAATATATATTATGTATA
* *
111169628 TATTTCTAATACTATATTA--CAT-
1 TATTTTTAATA-TATATTATGTATA
*
111169650 T-TTTTTACATATTATCTTATGTATA
1 TATTTTTA-ATA-TATATTATGTATA
* *
111169675 TATTTTTTAAAACTATATTATGTATG
1 TA-TTTTTAATA-TATATTATGTATA
* * *
111169701 TATTTTTAACACTATATTACGTACA
1 TATTTTTAATA-TATATTATGTATA
*
111169726 TACTTTTAATATCATTATTATGTATA
1 TATTTTTAATAT-A-TATTATGTATA
*
111169752 TATTTTTAATATATA-TATGTGTA
1 TATTTTTAATATATATTATGTATA
*
111169775 TA--TTT-ATGTAGTATTAT-TA-A
1 TATTTTTAATATA-TATTATGTATA
*
111169795 TAGTTGTTT-TTA-ATATTAT-TAT-
1 TA-TT-TTTAATATATATTATGTATA
* *
111169817 TATTTCTAATATGTATATAT-TATA
1 TATTTTTAATATATAT-TATGTATA
* *
111169841 TATATTTT--CA-ATACTATGTATA
1 TAT-TTTTAATATATATTATGTATA
*
111169863 TACTTTTTAATACTATTATTATGTTTA
1 TA-TTTTTAATA-TA-TATTATGTATA
111169890 TA-TTTTAATATATA-TATGTAT
1 TATTTTTAATATATATTATGTAT
111169911 TTATATAGGT
Statistics
Matches: 217, Mismatches: 37, Indels: 59
0.69 0.12 0.19
Matches are distributed among these distances:
20 9 0.04
21 18 0.08
22 44 0.20
23 28 0.13
24 18 0.08
25 47 0.22
26 36 0.17
27 17 0.08
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TATTTTTAATATATATTATGTATA
Found at i:111169864 original size:20 final size:21
Alignment explanation
Indices: 111169839--111169878 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
111169829 GTATATATTA
111169839 TATATA-TTTTCAATACTATG
1 TATATACTTTTCAATACTATG
*
111169859 TATATACTTTTTAATACTAT
1 TATATACTTTTCAATACTAT
111169879 TATTATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TATATACTTTTCAATACTATG
Found at i:111175187 original size:21 final size:21
Alignment explanation
Indices: 111175157--111175209 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
111175147 ACATAAATAT
* * *
111175157 ATATACACATATATATTAAAG
1 ATATACACATACATAATAAAC
*
111175178 ATATATACATACATAATAAAC
1 ATATACACATACATAATAAAC
*
111175199 ATATACCCATA
1 ATATACACATA
111175210 TTAATAATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (21 bp):
ATATACACATACATAATAAAC
Found at i:111175328 original size:21 final size:21
Alignment explanation
Indices: 111175287--111175329 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
111175277 AATAATACTA
* *
111175287 AAAAATATATACATGATATAT
1 AAAAACATATACATGAAATAT
111175308 AAAAACATATACGAT-AAATAT
1 AAAAACATATAC-ATGAAATAT
111175329 A
1 A
111175330 TATATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAAACATATACATGAAATAT
Found at i:111175677 original size:12 final size:12
Alignment explanation
Indices: 111175662--111175691 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
111175652 TAGTAGTGAA
*
111175662 AATAATGAGTAT
1 AATAATGAATAT
111175674 AATAATGAATAT
1 AATAATGAATAT
111175686 AATAAT
1 AATAAT
111175692 ATATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (12 bp):
AATAATGAATAT
Found at i:111175846 original size:24 final size:24
Alignment explanation
Indices: 111175796--111175859 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
111175786 ATACAATAAT
*
111175796 AATATGTATATAACGTAGCATTAA
1 AATATGTATATAACATAGCATTAA
* * * *
111175820 AATATGTGTATAATATAGTATTTA
1 AATATGTATATAACATAGCATTAA
*
111175844 AATATATATAT-ACATA
1 AATATGTATATAACATA
111175860 ATAGATATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (24 bp):
AATATGTATATAACATAGCATTAA
Found at i:111176698 original size:26 final size:26
Alignment explanation
Indices: 111176668--111176725 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
111176658 TATATATTCG
*
111176668 AAGAAAAG-AGAGAAAAAATAAAATAA
1 AAGAAAAGAAAAG-AAAAATAAAATAA
*
111176694 AAGAAAAGAAAAGAAAAATAAACTAA
1 AAGAAAAGAAAAGAAAAATAAAATAA
111176720 AGAGAA
1 A-AGAA
111176726 GATCGAGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.07
Consensus pattern (26 bp):
AAGAAAAGAAAAGAAAAATAAAATAA
Found at i:111178056 original size:73 final size:73
Alignment explanation
Indices: 111177906--111178183 Score: 348
Period size: 73 Copynumber: 3.7 Consensus size: 73
111177896 TATGAGCCGG
111177906 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCAGAAATTGAAAATT-CCTC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAA-CAGAAATTG-AAATTACCTC
111177970 AGCGTGCCATGA
62 AGCGTGCCATGA
* * *
111177982 GGCTCAACTCATCTCTCGCAATATGAGTTGA-GTTTTGACAAACAGAAGTTGAAATTACCTCAGC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAATTACCTCAGC
111178046 GTGTCC-TGA
65 GTG-CCATGA
* * * *
111178055 GGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGATAGAAACTGAAAATACCTCAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAA-ACAGAAATTGAAATTACCTCAG
*
111178120 CGTGCCTTGA
64 CGTGCCATGA
* * *
111178130 GGCTCAACTCACCTCTAGCAATATGAATTGA-TTTTTGAAAAACATAAATTGAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTGAAA
111178184 AATAGAATTT
Statistics
Matches: 179, Mismatches: 15, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
72 5 0.03
73 72 0.40
74 14 0.08
75 58 0.32
76 30 0.17
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (73 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
TGCCATGA
Found at i:111178238 original size:87 final size:87
Alignment explanation
Indices: 111178091--111178271 Score: 249
Period size: 87 Copynumber: 2.1 Consensus size: 87
111178081 GTTGAATTTT
*
111178091 TTGAAAGATAGAAACTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTGAAAAATAGAAACTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTAGCAATATGA
*
111178156 ATTGA-TTTTTGAAAAACATAAA
66 ATT-ATTTTTTGAAAAACAGAAA
** * *
111178178 TTGAAAAATAGAATTTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAATAGAAACTGAAAATACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTAGCAATATG
* * *
111178242 AGTTATTTTTTGAAAGATAGAAA
65 AATTATTTTTTGAAAAACAGAAA
111178265 TTGAAAA
1 TTGAAAA
111178272 TACCTCAACG
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
86 1 0.01
87 80 0.96
88 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (87 bp):
TTGAAAAATAGAAACTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTAGCAATATGA
ATTATTTTTTGAAAAACAGAAA
Found at i:111178297 original size:73 final size:72
Alignment explanation
Indices: 111178182--111178337 Score: 233
Period size: 73 Copynumber: 2.2 Consensus size: 72
111178172 CATAAATTGA
* * *
111178182 AAAATAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-
1 AAAATAGAAATTGAAAATACCTCAACGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTG
111178246 ATTTTTTG
66 A-TTTTTG
* *
111178254 AAAGATAGAAATTGAAAATACCTCAACGTTTCTTGAGACTCAACTCACCTCTCGCAATATGAGTT
1 AAA-ATAGAAATTGAAAATACCTCAACGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTT
111178319 GATTTTTG
65 GATTTTTG
*
111178327 AAAACAGAAAT
1 AAAATAGAAAT
111178338 AAAAACATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
72 10 0.13
73 65 0.86
74 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (72 bp):
AAAATAGAAATTGAAAATACCTCAACGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:111178303 original size:160 final size:161
Alignment explanation
Indices: 111178016--111178330 Score: 524
Period size: 160 Copynumber: 2.0 Consensus size: 161
111178006 GAGTTGAGTT
* *
111178016 TTGACAAACAGAAGTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAGTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
111178081 GTTGAATTTTTTGAAAGATAGAAACTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCT
66 GTT-AATTTTTTGAAAGATAGAAACTGAAAATACCTCAACGTGCCTTGAGACTCAACTCACCTCT
111178146 AGCAATATGAATTGATTTTTGAAAAACATAAA
130 AGCAATATGAATTGATTTTTGAAAAACATAAA
* *
111178178 TTGAAAAATAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAGTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* ** *
111178243 GTT-ATTTTTTGAAAGATAGAAATTGAAAATACCTCAACGTTTCTTGAGACTCAACTCACCTCTC
66 GTTAATTTTTTGAAAGATAGAAACTGAAAATACCTCAACGTGCCTTGAGACTCAACTCACCTCTA
*
111178307 GCAATATGAGTTGATTTTTGAAAA
131 GCAATATGAATTGATTTTTGAAAA
111178331 CAGAAATAAA
Statistics
Matches: 143, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
160 79 0.55
162 64 0.45
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (161 bp):
TTGAAAAACAGAAGTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTAATTTTTTGAAAGATAGAAACTGAAAATACCTCAACGTGCCTTGAGACTCAACTCACCTCTA
GCAATATGAATTGATTTTTGAAAAACATAAA
Found at i:111189846 original size:5 final size:5
Alignment explanation
Indices: 111189838--111189871 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
111189828 GAAAAGAGAG
*
111189838 AAAAT AAAAT AAAAT AAAAT AAAAAT AAACT AAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAA
111189872 GAGAAGATCG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:111189864 original size:11 final size:11
Alignment explanation
Indices: 111189838--111189871 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
111189828 GAAAAGAGAG
111189838 AAAATAAAAT-
1 AAAATAAAATA
111189848 AAAATAAAATA
1 AAAATAAAATA
*
111189859 AAAATAAACTA
1 AAAATAAAATA
111189870 AA
1 AA
111189872 GAGAAGATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:111196128 original size:21 final size:20
Alignment explanation
Indices: 111196104--111196142 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
111196094 TAATATTAAT
111196104 TTCAAAAAGAAAATAAAAAAA
1 TTCAAAAA-AAAATAAAAAAA
* *
111196125 TTCACAAAAAAGTAAAAA
1 TTCAAAAAAAAATAAAAA
111196143 GATTGGAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (20 bp):
TTCAAAAAAAAATAAAAAAA
Found at i:111203201 original size:11 final size:11
Alignment explanation
Indices: 111203177--111203210 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
111203167 ACAAAAAAAA
111203177 TTTAAT-TT-T
1 TTTAATATTAT
111203186 TTTAATATTAT
1 TTTAATATTAT
111203197 TTTAATATTAT
1 TTTAATATTAT
111203208 TTT
1 TTT
111203211 TTTCTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.26
10 2 0.09
11 15 0.65
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTAATATTAT
Found at i:111203262 original size:22 final size:22
Alignment explanation
Indices: 111203205--111203262 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
111203195 ATTTTAATAT
* * * *
111203205 TATTTTTTTCTTATTTTGCTGC
1 TATTTTATTATTATGTTGCTAC
* *
111203227 CATTTTACTATTATGTTGCTAC
1 TATTTTATTATTATGTTGCTAC
*
111203249 TATTTTATTGTTAT
1 TATTTTATTATTAT
111203263 TGTTTGAGTA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.17, C:0.12, G:0.09, T:0.62
Consensus pattern (22 bp):
TATTTTATTATTATGTTGCTAC
Found at i:111203981 original size:2 final size:2
Alignment explanation
Indices: 111203974--111204001 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
111203964 AACAAATTTC
111203974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111204002 TGTTATGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111205293 original size:130 final size:131
Alignment explanation
Indices: 111205089--111205328 Score: 308
Period size: 130 Copynumber: 1.8 Consensus size: 131
111205079 GGTAAAATTC
* * * * * * *
111205089 CTTTGTAGCTCTTTCAAAATTTTAAAATTATAAGTTAGTATAATGGTAAATTTGTATTTTTAATC
1 CTTTGTAGCCCTTTCAAAATTTTAAAAATACAAGTTAGTATAATGGTAAATTTGCATATTAAACC
* * * *
111205154 CTTCTAAAAAAT-TATGATTTATCTTTGACCC-CTTTAAGCAATTTTCTGGCTTCACCTTTGATT
66 CCTC-CAAAAATCTATGATTCATCTTTGACCCTCTTAAAGCAATTTTCTGGCTTCACCTTTGATT
111205217 TA
130 TA
* *
111205219 CTTTGTAGCCCTTT-AAATTTTTTAAAAAATACAAGTTAGTATAATGGTATATTTGCA-ATTAAA
1 CTTTGTAGCCCTTTCAAA-ATTTT-AAAAATACAAGTTAGTATAATGGTAAATTTGCATATTAAA
111205282 CCCCTCCAAAAATCTATGATTCATCTTTGACCCTCTTAAAGCAATTT
64 CCCCTCCAAAAATCTATGATTCATCTTTGACCCTCTTAAAGCAATTT
111205329 GTTTTGCAAC
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
129 9 0.10
130 43 0.46
131 41 0.44
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (131 bp):
CTTTGTAGCCCTTTCAAAATTTTAAAAATACAAGTTAGTATAATGGTAAATTTGCATATTAAACC
CCTCCAAAAATCTATGATTCATCTTTGACCCTCTTAAAGCAATTTTCTGGCTTCACCTTTGATTT
A
Found at i:111205570 original size:126 final size:125
Alignment explanation
Indices: 111205108--111205577 Score: 398
Period size: 126 Copynumber: 3.7 Consensus size: 125
111205098 TCTTTCAAAA
* * * * *
111205108 TTTT-AAAATTATAAGTTAGTATAATGGTAAATTTGT-ATTTTTAATCCTTCTAAAAAATTATGA
1 TTTTAAAAATTATAAGTTAGTATAATGGTAAATTT-TCA-GTTTAACCCCTCCAAAAATTTATGA
* * * * * *
111205171 TTTATCTTTGACCCCTTTAAGCAATTTTCTGGCTT-CACCTTTGATTTACTTTGTAGCC-CTTTA
64 TTCATCTTTGACCTCTTAAAGCAATTTGCT---TTGC-CC-CTGATTTGCTTTGTAGCCTCTTT-
111205234 AATT
123 -ATT
* * * * * * *
111205238 TTTTAAAAAATACAAGTTAGTATAATGGTATATTTGCAATTAAACCCCTCCAAAAATCTATGATT
1 TTTTAAAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTAACCCCTCCAAAAATTTATGATT
* **
111205303 CATCTTTGACCCTCTTAAAGCAATTTGTTTTGCAACTGATTTGCTTTGTAGCCTCTTTA--
66 CATCTTTGA-CCTCTTAAAGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTCTTTATT
* ** * * * * * * *
111205362 ATAAAAAAATTATAAGCTAATATAATGATAAAATTTCAAG-TTGACCCTTCAAAAAATTTATGAT
1 TTTTAAAAATTATAAGTTAGTATAATGGTAAATTTTC-AGTTTAACCCCTCCAAAAATTTATGAT
* *
111205426 TCATCTCTGGTCCT-TTAAAGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTCTTTGATT
65 TCATCT-TTGACCTCTTAAAGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTCTTT-ATT
*** *
111205488 TTTTTTTAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTGACCCCTCCAAAAATTTATGATT
1 TTTTAAAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTAACCCCTCCAAAAATTTATGATT
* * * *
111205553 AATCTTTTATCTCTTAAAACAATTT
66 CATCTTTGACCTCTTAAAGCAATTT
111205578 TTTTGGCTTC
Statistics
Matches: 268, Mismatches: 60, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
123 41 0.15
124 55 0.21
125 8 0.03
126 66 0.25
127 16 0.06
128 6 0.02
129 1 0.00
130 32 0.12
131 43 0.16
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.43
Consensus pattern (125 bp):
TTTTAAAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTAACCCCTCCAAAAATTTATGATT
CATCTTTGACCTCTTAAAGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTCTTTATT
Found at i:111206793 original size:21 final size:21
Alignment explanation
Indices: 111206769--111206808 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
111206759 ACATTATATA
*
111206769 TATTGATTAATTATAATAAAT
1 TATTAATTAATTATAATAAAT
* *
111206790 TATTAATTTATTATTATAA
1 TATTAATTAATTATAATAA
111206809 TTAAGTCATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TATTAATTAATTATAATAAAT
Found at i:111207142 original size:18 final size:18
Alignment explanation
Indices: 111207119--111207161 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
111207109 ATTTAAGGTG
111207119 TAATTAATTTAAATTT-TT
1 TAATTAA-TTAAATTTATT
111207137 TAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
111207155 TAATTAA
1 TAATTAA
111207162 AAATCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:111210780 original size:37 final size:37
Alignment explanation
Indices: 111210716--111210786 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
111210706 TTGGCCACAT
* **
111210716 CTTTTTTGTTTTATTTTAGGTTGACATGATCCACTTC
1 CTTTTTTGTTTTATTTTAGATCAACATGATCCACTTC
*
111210753 CTTTTTTGTTTTATTTTAGATCAACATGGTCCAC
1 CTTTTTTGTTTTATTTTAGATCAACATGATCCAC
111210787 ATCATTATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.18, C:0.17, G:0.13, T:0.52
Consensus pattern (37 bp):
CTTTTTTGTTTTATTTTAGATCAACATGATCCACTTC
Found at i:111221181 original size:14 final size:14
Alignment explanation
Indices: 111221116--111221181 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 14
111221106 ACTAGCTATA
111221116 AAAAAATAATATTT
1 AAAAAATAATATTT
* *
111221130 TAATAA-AA-A-TT
1 AAAAAATAATATTT
111221141 AAAAAATAATATTT
1 AAAAAATAATATTT
* *
111221155 TAATAA-AA-A-TT
1 AAAAAATAATATTT
111221166 AAAAAATAATATTT
1 AAAAAATAATATTT
111221180 AA
1 AA
111221182 TGTAAAAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
11 12 0.32
12 6 0.16
13 6 0.16
14 14 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAAAATAATATTT
Found at i:111221190 original size:26 final size:25
Alignment explanation
Indices: 111221116--111221179 Score: 128
Period size: 25 Copynumber: 2.6 Consensus size: 25
111221106 ACTAGCTATA
111221116 AAAAAATAATATTTTAATAAAAATT
1 AAAAAATAATATTTTAATAAAAATT
111221141 AAAAAATAATATTTTAATAAAAATT
1 AAAAAATAATATTTTAATAAAAATT
111221166 AAAAAATAATATTT
1 AAAAAATAATATTT
111221180 AATGTAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
AAAAAATAATATTTTAATAAAAATT
Found at i:111223836 original size:35 final size:35
Alignment explanation
Indices: 111223796--111223878 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 35
111223786 TTTCAATAGC
* * *
111223796 CATACTTTACATGCAAATCAAAATCTGTGTAATGG
1 CATACTTAACATGCAAATCAAAACCGGTGTAATGG
* * *
111223831 CATACTTAACATGTAGATCACAACCGGTGTAATGG
1 CATACTTAACATGCAAATCAAAACCGGTGTAATGG
*
111223866 CATGCTTAACATG
1 CATACTTAACATG
111223879 TGAATCAGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (35 bp):
CATACTTAACATGCAAATCAAAACCGGTGTAATGG
Found at i:111228438 original size:53 final size:53
Alignment explanation
Indices: 111228297--111228447 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
111228287 ATAAGTGCGC
* **
111228297 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
111228350 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
111228403 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
111228448 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:111231715 original size:29 final size:30
Alignment explanation
Indices: 111231656--111231713 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
111231646 TCCGAGCCTT
*
111231656 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
111231686 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
111231714 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:111231943 original size:13 final size:13
Alignment explanation
Indices: 111231925--111231956 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
111231915 TTTCCAGCAA
111231925 TTATGAATTTATT
1 TTATGAATTTATT
111231938 TTATGAATTTATT
1 TTATGAATTTATT
*
111231951 TGATGA
1 TTATGA
111231957 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:111232164 original size:50 final size:50
Alignment explanation
Indices: 111232051--111232292 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
111232041 ATTTGGGTAA
* * *
111232051 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
111232107 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
111232157 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
111232207 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
111232257 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
111232293 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:111232240 original size:100 final size:103
Alignment explanation
Indices: 111232051--111232300 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
111232041 ATTTGGGTAA
111232051 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
111232116 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
111232157 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
111232219 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
111232257 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
111232301 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:111238646 original size:53 final size:53
Alignment explanation
Indices: 111238580--111238699 Score: 188
Period size: 53 Copynumber: 2.3 Consensus size: 53
111238570 ATAAGTGCGC
* *
111238580 CCGTTTAAGACCATAGC-AGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTA-GGCTATGGCATCGGTACAATGTGATAATGTGACT
* *
111238633 CCGTATAAGACCATAGCTAGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTAGGCTATGGCATCGGTACAATGTGATAATGTGACT
111238686 CCGTATAAGACCAT
1 CCGTATAAGACCAT
111238700 GTTGGGATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
53 61 0.98
54 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTAGGCTATGGCATCGGTACAATGTGATAATGTGACT
Found at i:111248734 original size:5 final size:5
Alignment explanation
Indices: 111248724--111248748 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
111248714 ATTATAGTAA
111248724 TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT
111248749 CAACCTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:111252651 original size:23 final size:25
Alignment explanation
Indices: 111252622--111252715 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 25
111252612 ATCAGTAATG
* *
111252622 TATATAAAATAATTCAAATAA-G-A
1 TATATAAAATAATTAAAAGAATGAA
*
111252645 TATATAAAAAAATTAAAAGAATGAA
1 TATATAAAATAATTAAAAGAATGAA
* **
111252670 TAATATAAAATAACTTACAATCATGAA
1 T-ATATAAAATAA-TTAAAAGAATGAA
111252697 TAATATAATAATAA-TAAAA
1 T-ATATAA-AATAATTAAAA
111252716 TAGTAATAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
23 18 0.31
24 1 0.02
25 2 0.03
26 14 0.24
27 18 0.31
28 5 0.09
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (25 bp):
TATATAAAATAATTAAAAGAATGAA
Found at i:111252707 original size:3 final size:3
Alignment explanation
Indices: 111252695--111252874 Score: 84
Period size: 3 Copynumber: 60.3 Consensus size: 3
111252685 TACAATCATG
* *
111252695 AAT AAT -AT AAT AAT AAT AA- AAT AGT AAT AAT AAC AAT GAAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * * * * * * * *
111252738 GAT AAT AGT AAA AAA AAT ATT AGT AAG AAT AAT ACT AAG GAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * * *
111252784 AAT GAT ATT AA- AAT AAGGG AAT ATT AAT AAC AAC AAT -AT AAAT AAT
1 AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * *
111252830 AAT AAT AAT AAT AAC AAT AAT AGT AAT AA- AAT AAT AAA AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
111252875 GTATTAATAG
Statistics
Matches: 130, Mismatches: 36, Indels: 22
0.69 0.19 0.12
Matches are distributed among these distances:
2 12 0.09
3 109 0.84
4 7 0.05
5 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:111254402 original size:16 final size:18
Alignment explanation
Indices: 111254377--111254417 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
111254367 AGAACTAATT
*
111254377 AAAAATAAATAATG-C-A
1 AAAAAAAAATAATGACTA
*
111254393 AAAAAAAAATTATGACTA
1 AAAAAAAAATAATGACTA
111254411 AAAAAAA
1 AAAAAAA
111254418 TAAGATAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 12 0.57
17 1 0.05
18 8 0.38
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAAAAAAATAATGACTA
Found at i:111256780 original size:64 final size:64
Alignment explanation
Indices: 111256696--111256872 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
111256686 ATATATATTT
*
111256696 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
111256760 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
111256824 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
111256873 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:111257048 original size:41 final size:41
Alignment explanation
Indices: 111256991--111257386 Score: 499
Period size: 41 Copynumber: 9.9 Consensus size: 41
111256981 TATATGAGAT
111256991 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
111257032 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGT-GATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
* *
111257072 TTTTAGACTTAATG-CTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
111257112 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGT-GATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
* *
111257152 TTT-AGACTT-ATGTCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
*
111257191 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
* * * *
111257232 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGT-GATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
*
111257272 TTTCA-GCTT-ATG-CTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
* * * * * * *
111257310 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG-GATTA
* * ** *
111257352 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
111257387 TTTTATATAG
Statistics
Matches: 316, Mismatches: 27, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
37 20 0.06
38 33 0.10
39 39 0.12
40 60 0.19
41 157 0.50
42 7 0.02
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (41 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
Found at i:111257204 original size:79 final size:82
Alignment explanation
Indices: 111257006--111257386 Score: 568
Period size: 80 Copynumber: 4.8 Consensus size: 82
111256996 GGCTTAATGC
111257006 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG-AT
1 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
*
111257070 TATTTTAGACTTAATG-
66 TATTTTAGACTTTATGT
111257086 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG-AT
1 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
111257150 TA-TTTAGAC-TTATGT
66 TATTTTAGACTTTATGT
111257165 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
1 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
111257230 TATTTTAGACTTTATGT
66 TATTTTAGACTTTATGT
111257247 CTAGCAGGCTTGATGCCGGT-GATTATTTCA-GCTT-ATG-CTAGCAGGCTTGATGCCGGTGAAT
1 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
* **
111257308 TAATTCCGACTTTATGT
66 TATTTTAGACTTTATGT
* * * * ** *
111257325 CTAGCAGGCTTTG-TGCCGGTGAAATGA-ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 CTAGCAGGC-TTGATGCCGGTG-GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
111257387 TTTTATATAG
Statistics
Matches: 281, Mismatches: 10, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
78 58 0.21
79 77 0.27
80 81 0.29
81 19 0.07
82 46 0.16
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (82 bp):
CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
TATTTTAGACTTTATGT
Found at i:111257370 original size:119 final size:118
Alignment explanation
Indices: 111256991--111257386 Score: 521
Period size: 119 Copynumber: 3.3 Consensus size: 118
111256981 TATATGAGAT
*
111256991 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGC
1 TTTCAGGCTTTATGCCTAGCAGGCTTGATGCCGGT-GATTATTTCA-GCTT-ATGCCTAGCAGGC
* *
111257056 TTGATGCCGGTGATTATTTTAGACTTAATGCTAGCAGGCTTGATGCCGGTGGATTA
63 TTGATGCCGGTGATTATTTCAGACTTAATGCTAGCAGGCTTGATGCCGGTGAATTA
* *
111257112 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGATTATTT-AGACTTATGTCTAGCAGGCTT
1 TTTCAGGCTTTATGCCTAGCAGGCTTGATGCCGGTGATTATTTCAG-CTTATGCCTAGCAGGCTT
*
111257176 GATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
65 GATGCCGGT-GATTATTTCAGACTTAATG-CTAGCAGGCTTGATGCCGGTGAATTA
* * *
111257232 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGATTATTTCAGCTTATG-CTAGCAGGCTTG
1 TTTCAGGCTTTATGCCTAGCAGGCTTGATGCCGGTGATTATTTCAGCTTATGCCTAGCAGGCTTG
* * * *
111257296 ATGCCGGTGAATTAATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
66 ATGCCGGTG-ATTATTTCAGACTTAATG-CTAGCAGGC-TTGATGCCGGTG-AATTA
* * * *
111257352 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTTATGCCTAGCAGGCTTGATGCCGGTG
111257387 TTTTATATAG
Statistics
Matches: 247, Mismatches: 21, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
118 25 0.10
119 100 0.40
120 85 0.34
121 37 0.15
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (118 bp):
TTTCAGGCTTTATGCCTAGCAGGCTTGATGCCGGTGATTATTTCAGCTTATGCCTAGCAGGCTTG
ATGCCGGTGATTATTTCAGACTTAATGCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:111258077 original size:14 final size:15
Alignment explanation
Indices: 111258053--111258087 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
111258043 TACTTTAATC
111258053 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
111258068 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
111258083 ATGGT
1 ATGGT
111258088 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:111263437 original size:64 final size:64
Alignment explanation
Indices: 111263353--111263529 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
111263343 ATATATATTT
*
111263353 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
111263417 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
111263481 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
111263530 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:111263705 original size:41 final size:41
Alignment explanation
Indices: 111263648--111264048 Score: 526
Period size: 41 Copynumber: 9.9 Consensus size: 41
111263638 TATATGAGAT
*
111263648 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
111263689 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
111263730 TTTTAGACTT-ATGTCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
111263770 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
111263811 TTTTAGACTT-ATGTCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
111263851 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
111263892 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTG-ATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
111263932 TTTCAGGCTTAATG-CTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * * * *
111263972 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG-AATTA
* * ** *
111264014 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
111264049 TTTTATATAG
Statistics
Matches: 318, Mismatches: 35, Indels: 14
0.87 0.10 0.04
Matches are distributed among these distances:
39 21 0.07
40 103 0.32
41 187 0.59
42 7 0.02
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (41 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:111263798 original size:81 final size:82
Alignment explanation
Indices: 111263663--111264048 Score: 622
Period size: 81 Copynumber: 4.8 Consensus size: 82
111263653 GGCTTAATGC
111263663 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
1 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
111263728 TATTTTAGAC-TTATGT
66 TATTTTAGACTTTATGT
111263744 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
1 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
111263809 TATTTTAGAC-TTATGT
66 TATTTTAGACTTTATGT
111263825 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
1 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
111263890 TATTTTAGACTTTATGT
66 TATTTTAGACTTTATGT
111263907 CTAGCAGGCTTGATGCCGGT-GATTATTTCAGGCTTAATG-CTAGCAGGCTTGATGCCGGTGAAT
1 CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
* **
111263970 TAATTCCGACTTTATGT
66 TATTTTAGACTTTATGT
* * * * ** *
111263987 CTAGCAGGCTTTG-TGCCGGTGAAATGA-ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 CTAGCAGGC-TTGATGCCGGTG-GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
111264049 TTTTATATAG
Statistics
Matches: 290, Mismatches: 10, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
80 54 0.19
81 187 0.64
82 49 0.17
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (82 bp):
CTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAAT
TATTTTAGACTTTATGT
Found at i:111264740 original size:14 final size:15
Alignment explanation
Indices: 111264716--111264750 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
111264706 TACTTTAATC
111264716 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
111264731 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
111264746 ATGGT
1 ATGGT
111264751 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:111265330 original size:15 final size:15
Alignment explanation
Indices: 111265310--111265338 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
111265300 CTCGATTCAT
111265310 TAACTCAATTTTTAC
1 TAACTCAATTTTTAC
111265325 TAACTCAATTTTTA
1 TAACTCAATTTTTA
111265339 GGATGTGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.48
Consensus pattern (15 bp):
TAACTCAATTTTTAC
Found at i:111267150 original size:20 final size:21
Alignment explanation
Indices: 111267113--111267156 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
111267103 TAACATAATA
111267113 ATAGTATTAAAAAGTATATAC
1 ATAGTATTAAAAAGTATATAC
111267134 ATAGTATTAAAAA-TATATAC
1 ATAGTATTAAAAAGTATATAC
111267154 ATA
1 ATA
111267157 ATATAGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (21 bp):
ATAGTATTAAAAAGTATATAC
Found at i:111267156 original size:47 final size:50
Alignment explanation
Indices: 111267076--111267183 Score: 145
Period size: 47 Copynumber: 2.2 Consensus size: 50
111267066 TAATGTTACC
*
111267076 TATATACATACGTATATATTAAAATATTAACATAATAATAG-TATTAAAAAG
1 TATATACATACGTATATA-TAAAATATTAACATAAT-ATAGTTATTAAAAAA
111267127 TATATACATA-GTAT-TA-AAAATA-TATACATAATATAGTTATTAAAAAA
1 TATATACATACGTATATATAAAATATTA-ACATAATATAGTTATTAAAAAA
111267174 TATATACATA
1 TATATACATA
111267184 AAATAATATG
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
46 6 0.11
47 32 0.59
49 2 0.04
50 4 0.07
51 10 0.19
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.36
Consensus pattern (50 bp):
TATATACATACGTATATATAAAATATTAACATAATATAGTTATTAAAAAA
Found at i:111267180 original size:27 final size:26
Alignment explanation
Indices: 111267076--111267329 Score: 115
Period size: 24 Copynumber: 9.6 Consensus size: 26
111267066 TAATGTTACC
* *
111267076 TATATACATACGTATA-TATTAAAATA
1 TATATACATA-ATATAGTATTAAAAAA
*
111267102 T-TA-ACATAATAATAGTATTAAAAAG
1 TATATACATAAT-ATAGTATTAAAAAA
111267127 TATATAC-----ATAGTATT-AAAAA
1 TATATACATAATATAGTATTAAAAAA
111267147 TATATACATAATATAGTTATTAAAAAA
1 TATATACATAATATAG-TATTAAAAAA
* *
111267174 TATATACATAAAATAATATGTAAATATATATA
1 TATATACATAATATAGTAT-T-AA-A-A-A-A
*
111267206 TATATAAATAATATAGTATT--AAAA
1 TATATACATAATATAGTATTAAAAAA
* *
111267230 -ATATACATGATATA-TATAAAATATAA
1 TATATACATAATATAGTATTAAA-A-AA
* *
111267256 TATTAAAAAGATATATATACGTAATATAAAAAAAA
1 TA-T--ATACATA-ATATA-GT-AT-TAAAAA--A
*
111267291 TGTATACATAATATAGTATT--AAAA
1 TATATACATAATATAGTATTAAAAAA
*
111267315 TATTTACATAATATA
1 TATATACATAATATA
111267330 TACATATTAG
Statistics
Matches: 175, Mismatches: 21, Indels: 66
0.67 0.08 0.25
Matches are distributed among these distances:
20 11 0.06
21 8 0.05
22 3 0.02
23 13 0.07
24 24 0.14
25 17 0.10
26 16 0.09
27 24 0.14
28 4 0.02
29 3 0.02
30 7 0.04
31 12 0.07
32 22 0.13
33 2 0.01
34 4 0.02
35 5 0.03
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.36
Consensus pattern (26 bp):
TATATACATAATATAGTATTAAAAAA
Found at i:111267208 original size:16 final size:15
Alignment explanation
Indices: 111267189--111267273 Score: 50
Period size: 16 Copynumber: 5.3 Consensus size: 15
111267179 ACATAAAATA
111267189 ATATGTAAATATATAT
1 ATAT-TAAATATATAT
111267205 ATATATAAATA-ATAT
1 ATAT-TAAATATATAT
111267220 AGTATTAAAAATATACATGAT
1 A-TATT--AAATAT--AT-AT
111267241 ATATATAAA-ATATA-
1 ATAT-TAAATATATAT
* *
111267255 ATATTAAAAAGATAT
1 ATATTAAATATATAT
111267270 ATAT
1 ATAT
111267274 ACGTAATATA
Statistics
Matches: 57, Mismatches: 2, Indels: 21
0.71 0.03 0.26
Matches are distributed among these distances:
13 4 0.07
14 8 0.14
15 11 0.19
16 15 0.26
17 5 0.09
18 2 0.04
19 3 0.05
20 5 0.09
21 4 0.07
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATTAAATATATAT
Found at i:111267243 original size:34 final size:33
Alignment explanation
Indices: 111267195--111267274 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 33
111267185 AATAATATGT
* *
111267195 AAATATATATATATATA-AATAATATAGTATTAA
1 AAATATACATATATATATAA-AATATAATATTAA
111267228 AAATATACATGATATATATAAAATATAATATTAA
1 AAATATACAT-ATATATATAAAATATAATATTAA
* *
111267262 AAAGATATATATA
1 AAATATACATATA
111267275 CGTAATATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 12 0.29
34 27 0.66
35 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (33 bp):
AAATATACATATATATATAAAATATAATATTAA
Found at i:111267270 original size:59 final size:59
Alignment explanation
Indices: 111267138--111267270 Score: 137
Period size: 59 Copynumber: 2.3 Consensus size: 59
111267128 ATATACATAG
* * * *
111267138 TATTAAAAATATATACATAATATAGTTATTAAAAAATATATACATAAAATAATATGTAA
1 TATTAAAAATATATAAATAATATAGTTATTAAAAAATACATACATAAAATAAAATATAA
* * * *
111267197 -ATATATATATATATAAATAATATAG-TATTAAAAATATACAT-GATATATATAAAATATAA
1 TAT-TAAAAATATATAAATAATATAGTTATTAAAAA-ATACATACATA-AAATAAAATATAA
*
111267256 TATTAAAAAGATATA
1 TATTAAAAATATATA
111267271 TATACGTAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
58 14 0.24
59 43 0.73
60 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (59 bp):
TATTAAAAATATATAAATAATATAGTTATTAAAAAATACATACATAAAATAAAATATAA
Found at i:111267296 original size:22 final size:23
Alignment explanation
Indices: 111267252--111267305 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
111267242 TATATAAAAT
*
111267252 ATAATATTAAAAAGATATATATAC
1 ATAATA-TAAAAAGAAATATATAC
* *
111267276 GTAATATAAAAA-AAATGTATAC
1 ATAATATAAAAAGAAATATATAC
111267298 ATAATATA
1 ATAATATA
111267306 GTATTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 15 0.58
23 6 0.23
24 5 0.19
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (23 bp):
ATAATATAAAAAGAAATATATAC
Found at i:111267640 original size:3 final size:3
Alignment explanation
Indices: 111267614--111267691 Score: 52
Period size: 3 Copynumber: 26.0 Consensus size: 3
111267604 AAAATAATTC
* * * * * *
111267614 TAA TAA TAG TAA AAA T-A TAC TAA TAA TAA TGA TAA TAA TGA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
111267661 TAA -ATA TAA TAA TAAA TAA TAT TAA AAA TAA
1 TAA TA-A TAA TAA T-AA TAA TAA TAA TAA TAA
111267692 AAAATGGTAA
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
2 3 0.05
3 48 0.87
4 4 0.07
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:111269010 original size:20 final size:20
Alignment explanation
Indices: 111268963--111269010 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
111268953 GCTAACAAAA
*
111268963 CAGTCACGTAGGTTTCATTT
1 CAGTCACTTAGGTTTCATTT
111268983 CAGTCACTTAGGTTTCATTT
1 CAGTCACTTAGGTTTCATTT
111269003 CAGTCACT
1 CAGTCACT
111269011 CAACTTTGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (20 bp):
CAGTCACTTAGGTTTCATTT
Found at i:111269790 original size:20 final size:20
Alignment explanation
Indices: 111269765--111269807 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
111269755 CAATGTGGCA
111269765 AGTTAACTGGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
*
111269785 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
111269805 AGT
1 AGT
111269808 CCCGTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:111277295 original size:2 final size:2
Alignment explanation
Indices: 111277288--111277313 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
111277278 CTACTGCATG
111277288 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
111277314 GAAATAGGTG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111281714 original size:126 final size:126
Alignment explanation
Indices: 111281561--111281790 Score: 406
Period size: 126 Copynumber: 1.8 Consensus size: 126
111281551 TAGCCTTAAG
* *
111281561 AGGATATTCGAATATTCAAAACAAACAAAGAAGGCGAAACCCAGTACGTTAGGGCACGTTTCTTC
1 AGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATTCTTC
* * * *
111281626 GAATTCTTTAAATATCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGGTAAA
66 GAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAATTTTTTAGAGTGAACTGGTAAA
111281687 AGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATTCTTC
1 AGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATTCTTC
111281752 GAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAA
66 GAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAA
111281791 CAATTGAGAA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 98 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (126 bp):
AGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATTCTTC
GAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAATTTTTTAGAGTGAACTGGTAAA
Found at i:111282337 original size:18 final size:18
Alignment explanation
Indices: 111282314--111282355 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
111282304 ATAATGCTAC
*
111282314 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
111282332 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
111282350 AATAAC
1 AATAAC
111282356 AACAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:111282352 original size:3 final size:3
Alignment explanation
Indices: 111282344--111282521 Score: 68
Period size: 3 Copynumber: 59.3 Consensus size: 3
111282334 TAACGATTAA
* * *
111282344 AAT AAT AAT AAC AAC AAT AA- AAT AGA- AGAC AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT
* * * * * **
111282388 ATT AAT AAA AAT AAT AAT -AT AAA AAT AAT AAA AAT AAA AAT -AT GTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * *
111282434 TCT AAT AAT AAT AAAT CAAT GAT AAT AAAT ATAT ACAA AAT AAT AAT
1 AAT AAT AAT AAT -AAT -AAT AAT AAT -AAT A-AT A-AT AAT AAT AAT
* *
111282481 AAC AGT AAT AA- AAT AAGT -AT AAT -AT AAT AA- ATAT AAT AAT A
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT A-AT AAT AAT A
111282522 TTATTATTAA
Statistics
Matches: 132, Mismatches: 28, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
2 14 0.11
3 100 0.76
4 18 0.14
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:111282402 original size:23 final size:24
Alignment explanation
Indices: 111282374--111282482 Score: 71
Period size: 23 Copynumber: 4.5 Consensus size: 24
111282364 AATAGAAGAC
* *
111282374 AATAATAATAAT-ATATTAATAAA
1 AATAATAATAATAAAAATAATAAA
111282397 AATAATAAT-ATAAAAATAATAAA
1 AATAATAATAATAAAAATAATAAA
* * ***
111282420 AATAAAAATATGTTTCTAATAATAATA
1 AATAATAATA--ATAAAAATAATAA-A
* *
111282447 AATCAATGATAATAAATAT-ATACAA
1 AAT-AATAATAATAAAAATAATA-AA
111282472 AATAATAATAA
1 AATAATAATAA
111282483 CAGTAATAAA
Statistics
Matches: 64, Mismatches: 15, Indels: 13
0.70 0.16 0.14
Matches are distributed among these distances:
22 2 0.03
23 26 0.41
24 7 0.11
25 7 0.11
26 13 0.20
27 4 0.06
28 5 0.08
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (24 bp):
AATAATAATAATAAAAATAATAAA
Found at i:111282409 original size:14 final size:15
Alignment explanation
Indices: 111282391--111282429 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
111282381 ATAATATATT
111282391 AATAAAAATAAT-AA
1 AATAAAAATAATAAA
*
111282405 TATAAAAATAATAAA
1 AATAAAAATAATAAA
111282420 AATAAAAATA
1 AATAAAAATA
111282430 TGTTTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAAAATAATAAA
Found at i:111282414 original size:20 final size:21
Alignment explanation
Indices: 111282377--111282424 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
111282367 AGAAGACAAT
**
111282377 AATAATAATATATTAATAA-A
1 AATAATAATATAAAAATAATA
111282397 AATAATAATATAAAAATAATA
1 AATAATAATATAAAAATAATA
111282418 AA-AATAA
1 AATAATAA
111282425 AAATATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAATAATATAAAAATAATA
Done.