Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 79 of 127
Found at i:15204498 original size:14 final size:14
Alignment explanation
Indices: 15204464--15204504 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
15204454 GATAAAGTAC
*
15204464 ATATTATCATACAA-
1 ATATTAT-AAACAAT
15204478 ATA-TATAAACAAT
1 ATATTATAAACAAT
15204491 ATATTATAAACAAT
1 ATATTATAAACAAT
15204505 TAACAAACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 5 0.21
13 6 0.25
14 13 0.54
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
ATATTATAAACAAT
Found at i:15205207 original size:24 final size:25
Alignment explanation
Indices: 15205171--15205218 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
15205161 ATATCCACAC
* *
15205171 AGTAAATACAACCAATATCCATTAT
1 AGTAAATAAAACCAATATACATTAT
15205196 AGTAAA-AAAACCAATATACATTA
1 AGTAAATAAAACCAATATACATTA
15205219 CACAGAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (25 bp):
AGTAAATAAAACCAATATACATTAT
Found at i:15206040 original size:66 final size:66
Alignment explanation
Indices: 15205905--15206200 Score: 190
Period size: 66 Copynumber: 4.6 Consensus size: 66
15205895 CGCCAACATG
* *
15205905 ATCAATTAAGGTGTTCATATATACAAACGCCTTATTTGATCATGTTTTTATAAATTATAACAAAT
1 ATCAATTAAGGCGTTCATATATACAAACGCCTTAATTGATCATGTTTTTATAAATTATAACAAAT
15205970 T
66 T
* * * **
15205971 ATCAATTAAGGCGTTCATA-ATGAGACATGCCTTAATTGATCATG-TTTTATAAATTA-AATTTA
1 ATCAATTAAGGCGTTCATATAT-ACAAACGCCTTAATTGATCATGTTTTTATAAATTATAA-CAA
15206033 ATAT
64 AT-T
* * ** * * * * *
15206037 ATCATTTAAAGTTTTCATAGTA-ACAAATGCTTTAATTGATGATG-TTTTACAAAATAT-A-AAA
1 ATCAATTAAGGCGTTCATA-TATACAAACGCCTTAATTGATCATGTTTTTATAAATTATAACAAA
15206098 TT
65 TT
* ** * * *
15206100 GTCAATTAAGATGTTCATGT-TAACAAACTCCTT-ATATGATGATG-TTTTATAAATTAT-A-AA
1 ATCAATTAAGGCGTTCATATAT-ACAAACGCCTTAAT-TGATCATGTTTTTATAAATTATAACAA
15206160 ATT
64 ATT
* *
15206163 AAT-AATTAAGACGATCATAT-TAACAAAC-CTCTTAATTG
1 -ATCAATTAAGGCGTTCATATAT-ACAAACGC-CTTAATTG
15206201 TTGATATTTT
Statistics
Matches: 185, Mismatches: 33, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
62 4 0.02
63 74 0.40
64 8 0.04
65 17 0.09
66 81 0.44
68 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.40
Consensus pattern (66 bp):
ATCAATTAAGGCGTTCATATATACAAACGCCTTAATTGATCATGTTTTTATAAATTATAACAAAT
T
Found at i:15206211 original size:63 final size:62
Alignment explanation
Indices: 15205935--15206216 Score: 191
Period size: 63 Copynumber: 4.4 Consensus size: 62
15205925 ATACAAACGC
* * * * * **
15205935 CTTATTTGATCATGTTTTTATAAATTATAACAAATTATCAATTAAGGCGTTCATAATGAGACATG
1 CTTAATTGATGATG-TTTTATAAATTAT-A-AAATTATCAATTAAGACGATCAT-ATTA-ACAAA
15206000 C-
61 CT
* * * *
15206001 CTTAATTGATCATGTTTTATAAATTA-AATTTAATATATCATTTAA-A-GTTTTCATAGTAACAA
1 CTTAATTGATGATGTTTTATAAATTATAA---AAT-TATCAATTAAGACG--ATCATATTAACAA
15206063 A-T
60 ACT
* * * * * *
15206065 GCTTTAATTGATGATGTTTTACAAAATATAAAATTGTCAATTAAGATGTTCATGTTAACAAACT
1 -C-TTAATTGATGATGTTTTATAAATTATAAAATTATCAATTAAGACGATCATATTAACAAACT
15206129 CCTT-ATATGATGATGTTTTATAAATTATAAAATTAAT-AATTAAGACGATCATATTAACAAACC
1 -CTTAAT-TGATGATGTTTTATAAATTATAAAATT-ATCAATTAAGACGATCATATTAACAAA-C
15206192 T
62 T
* *
15206193 CTTAATTGTTGATATTTTATAAAT
1 CTTAATTGATGATGTTTTATAAAT
15206217 AAAAAAAGTC
Statistics
Matches: 176, Mismatches: 23, Indels: 37
0.75 0.10 0.16
Matches are distributed among these distances:
62 3 0.02
63 88 0.50
64 15 0.09
65 19 0.11
66 49 0.28
67 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (62 bp):
CTTAATTGATGATGTTTTATAAATTATAAAATTATCAATTAAGACGATCATATTAACAAACT
Found at i:15207043 original size:18 final size:19
Alignment explanation
Indices: 15207009--15207050 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
15206999 ATATTTGGAT
*
15207009 ATAAAA-ATAATTGTAATA
1 ATAAAATATAATTATAATA
15207027 ATAAAATATAA-TATAATA
1 ATAAAATATAATTATAATA
15207045 A-AAAAT
1 ATAAAAT
15207051 TGAATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 13 0.59
19 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAATATAATTATAATA
Found at i:15209144 original size:30 final size:30
Alignment explanation
Indices: 15209108--15209168 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
15209098 AACCATTAAT
15209108 AATTAAGAACATCATGTACTCTTGTTACTA
1 AATTAAGAACATCATGTACTCTTGTTACTA
15209138 AATTAAGAACATCATGTACTCTTGTTACTA
1 AATTAAGAACATCATGTACTCTTGTTACTA
15209168 A
1 A
15209169 TGGCACATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (30 bp):
AATTAAGAACATCATGTACTCTTGTTACTA
Found at i:15211167 original size:35 final size:34
Alignment explanation
Indices: 15211128--15211248 Score: 127
Period size: 35 Copynumber: 3.5 Consensus size: 34
15211118 CAAAACTTTT
* *
15211128 AAAGGTTCTAGATTCGCAAAGATTTCAAGTTTCGC
1 AAAGGTTCTAGATTCACAAA-ATTTTAAGTTTCGC
* *
15211163 AAAGGTTCCAGATTCATAAAATTTTTAAGTTTCGC
1 AAAGGTTCTAGATTCACAAAA-TTTTAAGTTTCGC
* **
15211198 TAAA-GTTTTAGATTCACAAAAATTTTAAGTTTCAT
1 -AAAGGTTCTAGATTCAC-AAAATTTTAAGTTTCGC
*
15211233 AGAGGTTCTAGATTCA
1 AAAGGTTCTAGATTCA
15211249 TAAGGTTTTA
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
34 3 0.04
35 61 0.86
36 7 0.10
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (34 bp):
AAAGGTTCTAGATTCACAAAATTTTAAGTTTCGC
Found at i:15211586 original size:16 final size:16
Alignment explanation
Indices: 15211567--15211608 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
15211557 AAAAAAATTC
*
15211567 ATATTTAAAAACTATA
1 ATATTTAAAAACTAAA
* *
15211583 ATATTTCACAACTAAA
1 ATATTTAAAAACTAAA
15211599 AT-TTTAAAAA
1 ATATTTAAAAA
15211609 TTTTGATTCG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATTTAAAAACTAAA
Found at i:15211636 original size:46 final size:46
Alignment explanation
Indices: 15211586--15211673 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
15211576 AACTATAATA
* **
15211586 TTTCACAACTAAAATTTTAAAAATTTTGATTCGAAAAATTTTGAGG
1 TTTCACAACTAAAATTTCAAAAATTTACATTCGAAAAATTTTGAGG
* * * *
15211632 TTTCACATCTACAATTTCAAATATTTACATTTGAAAAATTTT
1 TTTCACAACTAAAATTTCAAAAATTTACATTCGAAAAATTTT
15211674 AGAATTTCAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (46 bp):
TTTCACAACTAAAATTTCAAAAATTTACATTCGAAAAATTTTGAGG
Found at i:15211682 original size:46 final size:46
Alignment explanation
Indices: 15211585--15211682 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 46
15211575 AAACTATAAT
* **
15211585 ATTTCACAACTAAAATTTTAAAAATTTTGATTCGAAAAATTTTGAG
1 ATTTCACAACTAAAATTTCAAAAATTTACATTCGAAAAATTTTGAG
* * * * *
15211631 GTTTCACATCTACAATTTCAAATATTTACATTTGAAAAATTTT-AG
1 ATTTCACAACTAAAATTTCAAAAATTTACATTCGAAAAATTTTGAG
15211676 AATTTCA
1 -ATTTCA
15211683 GGTCCAAAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
45 2 0.05
46 40 0.95
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (46 bp):
ATTTCACAACTAAAATTTCAAAAATTTACATTCGAAAAATTTTGAG
Found at i:15213563 original size:19 final size:22
Alignment explanation
Indices: 15213539--15213578 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
15213529 ATGTTTAAAG
15213539 TTTATC-A-AAAAG-ATAATTT
1 TTTATCTATAAAAGTATAATTT
15213558 TTTATCTATAAAAGTATAATT
1 TTTATCTATAAAAGTATAATT
15213579 GGGCTAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 5 0.28
22 6 0.33
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
TTTATCTATAAAAGTATAATTT
Found at i:15214654 original size:25 final size:24
Alignment explanation
Indices: 15214608--15214778 Score: 82
Period size: 24 Copynumber: 6.9 Consensus size: 24
15214598 GGTTTTGAGA
*
15214608 TTTTGAA-GTTTCGAGGTTTTAGGG
1 TTTTGAAGGTTTAG-GGTTTTAGGG
*
15214632 TTTTGAAGGTCTTAGGGTTTTA-GA
1 TTTTGAAGGT-TTAGGGTTTTAGGG
* * * *
15214656 TTTTG-CGGTTTCGAAGGATTTGAAGG
1 TTTTGAAGGTTT---AGGGTTTTAGGG
* *
15214682 TTTTGAGGGTATAGGGTTTT-GAGG
1 TTTTGAAGGTTTAGGGTTTTAG-GG
*
15214706 CTTTGAAGGTTTATAGGGTTTTAGGG
1 TTTTGAAGG-TT-TAGGGTTTTAGGG
* * *
15214732 TTTTTGAAGTTTTTGGATTTTTA-GG
1 -TTTTGAAGGTTTAGG-GTTTTAGGG
**
15214757 TTTTCGAAATTTTAGGGTTTTA
1 TTTT-GAAGGTTTAGGGTTTTA
15214779 TAGTTTTGGA
Statistics
Matches: 112, Mismatches: 21, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
22 2 0.02
23 3 0.03
24 37 0.33
25 31 0.28
26 27 0.24
27 12 0.11
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.47
Consensus pattern (24 bp):
TTTTGAAGGTTTAGGGTTTTAGGG
Found at i:15214659 original size:24 final size:23
Alignment explanation
Indices: 15214598--15214660 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 23
15214588 TTAGGGTTTT
*
15214598 GGTTTTGAGATTTTGAAGTTTCGA
1 GGTTTT-AGATTTTGAAGTTTAGA
*
15214622 GGTTTTAGGGTTTTGAAGGTCTTAG-
1 GGTTTTA-GATTTTGAA-GT-TTAGA
15214647 GGTTTTAGATTTTG
1 GGTTTTAGATTTTG
15214661 CGGTTTCGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 1 0.03
24 20 0.61
25 9 0.27
26 3 0.09
ACGTcount: A:0.17, C:0.03, G:0.32, T:0.48
Consensus pattern (23 bp):
GGTTTTAGATTTTGAAGTTTAGA
Found at i:15214700 original size:49 final size:49
Alignment explanation
Indices: 15214598--15214713 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 49
15214588 TTAGGGTTTT
* * *
15214598 GGTTTTGAGATTTTGAAGTTTCGAGGTTTTAGGGTTTTGAAGGTCTTAG
1 GGTTTTGAGATTTTGAAGTTTCGAGGTTTGAAGGTTTTGAAGGTCATAG
** *
15214647 GGTTTT-AGATTTTGCGGTTTCGAAGGATTTGAAGGTTTTGAGGGT-ATAG
1 GGTTTTGAGATTTTGAAGTTTCG-AGG-TTTGAAGGTTTTGAAGGTCATAG
**
15214696 GGTTTTGAGGCTTTGAAG
1 GGTTTTGAGATTTTGAAG
15214714 GTTTATAGGG
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
48 14 0.26
49 18 0.33
50 22 0.41
ACGTcount: A:0.19, C:0.04, G:0.34, T:0.42
Consensus pattern (49 bp):
GGTTTTGAGATTTTGAAGTTTCGAGGTTTGAAGGTTTTGAAGGTCATAG
Found at i:15214743 original size:26 final size:25
Alignment explanation
Indices: 15214707--15214778 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
15214697 GTTTTGAGGC
15214707 TTTGAAGGTTTATAGGGTTTTAGGGTT
1 TTTGAA-GTTT-TAGGGTTTTAGGGTT
* *
15214734 TTTGAAGTTTTTGGATTTTTA-GGTT
1 TTTGAAGTTTTAGG-GTTTTAGGGTT
* *
15214759 TTCGAAATTTTAGGGTTTTA
1 TTTGAAGTTTTAGGGTTTTA
15214779 TAGTTTTGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 5 0.13
25 18 0.47
26 9 0.24
27 6 0.16
ACGTcount: A:0.19, C:0.01, G:0.26, T:0.53
Consensus pattern (25 bp):
TTTGAAGTTTTAGGGTTTTAGGGTT
Found at i:15217110 original size:18 final size:19
Alignment explanation
Indices: 15217083--15217124 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
15217073 TAATCAATTG
* *
15217083 AAATTGAATTTGGGC-TTT
1 AAATTAAATTTGAGCTTTT
15217101 AAATTAAATTTGAGCTTTT
1 AAATTAAATTTGAGCTTTT
15217120 AAATT
1 AAATT
15217125 CATATGACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (19 bp):
AAATTAAATTTGAGCTTTT
Found at i:15217849 original size:6 final size:5
Alignment explanation
Indices: 15217807--15217846 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
15217797 AACTAACTAA
*
15217807 AAATC AAATT AAATT AAATT AAATT AAACTT AAAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA-TT -AAATT AAA
15217847 ATTTTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 25 0.78
6 4 0.12
7 3 0.09
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (5 bp):
AAATT
Found at i:15220564 original size:2 final size:2
Alignment explanation
Indices: 15220559--15220588 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15220549 TAAGAATTCT
*
15220559 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15220589 AAATAGGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15221496 original size:39 final size:39
Alignment explanation
Indices: 15221453--15221533 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
15221443 TCATCAATAA
15221453 CAAAATCTTTTAAAGATGAGCATTGAATATGATAAAAAC
1 CAAAATCTTTTAAAGATGAGCATTGAATATGATAAAAAC
* *
15221492 CAAAATCTTTTAAAGATGAGCATTGAGTATGATCAAAAC
1 CAAAATCTTTTAAAGATGAGCATTGAATATGATAAAAAC
15221531 CAA
1 CAA
15221534 TGAAATTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (39 bp):
CAAAATCTTTTAAAGATGAGCATTGAATATGATAAAAAC
Found at i:15224183 original size:25 final size:27
Alignment explanation
Indices: 15224155--15224217 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 27
15224145 TTAATTATCC
15224155 AATGATGAAATTTATA-AAAATTTC-A
1 AATGATGAAATTTATATAAAATTTCTA
* *
15224180 AATGGT-AAATTTTTATAAAATTTCTA
1 AATGATGAAATTTATATAAAATTTCTA
*
15224206 AGTGA-GAAATTT
1 AATGATGAAATTT
15224218 TCTCTAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
24 8 0.26
25 13 0.42
26 10 0.32
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (27 bp):
AATGATGAAATTTATATAAAATTTCTA
Found at i:15224215 original size:26 final size:23
Alignment explanation
Indices: 15224161--15224218 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 23
15224151 ATCCAATGAT
*
15224161 GAAATTTATAAAAATTTCAAATG
1 GAAATTTTTAAAAATTTCAAATG
*
15224184 GTAAATTTTTATAAAATTTCTAAGTG
1 G-AAATTTTTA-AAAATTTC-AAATG
15224210 AGAAATTTT
1 -GAAATTTT
15224219 CTCTAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 1 0.03
24 8 0.28
25 8 0.28
26 11 0.38
27 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.41
Consensus pattern (23 bp):
GAAATTTTTAAAAATTTCAAATG
Found at i:15228182 original size:11 final size:10
Alignment explanation
Indices: 15228161--15228203 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
15228151 GATAAAAAAC
15228161 AAAAAAA-AA
1 AAAAAAAGAA
15228170 AAAAAAAGCAA
1 AAAAAAAG-AA
*
15228181 AAAGAAAGAA
1 AAAAAAAGAA
*
15228191 AAAAAATGAA
1 AAAAAAAGAA
15228201 AAA
1 AAA
15228204 TGAATGACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 7 0.24
10 13 0.45
11 9 0.31
ACGTcount: A:0.86, C:0.02, G:0.09, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:15228607 original size:8 final size:8
Alignment explanation
Indices: 15228577--15228641 Score: 60
Period size: 8 Copynumber: 7.8 Consensus size: 8
15228567 ATGGATGAAA
*
15228577 AAAAAAAG
1 AAAAAAAT
*
15228585 AGAAAAAT
1 AAAAAAAT
*
15228593 GAGAAAAAT
1 -AAAAAAAT
15228602 AAAAAAAT
1 AAAAAAAT
15228610 -AAAAAAT
1 AAAAAAAT
15228617 GGAAAAAAAAT
1 ---AAAAAAAT
15228628 AAAAAAAT
1 AAAAAAAT
15228636 AAAAAA
1 AAAAAA
15228642 TGAAAGGATG
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
7 7 0.14
8 27 0.55
9 8 0.16
11 7 0.14
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (8 bp):
AAAAAAAT
Found at i:15228988 original size:52 final size:52
Alignment explanation
Indices: 15228931--15229037 Score: 214
Period size: 52 Copynumber: 2.1 Consensus size: 52
15228921 AATACCAGCT
15228931 TTATTGATAGGCTTTGAATTTATTCCTTTGTCCATTTGTTTTTGTATCGGAC
1 TTATTGATAGGCTTTGAATTTATTCCTTTGTCCATTTGTTTTTGTATCGGAC
15228983 TTATTGATAGGCTTTGAATTTATTCCTTTGTCCATTTGTTTTTGTATCGGAC
1 TTATTGATAGGCTTTGAATTTATTCCTTTGTCCATTTGTTTTTGTATCGGAC
15229035 TTA
1 TTA
15229038 CTTCTTATTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.18, C:0.13, G:0.17, T:0.52
Consensus pattern (52 bp):
TTATTGATAGGCTTTGAATTTATTCCTTTGTCCATTTGTTTTTGTATCGGAC
Found at i:15229853 original size:21 final size:20
Alignment explanation
Indices: 15229831--15230088 Score: 101
Period size: 21 Copynumber: 11.7 Consensus size: 20
15229821 ATGAGTTTTC
15229831 AAATGAGAATCTTTGAGTTT
1 AAATGAGAATCTTTGAGTTT
** *
15229851 CAAATGAGAATCTCGGCGCTTT
1 -AAATGAGAATCTTTGAG-TTT
* * *
15229873 AAATAAGAATTTTTTAGTCTT
1 AAATGAGAATCTTTGAGT-TT
*
15229894 AAATGAGAATCTTTAAGAAATTTT
1 AAATGAGAATCTTT--G--AGTTT
15229918 CAAATGAGAATCTTTGAGTCTT
1 -AAATGAGAATCTTTGAGT-TT
*
15229940 AAATAAGAATCTTTAAGAAAGTTCT
1 AAATGAGAATCTTT--G--AGTT-T
*
15229965 --A-GAGAATCTTTAAGTCTT
1 AAATGAGAATCTTTGAGT-TT
*
15229983 AAATGAGAATCTTTAAGAAATTTT
1 AAATGAGAATCTTT--G--AGTTT
*
15230007 CCAATGAGAATCTTTGAGTCTT
1 -AAATGAGAATCTTTGAGT-TT
* *
15230029 AAATGA-ATATTTTTAAGAAATTTT
1 AAATGAGA-ATCTTT--G--AGTTT
* *
15230053 CAAATGAGAATTTTTTAGTCTT
1 -AAATGAGAATCTTTGAGT-TT
15230075 AAATGAGAATCTTT
1 AAATGAGAATCTTT
15230089 AAATAAGTTT
Statistics
Matches: 179, Mismatches: 27, Indels: 62
0.67 0.10 0.23
Matches are distributed among these distances:
18 4 0.02
19 1 0.01
20 3 0.02
21 91 0.51
22 18 0.10
23 5 0.03
24 7 0.04
25 49 0.27
26 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (20 bp):
AAATGAGAATCTTTGAGTTT
Found at i:15229928 original size:25 final size:25
Alignment explanation
Indices: 15229890--15230090 Score: 138
Period size: 21 Copynumber: 8.8 Consensus size: 25
15229880 AATTTTTTAG
15229890 TCTT-AAATGAGAATCTTTAAGAAA
1 TCTTCAAATGAGAATCTTTAAGAAA
* *
15229914 TTTTCAAATGAGAATCTTT--G-AG
1 TCTTCAAATGAGAATCTTTAAGAAA
*
15229936 TCTT-AAATAAGAATCTTTAAGAAA
1 TCTTCAAATGAGAATCTTTAAGAAA
* *
15229960 -GTTC-TA-GAGAATCTTTAAG---
1 TCTTCAAATGAGAATCTTTAAGAAA
15229979 TCTT-AAATGAGAATCTTTAAGAAA
1 TCTTCAAATGAGAATCTTTAAGAAA
* * *
15230003 TTTTCCAATGAGAATCTTT--G-AG
1 TCTTCAAATGAGAATCTTTAAGAAA
*
15230025 TCTT-AAATGA-ATATTTTTAAGAAA
1 TCTTCAAATGAGA-ATCTTTAAGAAA
* * *
15230049 TTTTCAAATGAGAATTTTTTAG---
1 TCTTCAAATGAGAATCTTTAAGAAA
15230071 TCTT-AAATGAGAATCTTTAA
1 TCTTCAAATGAGAATCTTTAA
15230091 ATAAGTTTGA
Statistics
Matches: 137, Mismatches: 22, Indels: 39
0.69 0.11 0.20
Matches are distributed among these distances:
20 4 0.03
21 50 0.36
22 23 0.17
23 7 0.05
24 11 0.08
25 41 0.30
26 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (25 bp):
TCTTCAAATGAGAATCTTTAAGAAA
Found at i:15229940 original size:46 final size:46
Alignment explanation
Indices: 15229826--15230090 Score: 305
Period size: 46 Copynumber: 5.9 Consensus size: 46
15229816 AAATAATGAG
* ***
15229826 TTTTCAAATGAGAATCTTTGAGT-TTCAAATGAGAATC--T-CGGCG
1 TTTTCAAATGAGAATCTTTGAGTCTT-AAATGAGAATCTTTAAGAAA
* * * *
15229869 CTTT-AAATAAGAATTTTTTAGTCTTAAATGAGAATCTTTAAGAAA
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAA
*
15229914 TTTTCAAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAAGAAA
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAA
* * *
15229960 -GTTC-TA-GAGAATCTTTAAGTCTTAAATGAGAATCTTTAAGAAA
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAA
* *
15230003 TTTTCCAATGAGAATCTTTGAGTCTTAAATGA-ATATTTTTAAGAAA
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGA-ATCTTTAAGAAA
* *
15230049 TTTTCAAATGAGAATTTTTTAGTCTTAAATGAGAATCTTTAA
1 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAA
15230091 ATAAGTTTGA
Statistics
Matches: 187, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
42 26 0.14
43 40 0.21
44 5 0.03
45 9 0.05
46 106 0.57
47 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (46 bp):
TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAA
Found at i:15230001 original size:89 final size:92
Alignment explanation
Indices: 15229873--15230090 Score: 327
Period size: 89 Copynumber: 2.4 Consensus size: 92
15229863 TCGGCGCTTT
*
15229873 AAATAAGAATTTTTTAGTCTTAAATGAGAATCTTTAAGAAATTTTCAAATGAGAATCTTTGAGTC
1 AAATGAGAATTTTTTAGTCTTAAATGAGAATCTTTAAGAAATTTTCAAATGAGAATCTTTGAGTC
15229938 TTAAAT-AAGAATCTTTAAGAAA-GTTC
66 TTAAATGAA-AATCTTTAAGAAATGTTC
* * * *
15229964 -TA-GAGAATCTTTAAGTCTTAAATGAGAATCTTTAAGAAATTTTCCAATGAGAATCTTTGAGTC
1 AAATGAGAATTTTTTAGTCTTAAATGAGAATCTTTAAGAAATTTTCAAATGAGAATCTTTGAGTC
* * *
15230027 TTAAATGAATATTTTTAAGAAATTTTC
66 TTAAATGAAAATCTTTAAGAAATGTTC
15230054 AAATGAGAATTTTTTAGTCTTAAATGAGAATCTTTAA
1 AAATGAGAATTTTTTAGTCTTAAATGAGAATCTTTAA
15230091 ATAAGTTTGA
Statistics
Matches: 112, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
89 74 0.66
90 6 0.05
91 1 0.01
92 31 0.28
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (92 bp):
AAATGAGAATTTTTTAGTCTTAAATGAGAATCTTTAAGAAATTTTCAAATGAGAATCTTTGAGTC
TTAAATGAAAATCTTTAAGAAATGTTC
Found at i:15232034 original size:15 final size:15
Alignment explanation
Indices: 15232016--15232078 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 15
15232006 ACATTATTTT
15232016 TATTTATTTACAAAA
1 TATTTATTTACAAAA
*
15232031 TA-TTAATTACAAAA
1 TATTTATTTACAAAA
*
15232045 TAATTA--TACAAAA
1 TATTTATTTACAAAA
* *
15232058 -ATATTATATAAAAAA
1 TAT-TTATTTACAAAA
15232073 TATTTA
1 TATTTA
15232079 AACTTTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
12 1 0.03
13 10 0.25
14 13 0.32
15 14 0.35
16 2 0.05
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (15 bp):
TATTTATTTACAAAA
Found at i:15232042 original size:14 final size:13
Alignment explanation
Indices: 15232023--15232076 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 13
15232013 TTTTATTTAT
15232023 TTACAAAATATTAA
1 TTACAAAATATT-A
15232037 TTACAAAATAATTA
1 TTACAAAAT-ATTA
15232051 -TACAAAAATATTA
1 TTAC-AAAATATTA
*
15232064 TATAAAAAATATT
1 T-TACAAAATATT
15232077 TAAACTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 7 0.20
14 23 0.66
15 5 0.14
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (13 bp):
TTACAAAATATTA
Found at i:15233647 original size:14 final size:14
Alignment explanation
Indices: 15233625--15233680 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
15233615 ATAAATACGA
15233625 ATAACATAGATATAC
1 ATAA-ATAGATATAC
*
15233640 ATGAATAGATATA-
1 ATAAATAGATATAC
15233653 ATTAATATAGATATAC
1 A-TAA-ATAGATATAC
*
15233669 ACAAATAGATAT
1 ATAAATAGATAT
15233681 GACTAACACA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 1 0.03
14 19 0.54
15 14 0.40
16 1 0.03
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (14 bp):
ATAAATAGATATAC
Found at i:15233725 original size:16 final size:17
Alignment explanation
Indices: 15233701--15233734 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15233691 AATATATACG
*
15233701 AAAACACAACTA-AAAT
1 AAAAAACAACTATAAAT
15233717 AAAAAACAACTATAAAT
1 AAAAAACAACTATAAAT
15233734 A
1 A
15233735 TCCATCACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAACAACTATAAAT
Found at i:15234914 original size:7 final size:7
Alignment explanation
Indices: 15234904--15234934 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
15234894 ATTATATATT
15234904 AATAAAA
1 AATAAAA
*
15234911 AATAACA
1 AATAAAA
15234918 AATAAAA
1 AATAAAA
15234925 AATAAAA
1 AATAAAA
15234932 AAT
1 AAT
15234935 GTTTTTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (7 bp):
AATAAAA
Found at i:15235583 original size:21 final size:20
Alignment explanation
Indices: 15235543--15235600 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
15235533 TTTTTTTACC
* *
15235543 AAATAAA-AAAACATAAATA
1 AAATAAATAAAAAAAAAATA
* *
15235562 AAATTGAATAAAGAAAAAATA
1 AAA-TAAATAAAAAAAAAATA
*
15235583 ATATAAATAAAAAAAAAA
1 AAATAAATAAAAAAAAAA
15235601 CTTTTTGGGC
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.10
20 16 0.53
21 11 0.37
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (20 bp):
AAATAAATAAAAAAAAAATA
Found at i:15236077 original size:10 final size:10
Alignment explanation
Indices: 15236064--15236095 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
15236054 AAGAGTAAGG
15236064 ATTTGTAAAA
1 ATTTGTAAAA
15236074 A-TT-TAAAA
1 ATTTGTAAAA
15236082 ATTTGTAAAA
1 ATTTGTAAAA
15236092 ATTT
1 ATTT
15236096 AAAGATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.30
9 4 0.20
10 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (10 bp):
ATTTGTAAAA
Found at i:15236112 original size:18 final size:18
Alignment explanation
Indices: 15236064--15236110 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
15236054 AAGAGTAAGG
15236064 ATTTGTAAAAATTTAAAA
1 ATTTGTAAAAATTTAAAA
*
15236082 ATTTGTAAAAATTTAAAG
1 ATTTGTAAAAATTTAAAA
15236100 ATTTGATAAAA
1 ATTTG-TAAAA
15236111 TTCGTAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (18 bp):
ATTTGTAAAAATTTAAAA
Found at i:15236512 original size:45 final size:45
Alignment explanation
Indices: 15236458--15236577 Score: 125
Period size: 45 Copynumber: 2.7 Consensus size: 45
15236448 AATGAAATTT
*
15236458 TCTAAAATTTAAATATTCACATTTCACAAA-ATTTGGAAATCCACA
1 TCTAAAATTTAAATATTCACATTTCA-AAATATTTAGAAATCCACA
* * * * * ** *
15236503 TCTAAAATTTAAAAATTTACATTTGAAAATCTTTAGAGATTTATA
1 TCTAAAATTTAAATATTCACATTTCAAAATATTTAGAAATCCACA
* *
15236548 TCTAAAATTCAAATATTCACATTTGAAAAT
1 TCTAAAATTTAAATATTCACATTTCAAAAT
15236578 TTAAAGATTT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
44 3 0.05
45 59 0.95
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (45 bp):
TCTAAAATTTAAATATTCACATTTCAAAATATTTAGAAATCCACA
Found at i:15236604 original size:43 final size:43
Alignment explanation
Indices: 15236500--15236627 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 43
15236490 TTGGAAATCC
** * * *
15236500 ACATCTAAAATTTAAAAATTTACATTTGAAAATCTTTAGAGATTT
1 ACATCTAAAATACAAATATTCACATTTGAAAA--TTTAAAGATTT
* *
15236545 ATATCTAAAATTCAAATATTCACATTTGAAAATTTAAAGATTT
1 ACATCTAAAATACAAATATTCACATTTGAAAATTTAAAGATTT
* * ** *
15236588 GCATCTAGAATACAAATATTTGCATTTGAAAATTCAAAGA
1 ACATCTAAAATACAAATATTCACATTTGAAAATTTAAAGA
15236628 GGCATTGAGA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 43 0.61
45 28 0.39
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (43 bp):
ACATCTAAAATACAAATATTCACATTTGAAAATTTAAAGATTT
Found at i:15236724 original size:48 final size:48
Alignment explanation
Indices: 15236671--15236793 Score: 129
Period size: 49 Copynumber: 2.5 Consensus size: 48
15236661 GCTCCTTAAT
** * ***
15236671 AATAGAGGTTTTGAAGCTTTAAAAATCAAAATTGGAAAGCTCATCTTC
1 AATAGAGGAATTGAAACTTTAAAAATCAAAATCAAAAAGCTCATCTTC
* * * *
15236719 AATAGAGGAGTTAAAACTTTAAAAATTCAAAATCAAAAAGTTCTTCTTC
1 AATAGAGGAATTGAAACTTTAAAAA-TCAAAATCAAAAAGCTCATCTTC
* *
15236768 AACAGAGGCATTGAAACTTTAAAAAT
1 AATAGAGGAATTGAAACTTTAAAAAT
15236794 TTACCATCAA
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 22 0.36
49 39 0.64
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (48 bp):
AATAGAGGAATTGAAACTTTAAAAATCAAAATCAAAAAGCTCATCTTC
Found at i:15236769 original size:49 final size:49
Alignment explanation
Indices: 15236687--15236794 Score: 130
Period size: 49 Copynumber: 2.2 Consensus size: 49
15236677 GGTTTTGAAG
*** *
15236687 CTTTAAAAA-TCAAAATTGGAAAGCTCATCTTCAATAGAGG-AGTTAAAA
1 CTTTAAAAATTCAAAATCAAAAAGCTCATCTTCAACAGAGGCA-TTAAAA
* * *
15236735 CTTTAAAAATTCAAAATCAAAAAGTTCTTCTTCAACAGAGGCATTGAAA
1 CTTTAAAAATTCAAAATCAAAAAGCTCATCTTCAACAGAGGCATTAAAA
15236784 CTTTAAAAATT
1 CTTTAAAAATT
15236795 TACCATCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 9 0.18
49 41 0.80
50 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (49 bp):
CTTTAAAAATTCAAAATCAAAAAGCTCATCTTCAACAGAGGCATTAAAA
Found at i:15237373 original size:14 final size:14
Alignment explanation
Indices: 15237350--15237427 Score: 50
Period size: 14 Copynumber: 5.1 Consensus size: 14
15237340 GCAATAATAT
15237350 AAAA-TATCATGCA
1 AAAATTATCATGCA
15237363 AAAATTATCATGCAA
1 AAAATTATCATGC-A
**
15237378 TAAAAACATCATGCTA
1 -AAAATTATCATGC-A
*
15237394 AAATATAAAATATCATGTA
1 AAA-AT----TATCATGCA
15237413 AAAATTATCATGCA
1 AAAATTATCATGCA
15237427 A
1 A
15237428 TAATATATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
13 4 0.08
14 17 0.34
15 4 0.08
16 13 0.26
18 2 0.04
19 4 0.08
20 6 0.12
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (14 bp):
AAAATTATCATGCA
Found at i:15237389 original size:50 final size:50
Alignment explanation
Indices: 15237328--15237455 Score: 172
Period size: 50 Copynumber: 2.5 Consensus size: 50
15237318 AGATATCATG
15237328 TAAAAAAATCATGC-AATAATATAAAATATCATGCAAAAATTATCATGCAA
1 TAAAAAAATCATGCTAA-AATATAAAATATCATGCAAAAATTATCATGCAA
* *
15237378 TAAAAACATCATGCTAAAATATAAAATATCATGTAAAAATTATCATGCAA
1 TAAAAAAATCATGCTAAAATATAAAATATCATGCAAAAATTATCATGCAA
15237428 TAATATATAATATCATGC-AAAAT-TAAAA
1 TAA-A-A-AA-ATCATGCTAAAATATAAAA
15237456 AAAAAGTCAT
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
50 48 0.69
51 3 0.04
52 6 0.09
53 6 0.09
54 7 0.10
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.28
Consensus pattern (50 bp):
TAAAAAAATCATGCTAAAATATAAAATATCATGCAAAAATTATCATGCAA
Found at i:15237425 original size:34 final size:34
Alignment explanation
Indices: 15237385--15237449 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
15237375 CAATAAAAAC
*
15237385 ATCATGCTAA-AATATAAAATATCATGTAAAAATT
1 ATCATGC-AATAATATAAAATATCATGCAAAAATT
*
15237419 ATCATGCAATAATATATAATATCATGCAAAA
1 ATCATGCAATAATATAAAATATCATGCAAAA
15237450 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 2 0.07
34 26 0.93
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (34 bp):
ATCATGCAATAATATAAAATATCATGCAAAAATT
Found at i:15237516 original size:15 final size:15
Alignment explanation
Indices: 15237479--15237518 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
15237469 AATAAATAAT
*
15237479 ATAAT-AATCATGCCA
1 ATAATAAAT-ATGCAA
15237494 ATAATAAATATGCAA
1 ATAATAAATATGCAA
15237509 ATAATAAATA
1 ATAATAAATA
15237519 ATCATGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.87
16 3 0.13
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (15 bp):
ATAATAAATATGCAA
Found at i:15237518 original size:19 final size:20
Alignment explanation
Indices: 15237472--15237537 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 20
15237462 TCATACAAAT
15237472 AAATAAT-ATAATAATCATGC
1 AAATAATCA-AATAATCATGC
*
15237492 CAATAAT---A-AAT-ATGC
1 AAATAATCAAATAATCATGC
15237507 AAATAAT-AAATAATCATGC
1 AAATAATCAAATAATCATGC
15237526 AAATAATCAAAT
1 AAATAATCAAAT
15237538 TTGTGCAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
15 10 0.26
16 3 0.08
17 2 0.05
18 3 0.08
19 11 0.28
20 10 0.26
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.27
Consensus pattern (20 bp):
AAATAATCAAATAATCATGC
Found at i:15238629 original size:20 final size:20
Alignment explanation
Indices: 15238604--15238647 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15238594 TATCATTTCA
15238604 TTTCCTTTAAATTACCTTCC
1 TTTCCTTTAAATTACCTTCC
** *
15238624 TTTCCTTTACTTTACTTTCC
1 TTTCCTTTAAATTACCTTCC
15238644 TTTC
1 TTTC
15238648 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.30, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTCCTTTAAATTACCTTCC
Found at i:15239148 original size:15 final size:16
Alignment explanation
Indices: 15239128--15239160 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
15239118 TTGTTATTTT
15239128 ATTAAAAAAT-TTATA
1 ATTAAAAAATATTATA
15239143 ATTAAAAAATATTATA
1 ATTAAAAAATATTATA
15239159 AT
1 AT
15239161 AAATTATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTAAAAAATATTATA
Found at i:15240476 original size:55 final size:55
Alignment explanation
Indices: 15240415--15240524 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
15240405 TCTTCTACTT
** *
15240415 CTAAATTGCTTAATGCTTCTTGATTTTCTTGATGTCTTGATCTTGCTTTGTGATC
1 CTAAATTGCTTAATGCTTCTTGATTTTCTTGATGTCTCAATCCTGCTTTGTGATC
*
15240470 CTAAATTGCTTAATGCTTTTTGATTTTCTTGATGTCTCAATCCTGCTTTGTGATC
1 CTAAATTGCTTAATGCTTCTTGATTTTCTTGATGTCTCAATCCTGCTTTGTGATC
15240525 ACAGATCAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (55 bp):
CTAAATTGCTTAATGCTTCTTGATTTTCTTGATGTCTCAATCCTGCTTTGTGATC
Found at i:15241175 original size:47 final size:48
Alignment explanation
Indices: 15241056--15241176 Score: 154
Period size: 52 Copynumber: 2.5 Consensus size: 48
15241046 ATCTATTCAT
* *
15241056 CTAGCGATTATGAAATTTTAAAATTCACAACCAAAAAGTTTCTCTCTTTTAA
1 CTAGAGATTATGAAATTTTAAAATTCACAACCAAAAA---T-ACTCTTTTAA
* *
15241108 CTAGAGATTAAGAAACTTTAAAATTCACAACCAAAAA-ACTCTTTTAA
1 CTAGAGATTATGAAATTTTAAAATTCACAACCAAAAATACTCTTTTAA
*
15241155 CTAGAGATTTTGAAATTTTAAA
1 CTAGAGATTATGAAATTTTAAA
15241177 GAATCAAATC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
47 28 0.45
52 34 0.55
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (48 bp):
CTAGAGATTATGAAATTTTAAAATTCACAACCAAAAATACTCTTTTAA
Found at i:15254936 original size:17 final size:18
Alignment explanation
Indices: 15254911--15254947 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
15254901 TAAAATTATC
*
15254911 TAATCTAATCTTAT-TTA
1 TAATATAATCTTATCTTA
15254928 TAATATAATCTTATCTTA
1 TAATATAATCTTATCTTA
15254946 TA
1 TA
15254948 CTATCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATATAATCTTATCTTA
Found at i:15259841 original size:12 final size:13
Alignment explanation
Indices: 15259824--15259852 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15259814 TTTTAACAAT
15259824 TAAAAAATA-AAA
1 TAAAAAATATAAA
15259836 TAAAAAATATAAA
1 TAAAAAATATAAA
15259849 TAAA
1 TAAA
15259853 TCAATACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAAAAATATAAA
Found at i:15268366 original size:380 final size:380
Alignment explanation
Indices: 15267665--15268425 Score: 1353
Period size: 380 Copynumber: 2.0 Consensus size: 380
15267655 AACCTATATC
*
15267665 AGGCCTAATTCATTCAAGACACAACACCATAGCAGTTCATATTCCCTGTAAGGTACACTTACATA
1 AGGCCTAATTCATTCAAGACACAACACCATAACAGTTCATATTCCCTGTAAGGTACACTTACATA
* * *
15267730 CGAATGCCATTTGTCCCAATTCAAAGGTAATTTCAAAGTTCTGTTAATCTTGTCTTCACTGAAAA
66 CGAATGCCATTTATCCCAATTCAAAAGTAATTTCAAAGTTCTGTTAATCTTCTCTTCACTGAAAA
*
15267795 GGCAACAGAGCTAGTCCCAATCCCCAACTCCAATGACCTCAAAAAGAATGAGATGCTGAAATTGA
131 GGCAACAGAGCTAGTCACAATCCCCAACTCCAATGACCTCAAAAAGAATGAGATGCTGAAATTGA
* *
15267860 AAGTGGTTGAAAGTTTAGAGGACTCAAGGTCTAAACATAAGGTGAACTTGCTGGAAGAGAGACTT
196 AAATGGTTGAAAGTTTAGAGGACTCAAGGTCTAAACATAAGGTGAACTTGCTGGAAGAGAGACTA
* *
15267925 TGAGCCGTCAAAGGTATAGACTTTTATGGTTTCATGGATATAGCCAGCCTTTGCTTAGTCCTAAA
261 TGAGCCATCAAAGGTATAGACTTTTATGGCTTCATGGATATAGCCAGCCTTTGCTTAGTCCTAAA
15267990 TGTTGTAATCCCACCAAAGTTCAAGTTTCCTGAGTTTAAAAAGTATAATGGTATT
326 TGTTGTAATCCCACCAAAGTTCAAGTTTCCTGAGTTTAAAAAGTATAATGGTATT
*
15268045 AGGCCTAATTCATTCAAGACACAACACCATAACAGTTCATATTCCCTGTAAGGTACACTTATATA
1 AGGCCTAATTCATTCAAGACACAACACCATAACAGTTCATATTCCCTGTAAGGTACACTTACATA
* *
15268110 CGAATGCCATTTATCCTAATTCAAAAGTAATTTCAAAGTTTTGTTAATCTTCTCTTCACTGAAAA
66 CGAATGCCATTTATCCCAATTCAAAAGTAATTTCAAAGTTCTGTTAATCTTCTCTTCACTGAAAA
* *
15268175 GGCAACAGAGCTAGTCACAATCCCTAACT-CAGATGACCTCAAGAAGAATGAGATGCTGAAATTG
131 GGCAACAGAGCTAGTCACAATCCCCAACTCCA-ATGACCTCAAAAAGAATGAGATGCTGAAATTG
*
15268239 AAAATGGTTGAAAGTTTAGAGGACTCAAGGTCTAAACATAAGGTGAACTTGCTGGAGGAGAGACT
195 AAAATGGTTGAAAGTTTAGAGGACTCAAGGTCTAAACATAAGGTGAACTTGCTGGAAGAGAGACT
*
15268304 ATGAGCCATCAAAGGTATATACTTTTATGGCTTCATGGATATAGCCAGCCTTTGCTTAGTCCTAA
260 ATGAGCCATCAAAGGTATAGACTTTTATGGCTTCATGGATATAGCCAGCCTTTGCTTAGTCCTAA
*
15268369 ATGTTGTAATCCCACCAAAGTTCAAGTTTCTTGAGTTTAAAAAGTATAATGGTATT
325 ATGTTGTAATCCCACCAAAGTTCAAGTTTCCTGAGTTTAAAAAGTATAATGGTATT
15268425 A
1 A
15268426 AGTACCCGAT
Statistics
Matches: 363, Mismatches: 17, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
379 2 0.01
380 361 0.99
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (380 bp):
AGGCCTAATTCATTCAAGACACAACACCATAACAGTTCATATTCCCTGTAAGGTACACTTACATA
CGAATGCCATTTATCCCAATTCAAAAGTAATTTCAAAGTTCTGTTAATCTTCTCTTCACTGAAAA
GGCAACAGAGCTAGTCACAATCCCCAACTCCAATGACCTCAAAAAGAATGAGATGCTGAAATTGA
AAATGGTTGAAAGTTTAGAGGACTCAAGGTCTAAACATAAGGTGAACTTGCTGGAAGAGAGACTA
TGAGCCATCAAAGGTATAGACTTTTATGGCTTCATGGATATAGCCAGCCTTTGCTTAGTCCTAAA
TGTTGTAATCCCACCAAAGTTCAAGTTTCCTGAGTTTAAAAAGTATAATGGTATT
Found at i:15270437 original size:20 final size:20
Alignment explanation
Indices: 15270412--15270458 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
15270402 GGGGTGTGCA
15270412 AAAAAAAAAAACAAAAAATG
1 AAAAAAAAAAACAAAAAATG
15270432 AAAAAAAAAAACAAAAAATG
1 AAAAAAAAAAACAAAAAATG
*
15270452 AGAAAAA
1 AAAAAAA
15270459 TGAGAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.85, C:0.04, G:0.06, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAACAAAAAATG
Found at i:15270457 original size:9 final size:9
Alignment explanation
Indices: 15270445--15270476 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
15270435 AAAAAAAACA
15270445 AAAAATGAG
1 AAAAATGAG
15270454 AAAAATGAG
1 AAAAATGAG
15270463 AAAAATGAG
1 AAAAATGAG
15270472 AAAAA
1 AAAAA
15270477 GAAAAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (9 bp):
AAAAATGAG
Found at i:15270847 original size:15 final size:15
Alignment explanation
Indices: 15270819--15270851 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
15270809 GTTTGTCATG
15270819 AATTAGAATGATGAT
1 AATTAGAATGATGAT
15270834 AATTA-AATGAATGAT
1 AATTAGAATG-ATGAT
15270849 AAT
1 AAT
15270852 GTTTGTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (15 bp):
AATTAGAATGATGAT
Found at i:15271657 original size:17 final size:17
Alignment explanation
Indices: 15271634--15271688 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
15271624 TGCAAATCCA
*
15271634 AAATTCTTATGAATTTG
1 AAATTCTTGTGAATTTG
** *
15271651 ATGTTCTTGTAAAATTTG
1 AAATTCTTGT-GAATTTG
15271669 AAATTCTTGTGAATTTG
1 AAATTCTTGTGAATTTG
15271686 AAA
1 AAA
15271689 ACCTTTGAGA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (17 bp):
AAATTCTTGTGAATTTG
Found at i:15271984 original size:66 final size:65
Alignment explanation
Indices: 15271892--15272115 Score: 195
Period size: 65 Copynumber: 3.4 Consensus size: 65
15271882 CATCCAAATC
* * * * *
15271892 ATTTTA-TTTTTCGAACCCGT-GATTCAATCCCAATCCCTCAGTTTCAATCTTGGCTCAATCTAG
1 ATTTTATTTTTTTG-ACCCGTAG-TTCAATCCCAATCCCT-AGTTTCGATCTCGACTCAGTCTAG
15271955 ATT
63 ATT
* * * * * *
15271958 ATTTTATTTTTTTGACCTGTGGTTCAATCCCTATCACCTA-TTTCGATCTCAATTTAGT-TCAGA
1 ATTTTATTTTTTTGACCCGTAGTTCAATCCCAATC-CCTAGTTTCGATCTCGACTCAGTCT-AGA
*
15272021 TC
64 TT
* ** ** * *
15272023 ATTTTATTTTTTAGACCCACAGTTCAATCTTAGTCCCTTGTTTCGATCTCGACTCAGTCTAGATT
1 ATTTTATTTTTTTGACCCGTAGTTCAATCCCAATCCCTAGTTTCGATCTCGACTCAGTCTAGATT
*
15272088 ATTTTATTTTTTTGACCTGTAGTTCAAT
1 ATTTTATTTTTTTGACCCGTAGTTCAAT
15272116 TTCGATCACT
Statistics
Matches: 123, Mismatches: 29, Indels: 13
0.75 0.18 0.08
Matches are distributed among these distances:
64 4 0.03
65 84 0.68
66 25 0.20
67 10 0.08
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (65 bp):
ATTTTATTTTTTTGACCCGTAGTTCAATCCCAATCCCTAGTTTCGATCTCGACTCAGTCTAGATT
Found at i:15272165 original size:65 final size:65
Alignment explanation
Indices: 15271958--15272615 Score: 273
Period size: 65 Copynumber: 10.2 Consensus size: 65
15271948 AATCTAGATT
*** ** * * * * * *
15271958 ATTTTATTTTTTTGACCTGTGGTTCAATCCCTATCAC-CTATTTCGATCTCAATTTAGTTCAGAT
1 ATTTTATTTTTTTGACCTACAGTTCAATTTCGATCACTC-GTTTCGATCTCAACTCAGTCCAAAT
15272022 C
65 C
* * * * * * * *
15272023 ATTTTATTTTTTAGACCCACAGTTCAATCTTAG-TCCCTTGTTTCGATCTCGACTCAGTCTAGAT
1 ATTTTATTTTTTTGACCTACAGTTCAAT-TTCGATCACTCGTTTCGATCTCAACTCAGTCCAAAT
*
15272087 T
65 C
** * * *
15272088 ATTTTATTTTTTTGACCTGTAGTTCAATTTCGATCACTCGTTTCAATTTCAACTTAGTCCAAATC
1 ATTTTATTTTTTTGACCTACAGTTCAATTTCGATCACTCGTTTCGATCTCAACTCAGTCCAAATC
* * * * * * * * *
15272153 ATTTTATTTTTTTGATCTACAATTCAA-TCCTGATCACTTGTTTCTATTTCAGCTCAATCCATAT
1 ATTTTATTTTTTTGACCTACAGTTCAATTTC-GATCACTCGTTTCGATCTCAACTCAGTCCAAAT
15272217 C
65 C
** * ** * * * ** *
15272218 ATTTTATTTTTCAGACTTATGGTTCAATCTC-AGTCGCTCAG-TTCAATCTCGGCT-TGATCCAA
1 ATTTTATTTTTTTGACCTACAGTTCAATTTCGA-TCACTC-GTTTCGATCTCAACTCAG-TCCAA
15272280 ATC
63 ATC
* * ** *
15272283 ATTTTA-TTTTTTGACCTACAGTTCAATTTTGGTCACTAATTTCGATCTCGACTCAGTCCAAATC
1 ATTTTATTTTTTTGACCTACAGTTCAATTTCGATCACTCGTTTCGATCTCAACTCAGTCCAAATC
* * * * * * ** **** * **
15272347 A---T-TTTTTTTAAACTAGCAGTTTAATCTCAATCACTCAATTTTAATCGGGGCTCGGTCCATG
1 ATTTTATTTTTTTGACCTA-CAGTTCAATTTCGATCACTC-GTTTCGATCTCAACTCAGTCCAAA
15272408 TC
64 TC
* * * * * * * *
15272410 ATTTTATTTTTTTGACTTGCGGTTCAA-TCCTGGTCACTCGTTTCAATCTCAGCTCAGTCCAGAT
1 ATTTTATTTTTTTGACCTACAGTTCAATTTC-GATCACTCGTTTCGATCTCAACTCAGTCCAAAT
15272474 C
65 C
* *** * * * * * * * * *
15272475 ATTTTATTTTTTGGACCTGTGGTTCAA-TCCTAATCCCTTGTTTTGATCTCAGCTCATTCTAGAT
1 ATTTTATTTTTTTGACCTACAGTTCAATTTC-GATCACTCGTTTCGATCTCAACTCAGTCCAAAT
15272539 C
65 C
* * * * * * * *
15272540 ATTTTACTTTTTGGACCTAC-GATTCAATTTCGATCAATCATTTCAATCTCAGCTTAATCCAAAT
1 ATTTTATTTTTTTGACCTACAG-TTCAATTTCGATCACTCGTTTCGATCTCAACTCAGTCCAAAT
15272604 C
65 C
15272605 ATTTTATTTTT
1 ATTTTATTTTT
15272616 CAGACTTGCG
Statistics
Matches: 437, Mismatches: 135, Indels: 42
0.71 0.22 0.07
Matches are distributed among these distances:
61 11 0.03
62 14 0.03
63 19 0.04
64 48 0.11
65 319 0.73
66 17 0.04
67 9 0.02
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (65 bp):
ATTTTATTTTTTTGACCTACAGTTCAATTTCGATCACTCGTTTCGATCTCAACTCAGTCCAAATC
Found at i:15272179 original size:130 final size:129
Alignment explanation
Indices: 15271945--15272503 Score: 386
Period size: 130 Copynumber: 4.3 Consensus size: 129
15271935 TCAATCTTGG
* *
15271945 CTCAATCTAGATTATTTTATTTTTTTGACCTGTGGTTCAATCCCTATCAC-CTA-TTTCGATCTC
1 CTCAATCTAGATTATTTTATTTTTTTGACCTGTGGTTCAATCTC-ATCACTC-AGTTTCAATCTC
* * * * * *
15272008 AATTTAGTTCAGATCATTTTATTTTTTAGACCCACAGTTCAATCTTAGTCCCTTGTTTCGATCTC
64 AACTTAGTCCAAATCATTTTATTTTTTTGACCTACAGTTCAATCTT-GTCACTTGTTTCGATCTC
15272073 GA
128 GA
* * * *
15272075 CTCAGTCTAGATTATTTTATTTTTTTGACCTGTAGTTCAATTTCGATCACTC-GTTTCAATTTCA
1 CTCAATCTAGATTATTTTATTTTTTTGACCTGTGGTTCAATCTC-ATCACTCAGTTTCAATCTCA
* * * * *
15272139 ACTTAGTCCAAATCATTTTATTTTTTTGATCTACAATTCAATCCTGATCACTTGTTTCTATTTC-
65 ACTTAGTCCAAATCATTTTATTTTTTTGACCTACAGTTCAATCTTG-TCACTTGTTTCGATCTCG
15272203 A
129 A
* * * ** * * *
15272204 GCTCAATCCATATCATTTTATTTTTCAGACTTATGGTTCAATCTCAGTCGCTCAG-TTCAATCTC
1 -CTCAATCTAGATTATTTTATTTTTTTGACCTGTGGTTCAATCTCA-TCACTCAGTTTCAATCTC
** * **
15272268 GGCTT-GATCCAAATCATTTTA-TTTTTTGACCTACAGTTCAATTTTGGTCACTAATTTCGATCT
64 AACTTAG-TCCAAATCATTTTATTTTTTTGACCTACAGTTCAATCTT-GTCACTTGTTTCGATCT
15272331 CGA
127 CGA
* * ** * * ** * * * **
15272334 CTCAGTCCA-A--ATCAT-TTTTTTTAAACTAGCAGTTTAATCTCAATCACTCAATTTTAATCGG
1 CTCAATCTAGATTATTTTATTTTTTTGACCT-GTGGTTCAATCTC-ATCACTCAGTTTCAATCTC
** ** ** * * * * * *
15272395 GGCTCGGTCCATGTCATTTTATTTTTTTGACTTGCGGTTCAATCCTGGTCACTCGTTTCAATCTC
64 AACTTAGTCCAAATCATTTTATTTTTTTGACCTACAGTTCAAT-CTTGTCACTTGTTTCGATCTC
15272460 -A
128 GA
* * * *
15272461 GCTCAGTCCAGATCATTTTATTTTTTGGACCTGTGGTTCAATC
1 -CTCAATCTAGATTATTTTATTTTTTTGACCTGTGGTTCAATC
15272504 CTAATCCCTT
Statistics
Matches: 333, Mismatches: 76, Indels: 39
0.74 0.17 0.09
Matches are distributed among these distances:
125 7 0.02
126 18 0.05
127 24 0.07
128 44 0.13
129 47 0.14
130 171 0.51
131 13 0.04
132 9 0.03
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.44
Consensus pattern (129 bp):
CTCAATCTAGATTATTTTATTTTTTTGACCTGTGGTTCAATCTCATCACTCAGTTTCAATCTCAA
CTTAGTCCAAATCATTTTATTTTTTTGACCTACAGTTCAATCTTGTCACTTGTTTCGATCTCGA
Found at i:15272697 original size:131 final size:131
Alignment explanation
Indices: 15272144--15272698 Score: 334
Period size: 130 Copynumber: 4.3 Consensus size: 131
15272134 TTTCAACTTA
* * * * ** * *
15272144 GTCCAAATCATTTTATTTTTTTGATCTA-CAATTCAA-TCCTGATCACTTGTTTCTATTTCAGCT
1 GTCCAGATCATTTTAATTTTTTGA-CTAGCGATTCAATTCCTGATCAATCATTTCAATCTCAGCT
* * ** * * * * ** *
15272207 CAATCCATATCATTTTATTTTTCAGACTTATGGTTCAAT-CTCAGTCGCTCAGTTCAATCTCGGC
65 CAATCCAAATCATTTTATTTTTCAGACCTGCGGTTCAATACT-AATCACTAATTTTGATCTCAGC
*
15272271 TTG
129 TCG
* * * * * * *
15272274 ATCCAAATCATTTT-ATTTTTTGACCTA-C-AGTTCAATT-TTGGTCACTAATTTCGATCTC-GA
1 GTCCAGATCATTTTAATTTTTTGA-CTAGCGA-TTCAATTCCTGATCAATCATTTCAATCTCAG-
* * * * * *
15272334 CTCAGTCCAAATCA-TTT-TTTTT-A-AACTAGCAGTTTAAT-CTCAATCACTCAATTTTAATCG
63 CTCAATCCAAATCATTTTATTTTTCAGACCT-GCGGTTCAATACT-AATCACT-AATTTTGATCT
**
15272394 GGGCTCG
125 CAGCTCG
* * * * * *
15272401 GTCCATG-TCATTTTATTTTTTTGACTTGCGGTTCAA-TCCTGGTCACTCGTTTCAATCTCAGCT
1 GTCCA-GATCATTTTAATTTTTTGACTAGCGATTCAATTCCTGATCAATCATTTCAATCTCAGCT
* * ** * * * **
15272464 CAGTCCAGATCATTTTATTTTTTGGACCTGTGGTTCAATCCTAATCCCTTGTTTTGATCTCAGCT
65 CAATCCAAATCATTTTATTTTTCAGACCTGCGGTTCAATACTAATCACTAATTTTGATCTCAGCT
*
15272529 CA
130 CG
* * * * *
15272531 TTCTAGATCATTTTACTTTTTGGACCTA-CGATTCAATTTC-GATCAATCATTTCAATCTCAGCT
1 GTCCAGATCATTTTAATTTTTTGA-CTAGCGATTCAATTCCTGATCAATCATTTCAATCTCAGCT
* * ** *
15272594 TAATCCAAATCATTTTATTTTTCAGACTTGCGGTTCAATACTGGTTACTCAATTTTGATCTCAGC
65 CAATCCAAATCATTTTATTTTTCAGACCTGCGGTTCAATACTAATCACT-AATTTTGATCTCAGC
*
15272659 TTG
129 TCG
15272662 GTCCAGATCATTTTAATTTTTTGACTAGCGATTCAAT
1 GTCCAGATCATTTTAATTTTTTGACTAGCGATTCAAT
15272699 CTCGGTCACT
Statistics
Matches: 326, Mismatches: 78, Indels: 41
0.73 0.18 0.09
Matches are distributed among these distances:
125 2 0.01
126 15 0.05
127 31 0.10
128 49 0.15
129 49 0.15
130 115 0.35
131 60 0.18
132 5 0.02
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.43
Consensus pattern (131 bp):
GTCCAGATCATTTTAATTTTTTGACTAGCGATTCAATTCCTGATCAATCATTTCAATCTCAGCTC
AATCCAAATCATTTTATTTTTCAGACCTGCGGTTCAATACTAATCACTAATTTTGATCTCAGCTC
G
Found at i:15272734 original size:65 final size:65
Alignment explanation
Indices: 15272408--15272745 Score: 219
Period size: 65 Copynumber: 5.2 Consensus size: 65
15272398 TCGGTCCATG
* * *
15272408 TCATTTTATTTTTTTGACTTGCGGTTCAATC-CTGGTCACTCGT-TTC-AATCTCAGCTCAGTCC
1 TCATTTTAATTTTTTGACTAGCGGTTCAATCTC-GGTCACT--TATTCTGATCTCAGCTCAGTCC
15272470 AGA
63 AGA
* ** * * * * *
15272473 TCATTTT-ATTTTTTGGACCT-GTGGTTCAATC-CTAATCCCTTGTTTTGATCTCAGCTCATTCT
1 TCATTTTAATTTTTT-GA-CTAGCGGTTCAATCTC-GGTCACTTATTCTGATCTCAGCTCAGTCC
15272535 AGA
63 AGA
* * * * * * * * * *
15272538 TCATTTTACTTTTTGGACCTA-CGATTCAATTTCGATCAATCATT-TCAATCTCAGCTTAATCCA
1 TCATTTTAATTTTTTGA-CTAGCGGTTCAATCTCGGTCACTTATTCT-GATCTCAGCTCAGTCCA
*
15272601 AA
64 GA
* * * * * **
15272603 TCATTTT-ATTTTTCAGACTTGCGGTTCAATACT-GGTTACTCAATTTTGATCTCAGCTTGGTCC
1 TCATTTTAATTTTT-TGACTAGCGGTTCAAT-CTCGGTCACT-TATTCTGATCTCAGCTCAGTCC
15272666 AGA
63 AGA
* * *
15272669 TCATTTTAATTTTTTGACTAGCGATTCAATCTCGGTCACTTATTCTGATCTCAACTCAGTTCAGA
1 TCATTTTAATTTTTTGACTAGCGGTTCAATCTCGGTCACTTATTCTGATCTCAGCTCAGTCCAGA
15272734 TCATTTTAATTT
1 TCATTTTAATTT
15272746 CTTGTTTCAC
Statistics
Matches: 211, Mismatches: 47, Indels: 30
0.73 0.16 0.10
Matches are distributed among these distances:
63 1 0.00
64 16 0.08
65 134 0.64
66 53 0.25
67 7 0.03
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (65 bp):
TCATTTTAATTTTTTGACTAGCGGTTCAATCTCGGTCACTTATTCTGATCTCAGCTCAGTCCAGA
Found at i:15273395 original size:64 final size:64
Alignment explanation
Indices: 15273293--15273420 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
15273283 TAAAGTTGTT
* *
15273293 AAAAAGTTTTTCCAAGTTTCTGAAAGTTTTTTTAGGGGAAAAAAGTAAAATTTGAAGGATATTA
1 AAAAAGTTTTTCCAAGTTTCTGAAAGTTTTTTTAGGGGAAAAAAATAAAATTCGAAGGATATTA
* *
15273357 AAAAAGTTTTTCCAAGTTTCTGAAAGTTTTTTTGGGGGAAAAAAATAAAATTCGAGGGATATTA
1 AAAAAGTTTTTCCAAGTTTCTGAAAGTTTTTTTAGGGGAAAAAAATAAAATTCGAAGGATATTA
15273421 GTTTTCTAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (64 bp):
AAAAAGTTTTTCCAAGTTTCTGAAAGTTTTTTTAGGGGAAAAAAATAAAATTCGAAGGATATTA
Found at i:15273751 original size:14 final size:13
Alignment explanation
Indices: 15273732--15273774 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
15273722 TTATAGTAGG
15273732 TTTTATCTTTTTTT
1 TTTTAT-TTTTTTT
*
15273746 TTTTATTTCATTTT
1 TTTTATTT-TTTTT
15273760 TTTTATTTTATTTT
1 TTTTATTTT-TTTT
15273774 T
1 T
15273775 AGATTTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 2 0.08
14 23 0.92
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTTT
Found at i:15273773 original size:12 final size:12
Alignment explanation
Indices: 15273739--15273835 Score: 50
Period size: 14 Copynumber: 7.4 Consensus size: 12
15273729 AGGTTTTATC
*
15273739 TTTTTTTTTTTA
1 TTTTATTTTTTA
*
15273751 TTTCATTTTTTTTA
1 TTT--TATTTTTTA
*
15273765 TTTTATTTTTAGA
1 TTTTATTTTT-TA
* *
15273778 TTTTCTTTATTA
1 TTTTATTTTTTA
15273790 TTTTATTATTATTA
1 TTTTATT-TT-TTA
*
15273804 TTATTATTATTCTA
1 TT-TTATT-TTTTA
* *
15273818 TCTTTAATTATTA
1 T-TTTATTTTTTA
15273831 TTTTA
1 TTTTA
15273836 CTTATTTTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
12 20 0.30
13 14 0.21
14 24 0.36
15 9 0.13
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:15273832 original size:3 final size:3
Alignment explanation
Indices: 15273784--15273814 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
15273774 TAGATTTTCT
15273784 TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15273815 CTATCTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:15274750 original size:21 final size:21
Alignment explanation
Indices: 15274693--15274750 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 21
15274683 TTATGACAAT
*
15274693 TATAACGGTGAGATTAGTTAC
1 TATAACGGTGAAATTAGTTAC
* * * * *
15274714 TTTAATGTTGATATTAGTTAG
1 TATAACGGTGAAATTAGTTAC
*
15274735 TATAAGGGTGAAATTA
1 TATAACGGTGAAATTA
15274751 AAATTAGTGG
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.40
Consensus pattern (21 bp):
TATAACGGTGAAATTAGTTAC
Found at i:15274869 original size:30 final size:30
Alignment explanation
Indices: 15274833--15274892 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15274823 AAATGACTAT
15274833 TAAAAA-TATTAAATTAAAAAATATATATAA
1 TAAAAATTATT-AATTAAAAAATATATATAA
***
15274863 TAAAAATTATTAATTATTTAATATATATAA
1 TAAAAATTATTAATTAAAAAATATATATAA
15274893 AATTAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
TAAAAATTATTAATTAAAAAATATATATAA
Found at i:15275461 original size:11 final size:11
Alignment explanation
Indices: 15275447--15275632 Score: 51
Period size: 11 Copynumber: 16.1 Consensus size: 11
15275437 TTAATTAAAG
*
15275447 ATAATTTAATA
1 ATAAATTAATA
15275458 ATAAATT-ATAA
1 ATAAATTAAT-A
* *
15275469 ATAACTTAGTA
1 ATAAATTAATA
*
15275480 ATAAATTAGTA
1 ATAAATTAATA
* ** *
15275491 ATAATTTTGTT
1 ATAAATTAATA
15275502 ATAAA-TAATTA
1 ATAAATTAA-TA
15275513 A-AAATTAATATA
1 ATAAATT-A-ATA
15275525 ATAAAAATTAAGTA
1 AT--AAATTAA-TA
*
15275539 GTAAATTAATA
1 ATAAATTAATA
15275550 AT-AATATAGATTGAA
1 ATAAAT-TA-A-T--A
*
15275565 ATACA-TAATA
1 ATAAATTAATA
* *
15275575 ATACAAATAATCG
1 ATA-AATTAAT-A
*
15275588 ATAATTTAGA-A
1 ATAAATTA-ATA
* *
15275599 ATAAATTATTG
1 ATAAATTAATA
*
15275610 ATAATTTAATA
1 ATAAATTAATA
15275621 ATAAATTAATA
1 ATAAATTAATA
15275632 A
1 A
15275633 CTTAATACTA
Statistics
Matches: 128, Mismatches: 26, Indels: 42
0.65 0.13 0.21
Matches are distributed among these distances:
10 13 0.10
11 71 0.55
12 21 0.16
13 8 0.06
14 6 0.05
15 8 0.06
16 1 0.01
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.37
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:15275506 original size:84 final size:83
Alignment explanation
Indices: 15275355--15275517 Score: 184
Period size: 84 Copynumber: 2.0 Consensus size: 83
15275345 CTTAGCGGTG
* ** * * *
15275355 AATTAATGATAATTTAATAATAAATAATTGATAATTTAAAAATTAATTATTAAAATTTTAAAAAT
1 AATTAAAGATAATTTAATAATAAATAATAAATAACTTAAAAATAAATTAGTAAAATTTTAAAAAT
*
15275420 AAATTATTGAAAAATAGTT
66 AAATAATT-AAAAATAGTT
* ** ***
15275439 AATTAAAGATAATTTAATAATAAATTATAAATAACTTAGTAATAAATTAGTAATAATTTT-GTTA
1 AATTAAAGATAATTTAATAATAAATAATAAATAACTTAAAAATAAATTAGTAA-AATTTTAAAAA
15275503 TAAATAATTAAAAAT
65 TAAATAATTAAAAAT
15275518 TAATATAATA
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
83 6 0.09
84 53 0.82
85 6 0.09
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.40
Consensus pattern (83 bp):
AATTAAAGATAATTTAATAATAAATAATAAATAACTTAAAAATAAATTAGTAAAATTTTAAAAAT
AAATAATTAAAAATAGTT
Found at i:15275529 original size:15 final size:16
Alignment explanation
Indices: 15275506--15275557 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
15275496 TTTGTTATAA
15275506 ATAATTAAAAATTAAT
1 ATAATTAAAAATTAAT
15275522 ATAA-TAAAAATTAAGT
1 ATAATTAAAAATTAA-T
*
15275538 AGTAAATTAATAA-TAAT
1 A-T-AATTAAAAATTAAT
15275555 ATA
1 ATA
15275558 GATTGAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
15 11 0.35
16 7 0.23
17 3 0.10
18 5 0.16
19 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (16 bp):
ATAATTAAAAATTAAT
Found at i:15275627 original size:22 final size:22
Alignment explanation
Indices: 15275355--15275628 Score: 114
Period size: 22 Copynumber: 12.2 Consensus size: 22
15275345 CTTAGCGGTG
*
15275355 AATTAATGATAATTTAATAATA
1 AATTATTGATAATTTAATAATA
* * *
15275377 AATAATTGATAATTTAAAAATT
1 AATTATTGATAATTTAATAATA
* *
15275399 AATTATT-AAAATTTTAAAAATA
1 AATTATTGATAA-TTTAATAATA
* *
15275421 AATTATTGA-AA---AATAGTT
1 AATTATTGATAATTTAATAATA
**
15275439 AATTAAAGATAATTTAATAATA
1 AATTATTGATAATTTAATAATA
** * *
15275461 AATTATAAATAACTTAGTAATA
1 AATTATTGATAATTTAATAATA
* * ** *
15275483 AATTAGTAATAATTTTGTTATA
1 AATTATTGATAATTTAATAATA
* * * *
15275505 AATAATTAAAAATTAATATAATAAA
1 AATTATTGATAATTTA-ATAAT--A
* *
15275530 AATTA-AGTAGTAAATTAATAATA
1 AATTATTG-A-TAATTTAATAATA
* *
15275553 ATATAGATTGA-AATACATAATAATACA
1 A-AT-TATTGATAAT--TTAATAAT--A
* *
15275580 AATAATCGATAATTTAGA-AATA
1 AATTATTGATAATTTA-ATAATA
15275602 AATTATTGATAATTTAATAATA
1 AATTATTGATAATTTAATAATA
15275624 AATTA
1 AATTA
15275629 ATAACTTAAT
Statistics
Matches: 186, Mismatches: 45, Indels: 42
0.68 0.16 0.15
Matches are distributed among these distances:
18 11 0.06
19 2 0.01
21 4 0.02
22 117 0.63
23 8 0.04
24 7 0.04
25 25 0.13
26 10 0.05
27 2 0.01
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.38
Consensus pattern (22 bp):
AATTATTGATAATTTAATAATA
Found at i:15275632 original size:19 final size:20
Alignment explanation
Indices: 15275588--15275645 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 20
15275578 CAAATAATCG
15275588 ATAATTTAGA-AATAAATTATT
1 ATAATTTA-ATAATAAATTA-T
15275609 GATAATTTAATAATAAATTA-
1 -ATAATTTAATAATAAATTAT
* *
15275629 ATAACTTAATACTAAAT
1 ATAATTTAATAATAAAT
15275646 CACAAATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 15 0.45
21 1 0.03
22 17 0.52
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (20 bp):
ATAATTTAATAATAAATTAT
Found at i:15275750 original size:22 final size:21
Alignment explanation
Indices: 15275725--15275926 Score: 118
Period size: 22 Copynumber: 9.2 Consensus size: 21
15275715 TTAATCAATA
*
15275725 ATAACTTTATAATAAATTATTG
1 ATAA-TTTATAATAAATCATTG
* *
15275747 ATAAATTTATAGTAAATTAATT-
1 AT-AATTTATAATAAA-TCATTG
**
15275769 ATAATTTTATAATAAATCATCA
1 ATAA-TTTATAATAAATCATTG
* **
15275791 ATAATTTAGTAACAAATCATCA
1 ATAATTTA-TAATAAATCATTG
* * * *
15275813 ACAATTTAATGATAAATTATTT
1 ATAATTT-ATAATAAATCATTG
* *
15275835 ATAACTTAATAATAAATCATTA
1 ATAA-TTTATAATAAATCATTG
* * * *
15275857 ATAAATTAGAAATAAATTATGG
1 ATAATTTA-TAATAAATCATTG
*
15275879 ATAATTTATTAGTAAATCATTG
1 ATAATTTA-TAATAAATCATTG
* *
15275901 ATAATTTAATAGTAAATCAATG
1 ATAATTT-ATAATAAATCATTG
15275923 ATAA
1 ATAA
15275927 CTTAATTGTT
Statistics
Matches: 141, Mismatches: 30, Indels: 18
0.75 0.16 0.10
Matches are distributed among these distances:
21 11 0.08
22 120 0.85
23 10 0.07
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
ATAATTTATAATAAATCATTG
Found at i:15275783 original size:11 final size:11
Alignment explanation
Indices: 15275722--15275785 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 11
15275712 TAGTTAATCA
*
15275722 ATAATAACTTT
1 ATAATAAATTT
15275733 ATAATAAA-TT
1 ATAATAAATTT
*
15275743 ATTGATAAATTT
1 A-TAATAAATTT
* *
15275755 ATAGTAAATTA
1 ATAATAAATTT
* *
15275766 ATTATAATTTT
1 ATAATAAATTT
15275777 ATAATAAAT
1 ATAATAAAT
15275786 CATCAATAAT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
10 3 0.08
11 34 0.85
12 3 0.08
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (11 bp):
ATAATAAATTT
Found at i:15275872 original size:44 final size:44
Alignment explanation
Indices: 15275712--15275948 Score: 154
Period size: 44 Copynumber: 5.4 Consensus size: 44
15275702 ACTACTATTT
* * * * * *
15275712 TAGTTAATCAATAATAACTTTATAATAAATTATTGATAAATTTA
1 TAGTAAATCATTAATAAATTAATAATAAATTATTGATAACTTAA
* * * * ** * *
15275756 TAGTAAATTAATT-ATAATTTTATAATAAATCATCAATAATTTAG
1 TAGTAAA-TCATTAATAAATTAATAATAAATTATTGATAACTTAA
** * * * * *
15275800 TAACAAATCATCAACAATTTAATGATAAATTATTTATAACTTAA
1 TAGTAAATCATTAATAAATTAATAATAAATTATTGATAACTTAA
* * * *
15275844 TAATAAATCATTAATAAATTAGA-AATAAATTATGGATAATTTAT
1 TAGTAAATCATTAATAAATTA-ATAATAAATTATTGATAACTTAA
* * * * *
15275888 TAGTAAATCATTGATAATTTAATAGTAAATCAATGATAACTTAA
1 TAGTAAATCATTAATAAATTAATAATAAATTATTGATAACTTAA
* *
15275932 TTGTTAATCATTAATAA
1 TAGTAAATCATTAATAA
15275949 GTTTTTTTAT
Statistics
Matches: 146, Mismatches: 43, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
43 4 0.03
44 138 0.95
45 4 0.03
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (44 bp):
TAGTAAATCATTAATAAATTAATAATAAATTATTGATAACTTAA
Found at i:15275885 original size:66 final size:65
Alignment explanation
Indices: 15275735--15275919 Score: 192
Period size: 66 Copynumber: 2.8 Consensus size: 65
15275725 ATAACTTTAT
* * * *
15275735 AATAAATTATTGATAAATTTATAGTAAATTAATTATAATTTTATAATAAATCATCAATAATTTAG
1 AATAAATTATCGAT-AATTTATAGTAAATTATTTATAATTTAATAATAAATCATCAATAAATTAG
*
15275800 T
65 A
* * * * * *
15275801 AACAAATCATCAACAATTTA-ATGATAAATTATTTATAACTTAATAATAAATCATTAATAAATTA
1 AATAAATTATCGATAATTTATA-G-TAAATTATTTATAATTTAATAATAAATCATCAATAAATTA
15275865 GA
64 GA
* * * *
15275867 AATAAATTATGGATAATTTATTAGTAAATCATTGATAATTTAATAGTAAATCA
1 AATAAATTATCGATAATTTA-TAGTAAATTATTTATAATTTAATAATAAATCA
15275920 ATGATAACTT
Statistics
Matches: 95, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
64 1 0.01
65 7 0.07
66 85 0.89
67 1 0.01
68 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (65 bp):
AATAAATTATCGATAATTTATAGTAAATTATTTATAATTTAATAATAAATCATCAATAAATTAGA
Found at i:15275948 original size:22 final size:22
Alignment explanation
Indices: 15275825--15275948 Score: 97
Period size: 22 Copynumber: 5.6 Consensus size: 22
15275815 AATTTAATGA
* * *
15275825 TAAATTATTTATAACTTAATAA
1 TAAATCATTGATAACTTAATAG
* * *
15275847 TAAATCATTAATAAATTAGA-AA
1 TAAATCATTGATAACTTA-ATAG
* * * *
15275869 TAAATTATGGATAATTTATTAG
1 TAAATCATTGATAACTTAATAG
*
15275891 TAAATCATTGATAATTTAATAG
1 TAAATCATTGATAACTTAATAG
* *
15275913 TAAATCAATGATAACTTAATTG
1 TAAATCATTGATAACTTAATAG
* *
15275935 TTAATCATTAATAA
1 TAAATCATTGATAA
15275949 GTTTTTTTAT
Statistics
Matches: 82, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
22 81 0.99
23 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.40
Consensus pattern (22 bp):
TAAATCATTGATAACTTAATAG
Found at i:15276238 original size:22 final size:22
Alignment explanation
Indices: 15276189--15276321 Score: 99
Period size: 22 Copynumber: 6.0 Consensus size: 22
15276179 AGTTTAATAA
* *
15276189 AAATCAGTAATAACTTAGTAAT
1 AAATCAGTAATAACTTAATAGT
*
15276211 AAATCAGTGATAACTTAATAGT
1 AAATCAGTAATAACTTAATAGT
* * **
15276233 ATATCAGT-GTCAGTTTAATAGT
1 AAATCAGTAAT-AACTTAATAGT
* * * *
15276255 AATTAATTAATAAATTTAATAGT
1 AAATCAGTAAT-AACTTAATAGT
*
15276278 AAATCA-TAAATAACTTAATAAT
1 AAATCAGT-AATAACTTAATAGT
* *
15276300 AAATCAGTGATAATTTAATAGT
1 AAATCAGTAATAACTTAATAGT
15276322 TAATTATTGA
Statistics
Matches: 86, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
21 1 0.01
22 66 0.77
23 19 0.22
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (22 bp):
AAATCAGTAATAACTTAATAGT
Found at i:15276289 original size:23 final size:21
Alignment explanation
Indices: 15276246--15276431 Score: 72
Period size: 22 Copynumber: 8.6 Consensus size: 21
15276236 TCAGTGTCAG
* *
15276246 TTTAATAGTAATTAATTAATAAA
1 TTTAATAGTAAATCA-TAAT-AA
15276269 TTTAATAGTAAATCATAAATAA
1 TTTAATAGTAAATCAT-AATAA
* * *
15276291 CTTAATAATAAATCAGTGATAA
1 TTTAATAGTAAATCA-TAATAA
* * *
15276313 TTTAATAGTTAATTATTGAA-AG
1 TTTAATAGTAAATCA-T-AATAA
* * * * *
15276335 CTTAAAAATAATTAAT-ATAA
1 TTTAATAGTAAATCATAATAA
* * *
15276355 TTTAGTAATAAATTATAGATAA
1 TTTAATAGTAAATCATA-ATAA
* * * *
15276377 CTTAATAGTTAATTAATGATAA
1 TTTAATAG-TAAATCATAATAA
*
15276399 TTTAATAGTAAATCATGGATAA
1 TTTAATAGTAAATCAT-AATAA
*
15276421 TTAAATA-TAAA
1 TTTAATAGTAAA
15276432 ATGGTGATAA
Statistics
Matches: 121, Mismatches: 34, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
19 1 0.01
20 12 0.10
21 11 0.09
22 73 0.60
23 24 0.20
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.39
Consensus pattern (21 bp):
TTTAATAGTAAATCATAATAA
Found at i:15276347 original size:89 final size:86
Alignment explanation
Indices: 15276181--15276407 Score: 228
Period size: 89 Copynumber: 2.6 Consensus size: 86
15276171 TTAAAGATAG
* * * **
15276181 TTTAATAAAAATCAGT-AATAACTTAGTAATAAATCAGTGATAACTTAATAG-TATATCAGTGTC
1 TTTAATATAAATCA-TAAATAACTTAATAATAAATCAGTGATAATTTAATAGTTATATCAGTGAA
*
15276244 AGTTTAATAGTAATTAATTAATA-AA
65 AGCTTAA-A--AA-TAATTAATATAA
* *
15276269 TTTAATAGTAAATCATAAATAACTTAATAATAAATCAGTGATAATTTAATAGTTA-ATTATTGAA
1 TTTAATA-TAAATCATAAATAACTTAATAATAAATCAGTGATAATTTAATAGTTATATCAGTGAA
15276333 AGCTTAAAAATAATTAATATAA
65 AGCTTAAAAATAATTAATATAA
* * * * * * *
15276355 TTTAGTAATAAATTATAGATAACTTAATAGTTAATTAATGATAATTTAATAGT
1 TTTAAT-ATAAATCATAAATAACTTAATAATAAATCAGTGATAATTTAATAGT
15276408 AAATCATGGA
Statistics
Matches: 119, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
85 9 0.08
86 48 0.40
87 1 0.01
88 9 0.08
89 50 0.42
90 2 0.02
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (86 bp):
TTTAATATAAATCATAAATAACTTAATAATAAATCAGTGATAATTTAATAGTTATATCAGTGAAA
GCTTAAAAATAATTAATATAA
Found at i:15276390 original size:22 final size:22
Alignment explanation
Indices: 15276270--15276424 Score: 88
Period size: 22 Copynumber: 7.2 Consensus size: 22
15276260 ATTAATAAAT
* *
15276270 TTAATAGTAAATCATAAATAAC
1 TTAATAGTAAATTATAGATAAC
* * *
15276292 TTAATAATAAATCAGT-GATAAT
1 TTAATAGTAAATTA-TAGATAAC
* *
15276314 TTAATAGTTAATTATTGA-AAGC
1 TTAATAGTAAATTATAGATAA-C
* * * *
15276336 TTAAAAAT-AATTA-ATATAAT
1 TTAATAGTAAATTATAGATAAC
* *
15276356 TTAGTAATAAATTATAGATAAC
1 TTAATAGTAAATTATAGATAAC
* *
15276378 TTAATAGTTAATTA-ATGATAAT
1 TTAATAGTAAATTATA-GATAAC
* *
15276400 TTAATAGTAAATCATGGATAA-
1 TTAATAGTAAATTATAGATAAC
15276421 TTAA
1 TTAA
15276425 ATATAAAATG
Statistics
Matches: 102, Mismatches: 23, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
20 7 0.07
21 20 0.20
22 74 0.73
23 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (22 bp):
TTAATAGTAAATTATAGATAAC
Found at i:15276484 original size:21 final size:20
Alignment explanation
Indices: 15276351--15276497 Score: 62
Period size: 22 Copynumber: 6.8 Consensus size: 20
15276341 AATAATTAAT
* *
15276351 ATAATTTAGTAATAAATTATAG
1 ATAATTTAAT-ATAAATTGT-G
* * *
15276373 ATAACTTAATAGTTAATTAATG
1 ATAATTTAATA-TAAATT-GTG
15276395 ATAATTTAATAGTAAATCATG-G
1 ATAATTTAATA-TAAAT--TGTG
* *
15276417 ATAATTAAATATAAAATGGTG
1 ATAATTTAATAT-AAATTGTG
* ** * *
15276438 ATAAATTGGTAGAGAATTATG
1 ATAATTTAATATA-AATTGTG
15276459 AATAATTTAATATAAATCTGTG
1 -ATAATTTAATATAAAT-TGTG
*
15276481 ATAATTTTATAGTAAAT
1 ATAATTTAATA-TAAAT
15276498 ATTCAAAAAC
Statistics
Matches: 94, Mismatches: 21, Indels: 20
0.70 0.16 0.15
Matches are distributed among these distances:
20 2 0.02
21 28 0.30
22 61 0.65
23 2 0.02
24 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (20 bp):
ATAATTTAATATAAATTGTG
Found at i:15276706 original size:22 final size:22
Alignment explanation
Indices: 15276673--15276775 Score: 79
Period size: 22 Copynumber: 4.7 Consensus size: 22
15276663 CCTTGTTAAC
*
15276673 TTTGAAGTAAATTATCAATAAA
1 TTTGTAGTAAATTATCAATAAA
** * * *
15276695 TTAATAGTAAA-TAACTTATAAC
1 TTTGTAGTAAATTATC-AATAAA
*
15276717 TTTGTAATAAATTATCAA-AAA
1 TTTGTAGTAAATTATCAATAAA
15276738 TTTTGTAGTAAATTATCAAT-AA
1 -TTTGTAGTAAATTATCAATAAA
15276760 TTTAGT-GATAAATTAT
1 TTT-GTAG-TAAATTAT
15276776 TGAGTAAATT
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
21 9 0.15
22 50 0.81
23 3 0.05
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (22 bp):
TTTGTAGTAAATTATCAATAAA
Found at i:15276803 original size:22 final size:22
Alignment explanation
Indices: 15276778--15276843 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
15276768 TAAATTATTG
*
15276778 AGTAAATTATTTATAATTTAAT
1 AGTAAATTATTGATAATTTAAT
* * **
15276800 AGTAAATAATTGAGAACATAAT
1 AGTAAATTATTGATAATTTAAT
*
15276822 AGTAAATTAATGATAATTTAAT
1 AGTAAATTATTGATAATTTAAT
15276844 TATCAATCAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (22 bp):
AGTAAATTATTGATAATTTAAT
Found at i:15276806 original size:34 final size:34
Alignment explanation
Indices: 15276735--15276813 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
15276725 AAATTATCAA
*
15276735 AAATT-TTGTAGTAAATTATCAATAATTTAGTGAT
1 AAATTATTG-AGTAAATTATCAATAATTTAATGAT
**
15276769 AAATTATTGAGTAAATTATTTATAATTTAAT-AGT
1 AAATTATTGAGTAAATTATCAATAATTTAATGA-T
*
15276803 AAATAATTGAG
1 AAATTATTGAG
15276814 AACATAATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 1 0.03
34 35 0.90
35 3 0.08
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.43
Consensus pattern (34 bp):
AAATTATTGAGTAAATTATCAATAATTTAATGAT
Found at i:15276984 original size:13 final size:13
Alignment explanation
Indices: 15276966--15276991 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15276956 GAACCTATTC
15276966 AATAAAAAAATTT
1 AATAAAAAAATTT
15276979 AATAAAAAAATTT
1 AATAAAAAAATTT
15276992 TAAATTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAAAAAAATTT
Found at i:15277186 original size:22 final size:21
Alignment explanation
Indices: 15277137--15277188 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
15277127 ATCATAAGTC
*
15277137 ACCAAAATTATATAAAAGCTT
1 ACCAAAATTACATAAAAGCTT
* * *
15277158 ACTAAAATTACATTAAGAGGTT
1 ACCAAAATTACA-TAAAAGCTT
15277180 ACCAAAATT
1 ACCAAAATT
15277189 TTATAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (21 bp):
ACCAAAATTACATAAAAGCTT
Found at i:15285806 original size:29 final size:28
Alignment explanation
Indices: 15285751--15285806 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
15285741 AATTAAATTT
* * *
15285751 TTTTTTGGATTAATTTGAATTTGTTTAA
1 TTTTTTAGATTAATTTGAATGTATTTAA
*
15285779 TTTTTTAGATTTAATTTGTATGTATTTA
1 TTTTTTAGA-TTAATTTGAATGTATTTA
15285807 TTTGAGTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (28 bp):
TTTTTTAGATTAATTTGAATGTATTTAA
Found at i:15286566 original size:17 final size:17
Alignment explanation
Indices: 15286533--15286564 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
15286523 CACGAGCCCT
15286533 TCCCCCCACACCCCCCC
1 TCCCCCCACACCCCCCC
15286550 TCCCCCC-C-CCCCCCC
1 TCCCCCCACACCCCCCC
15286565 CCCAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.06, C:0.88, G:0.00, T:0.06
Consensus pattern (17 bp):
TCCCCCCACACCCCCCC
Found at i:15286567 original size:18 final size:18
Alignment explanation
Indices: 15286529--15286565 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
15286519 ATAACACGAG
*
15286529 CCCTTCCCCCCACACCCC
1 CCCTCCCCCCCACACCCC
15286547 CCCTCCCCCCC-C-CCCC
1 CCCTCCCCCCCACACCCC
15286563 CCC
1 CCC
15286566 CCAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.05, C:0.86, G:0.00, T:0.08
Consensus pattern (18 bp):
CCCTCCCCCCCACACCCC
Found at i:15287345 original size:2 final size:2
Alignment explanation
Indices: 15287338--15287365 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15287328 CCTCTCCTTG
15287338 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
15287366 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15289947 original size:13 final size:13
Alignment explanation
Indices: 15289929--15289954 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15289919 TTTTTTTCTT
15289929 TTTTATAGTAGAG
1 TTTTATAGTAGAG
15289942 TTTTATAGTAGAG
1 TTTTATAGTAGAG
15289955 GTTGTCGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TTTTATAGTAGAG
Found at i:15290933 original size:34 final size:37
Alignment explanation
Indices: 15290866--15290935 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
15290856 TATGGAACAA
* *
15290866 ATTTTATATATAATAATATTAAGTAAATGTATTTTAG
1 ATTTTATATATAATAATACTAAGTAAATATATTTTAG
*
15290903 ATTTTATATGTAATAATACT-A-TAAA-ATATTTTA
1 ATTTTATATATAATAATACTAAGTAAATATATTTTA
15290936 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 7 0.23
35 4 0.13
36 1 0.03
37 18 0.60
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (37 bp):
ATTTTATATATAATAATACTAAGTAAATATATTTTAG
Found at i:15291138 original size:40 final size:41
Alignment explanation
Indices: 15291084--15291189 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
15291074 AAGGTTGTGT
* * *
15291084 TTTTTATATTAGAAAAATCATCTTTTTAGT-AAAAACTATG
1 TTTTTATCTTAGAAAAATCATCTTTTTAATAAAAAAATATG
* *
15291124 TTTTTATCTCAGAAAAGTCAT-TTTTTAATAAAAAAAATATG
1 TTTTTATCTTAGAAAAATCATCTTTTTAAT-AAAAAAATATG
*
15291165 TTTTTATCTTAGAAATATCATCTTT
1 TTTTTATCTTAGAAAAATCATCTTT
15291190 ATTGAATTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 7 0.13
40 18 0.33
41 27 0.49
42 3 0.05
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (41 bp):
TTTTTATCTTAGAAAAATCATCTTTTTAATAAAAAAATATG
Found at i:15291417 original size:116 final size:116
Alignment explanation
Indices: 15291154--15291484 Score: 315
Period size: 116 Copynumber: 2.9 Consensus size: 116
15291144 TTTTTTAATA
* * *
15291154 AAAAAAATATGTTTTTATCTTAGAAATATCATCTTTATTGAATTCTTAAAAATATATATTTTTT-
1 AAAAAACTATGTTTTTATCTTAGAAATATCGTCTTTATTGAATTC-TAAAAATAT-TTTTTTTTC
* * * *
15291218 ATATTTTCAACAAAAACTAT-GTTTT-TTTTCTTAAAAATGTTGTCTTTTCAAC
64 ATATTTTCAACAAAAACTATATTTTTATTTTTTTCAAAA-GTTATCTTTTCAAC
** * * *
15291270 -AATGACTATATTTTATAT-TTCAGAAACATCGTCTTTGTTGAATTCTAAAAACTATTTTTTTTT
1 AAAAAACTATGTTTT-TATCTT-AGAAATATCGTCTTTATTGAATTCTAAAAA-TATTTTTTTTT
* *
15291333 CATATTTTCAACAAAAATTATATTTTTATTTTTTTCAACA-TTAT-TTTTCAAC
63 CATATTTTCAACAAAAACTATATTTTTATTTTTTTCAAAAGTTATCTTTTCAAC
* * * *
15291385 AAAAAACTACGTTTTCTATCTTAAAAATATCGTGTTTATTGAATTCT--GAA-A-TTTTTTTTCA
1 AAAAAACTATGTTTT-TATCTTAGAAATATCGTCTTTATTGAATTCTAAAAATATTTTTTTTTCA
* ** *
15291446 TATTTTTAACAAGGACTATATTTTTACTTTTTATCAAAA
65 TATTTTCAACAAAAACTATATTTTTA-TTTTTTTCAAAA
15291485 AGTAATATGC
Statistics
Matches: 176, Mismatches: 30, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
111 32 0.18
112 11 0.06
114 2 0.01
115 33 0.19
116 83 0.47
117 6 0.03
118 9 0.05
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (116 bp):
AAAAAACTATGTTTTTATCTTAGAAATATCGTCTTTATTGAATTCTAAAAATATTTTTTTTTCAT
ATTTTCAACAAAAACTATATTTTTATTTTTTTCAAAAGTTATCTTTTCAAC
Found at i:15291773 original size:23 final size:23
Alignment explanation
Indices: 15291744--15291799 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
15291734 ATAATATTTT
*
15291744 ATATAAAAATTATTACATCTATA
1 ATATAAAAATTATTACATATATA
* **
15291767 ATGTAAATAA-TATTATTTATATA
1 ATATAAA-AATTATTACATATATA
15291790 ATATAAAAAT
1 ATATAAAAAT
15291800 AGAGTTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
22 2 0.08
23 22 0.85
24 2 0.08
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
ATATAAAAATTATTACATATATA
Found at i:15295413 original size:11 final size:10
Alignment explanation
Indices: 15295395--15295429 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
15295385 AGAATGTAGC
15295395 AAAGAAAAAA
1 AAAGAAAAAA
15295405 AATAGAAAAAA
1 AA-AGAAAAAA
15295416 ACAAGAAAAAA
1 A-AAGAAAAAA
15295427 AAA
1 AAA
15295430 TAAACAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.17
11 18 0.78
12 1 0.04
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:15296177 original size:231 final size:230
Alignment explanation
Indices: 15295822--15296409 Score: 562
Period size: 231 Copynumber: 2.5 Consensus size: 230
15295812 CCTGAGTTAG
* * * ** * * *
15295822 GATCAAATGACTGAA-ATGATGTCACGAGTTAAAAT-AAAGTGACCAGGACCGAATCGAGGTAAA
1 GATCAAATGA-TCAAGATGATGTCACAAGTCAAAATGAAA-CAACCAAGA-CGAGTCGAGATAAA
* * *** * *
15295885 AAATAAATGA-TCAGACTGATGTTATGAGTCTGAAGATCATCTAACATGAGTCGAA-ATCAAATG
63 AAATGAATGACTGA-ACTGATGTTGCAAGTTTGAAGATGATCTAACATGAGTC-AAGATCAAATG
* * * * * * *
15295948 ATTGGGACGATGCTGTAAGTTAAAAGGTGA-CTAAGA-CTAAGTCAAAGTTATAAATAAATGA-T
126 ACTGGGACAATGATGCAAGTGAAAAGGCGATC-AAGATC-AAGTCAAAGTCATAAATAAATGACT
15296010 CGAACTGATGTCACAAATCTGAAGATGATTTAACCTAAGTCAA
189 -GAACTGATGTCACAAATCTGAAGATGATTTAACCTAAGTCAA
* * * * **
15296053 GATCAAATGATTAAGATGATGTTACAAGTCAAAATGAAGCAACTAAGACTGAGTCGAGATTGAAA
1 GATCAAATGATCAAGATGATGTCACAAGTCAAAATGAAACAACCAAGAC-GAGTCGAGATAAAAA
* * * *
15296118 ATTAATGA-TCGAACTGATGTTGCAGGTTTGAAGATGATTTAACATAAGTCAAGATCAAATGACT
65 ATGAATGACT-GAACTGATGTTGCAAGTTTGAAGATGATCTAACATGAGTCAAGATCAAATGACT
* * * *
15296182 GGGACAATGATGCAAGTGAAAAGGCGATCAAGATCGAGTCAAGGTCATAAATGAATGACTGGACT
129 GGGACAATGATGCAAGTGAAAAGGCGATCAAGATCAAGTCAAAGTCATAAATAAATGACTGAACT
** * * * * * *
15296247 GATGTCATGAGTTTGAAGATGATTTGACTTATGTTAA
194 GATGTCACAAATCTGAAGATGATTTAACCTAAGTCAA
* * * * *
15296284 GATCAAATGATCGAGATGATGTCGCAAGTTAAAATGAAACAACCAGGACGAGTCGAGGTAAAAAA
1 GATCAAATGATCAAGATGATGTCACAAGTCAAAATGAAACAACCAAGACGAGTCGAGATAAAAAA
* **
15296349 TGAATGACTGGACTGATGTTGCAAGTTTGAAGATGATCTAACATGAGTTGAGATCAAATGA
66 TGAATGACTGAACTGATGTTGCAAGTTTGAAGATGATCTAACATGAGTCAAGATCAAATGA
15296410 GTGGATAGTG
Statistics
Matches: 288, Mismatches: 60, Indels: 19
0.78 0.16 0.05
Matches are distributed among these distances:
230 71 0.25
231 211 0.73
232 6 0.02
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (230 bp):
GATCAAATGATCAAGATGATGTCACAAGTCAAAATGAAACAACCAAGACGAGTCGAGATAAAAAA
TGAATGACTGAACTGATGTTGCAAGTTTGAAGATGATCTAACATGAGTCAAGATCAAATGACTGG
GACAATGATGCAAGTGAAAAGGCGATCAAGATCAAGTCAAAGTCATAAATAAATGACTGAACTGA
TGTCACAAATCTGAAGATGATTTAACCTAAGTCAA
Found at i:15296311 original size:114 final size:114
Alignment explanation
Indices: 15296029--15296409 Score: 306
Period size: 114 Copynumber: 3.3 Consensus size: 114
15296019 GTCACAAATC
* * * ** * * *
15296029 TGAAGATGATTTAACCTAAGTCAAGATCAAATGATTAAGATGATGTTACAAGTCAAAATGAAGCA
1 TGAAGATGATTTAACATAAGTCAAGATCAAATGACTGAGACAATGATGCAAGTGAAAATGAA-CA
* * * ** * * *
15296094 ACTAAGACTGAGTCGAGATTGAAAATTAATGA-TCGAACTGATGTTGCAGGTT
65 ACCAAGAC-GAGTCAAGGTAAAAAATGAATGACT-GGACTGATGTTG-AAGTT
* * *
15296146 TGAAGATGATTTAACATAAGTCAAGATCAAATGACTGGGACAATGATGCAAGTGAAAA-G-GCGA
1 TGAAGATGATTTAACATAAGTCAAGATCAAATGACTGAGACAATGATGCAAGTGAAAATGAACAA
* * *
15296209 TCAAGATCGAGTCAAGGTCATAAATGAATGACTGGACTGATGTCATG-AGTT
66 CCAAGA-CGAGTCAAGGTAAAAAATGAATGACTGGACTGATGT--TGAAGTT
* * * * ** *
15296260 TGAAGATGATTTGACTTATGTTAAGATCAAATGA-TCGAGATGATG-TCGCAAGTTAAAATGAAA
1 TGAAGATGATTTAACATAAGTCAAGATCAAATGACT-GAGACAATGAT-GCAAGTGAAAATG-AA
* *
15296323 CAACCAGGACGAGTCGAGGTAAAAAATGAATGACTGGACTGATGTTGCAAGTT
63 CAACCAAGACGAGTCAAGGTAAAAAATGAATGACTGGACTGATGTTG-AAGTT
* * **
15296376 TGAAGATGATCTAACATGAGTTGAGATCAAATGA
1 TGAAGATGATTTAACATAAGTCAAGATCAAATGA
15296410 GTGGATAGTG
Statistics
Matches: 211, Mismatches: 42, Indels: 23
0.76 0.15 0.08
Matches are distributed among these distances:
113 2 0.01
114 83 0.39
115 3 0.01
116 68 0.32
117 55 0.26
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (114 bp):
TGAAGATGATTTAACATAAGTCAAGATCAAATGACTGAGACAATGATGCAAGTGAAAATGAACAA
CCAAGACGAGTCAAGGTAAAAAATGAATGACTGGACTGATGTTGAAGTT
Found at i:15297215 original size:10 final size:10
Alignment explanation
Indices: 15297200--15297225 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
15297190 ATTCCCTTCC
15297200 TTTTTTTATT
1 TTTTTTTATT
15297210 TTTTTTTATT
1 TTTTTTTATT
15297220 TTTTTT
1 TTTTTT
15297226 ATGTTAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:15306842 original size:19 final size:19
Alignment explanation
Indices: 15306814--15306860 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
15306804 AAGTATATAC
* *
15306814 ATAAAAAAAT-CAAGTAAA
1 ATAAATAAATACAAGGAAA
15306832 TATAAATAAATACAAGGAAA
1 -ATAAATAAATACAAGGAAA
15306852 ATAAATAAA
1 ATAAATAAA
15306861 CAGATATGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.19
Consensus pattern (19 bp):
ATAAATAAATACAAGGAAA
Found at i:15308531 original size:3 final size:3
Alignment explanation
Indices: 15308523--15308554 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15308513 AAAACAAGAA
15308523 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15308555 AAAAAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15308640 original size:26 final size:25
Alignment explanation
Indices: 15308604--15308653 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
15308594 GGCCTAAATG
*
15308604 GGCCCGAACATTGATGGACCCAATTA
1 GGCCCAAACATTGATGG-CCCAATTA
15308630 GGCCCAAACATTGATGGCCCAATT
1 GGCCCAAACATTGATGGCCCAATT
15308654 GGGTCCAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (25 bp):
GGCCCAAACATTGATGGCCCAATTA
Found at i:15316452 original size:2 final size:2
Alignment explanation
Indices: 15316445--15316498 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
15316435 GCAATTAATC
15316445 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15316487 CT CT CT CT CT CT
1 CT CT CT CT CT CT
15316499 ATATATATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15316503 original size:2 final size:2
Alignment explanation
Indices: 15316498--15316529 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15316488 TCTCTCTCTC
15316498 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15316530 ATAGACTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15317663 original size:34 final size:34
Alignment explanation
Indices: 15317620--15317744 Score: 144
Period size: 34 Copynumber: 3.7 Consensus size: 34
15317610 GCCGCTAAGT
15317620 ATATGAAAAACATCGCTATATTAGCAGCATTTAA
1 ATATGAAAAACATCGCTATATTAGCAGCATTTAA
**
15317654 ATATGAAAAATGTCGCTATATTAGC-GACATTTAA
1 ATATGAAAAACATCGCTATATTAGCAG-CATTTAA
* * * * * *
15317688 ATCTGGAAAACACCGCTATATTATCAGTATTTAT
1 ATATGAAAAACATCGCTATATTAGCAGCATTTAA
* *
15317722 ATCTGAAAAACGTCGCTATATTA
1 ATATGAAAAACATCGCTATATTA
15317745 ACGACGTTTG
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
33 1 0.01
34 74 0.97
35 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (34 bp):
ATATGAAAAACATCGCTATATTAGCAGCATTTAA
Found at i:15317759 original size:34 final size:34
Alignment explanation
Indices: 15317623--15317759 Score: 100
Period size: 34 Copynumber: 4.0 Consensus size: 34
15317613 GCTAAGTATA
* * * * *
15317623 TGAAAAACATCGCTATATTAGC-AGCATTTAAATA
1 TGAAAAACGTCGCTATATTAACGA-CGTTTATATC
* * * *
15317657 TGAAAAATGTCGCTATATTAGCGACATTTAAATC
1 TGAAAAACGTCGCTATATTAACGACGTTTATATC
* ** *
15317691 TGGAAAACACCGCTATATTATC-A-GTATTTATATC
1 TGAAAAACGTCGCTATATTAACGACG--TTTATATC
*
15317725 TGAAAAACGTCGCTATATTAACGACGTTTGTATC
1 TGAAAAACGTCGCTATATTAACGACGTTTATATC
15317759 T
1 T
15317760 TTGACACATT
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
33 1 0.01
34 79 0.95
35 2 0.02
36 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (34 bp):
TGAAAAACGTCGCTATATTAACGACGTTTATATC
Found at i:15326149 original size:140 final size:140
Alignment explanation
Indices: 15325912--15326169 Score: 417
Period size: 140 Copynumber: 1.8 Consensus size: 140
15325902 AAGTGTCTTC
* * * ** * *
15325912 TAGTGAAAAATGCTTTCGATATTTTACAACTCAATTTTTAAGATGGTTAGTGAAAGCGTTTATTC
1 TAGTAAAAAATGCCTTCAATATTCCACAACTCAAATTTTAAGATGGTTAGTGAAAGCGCTTATTC
*
15325977 TAGAAAAATACCTTCACTAATTCTTTTTAATTTACGTACATAATTATTGAAGGCGTTTGCTTTAA
66 TAGAAAAATACCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGCGTTTGCTTTAA
15326042 AAAATGCCTT
131 AAAATGCCTT
15326052 TAGTAAAAAATGCCTTCAATATTCCACAACTCAAATTTTAAGATGGTTAGTGAAAGCGCTTATTC
1 TAGTAAAAAATGCCTTCAATATTCCACAACTCAAATTTTAAGATGGTTAGTGAAAGCGCTTATTC
* **
15326117 TAGAAAAATACCTTCATTAATTCCTTTTAATTTTTGTACATAATTATTGAAGG
66 TAGAAAAATACCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGG
15326170 TATTTTTTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
140 107 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (140 bp):
TAGTAAAAAATGCCTTCAATATTCCACAACTCAAATTTTAAGATGGTTAGTGAAAGCGCTTATTC
TAGAAAAATACCTTCACTAATTCCTTTTAATTTACGTACATAATTATTGAAGGCGTTTGCTTTAA
AAAATGCCTT
Found at i:15330286 original size:35 final size:35
Alignment explanation
Indices: 15330247--15330316 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
15330237 ATATATAAAC
*
15330247 CAAATGTTTTCTGGGCATAAA-TATATAACTGACTT
1 CAAATGTTTTCTGGGCATAAACT-TAGAACTGACTT
*
15330282 CAAATGTTTTTTGGGCATAAACTTAGAACTGACTT
1 CAAATGTTTTCTGGGCATAAACTTAGAACTGACTT
15330317 GACATATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 31 0.97
36 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (35 bp):
CAAATGTTTTCTGGGCATAAACTTAGAACTGACTT
Found at i:15332409 original size:2 final size:2
Alignment explanation
Indices: 15332404--15332432 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15332394 TGTGTGTGTT
15332404 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15332433 CTTTGAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15336881 original size:20 final size:21
Alignment explanation
Indices: 15336856--15336894 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
15336846 ATTTATATTT
15336856 TTAATTTTT-TTAATATTAGA
1 TTAATTTTTATTAATATTAGA
*
15336876 TTAATTTTTATTATTATTA
1 TTAATTTTTATTAATATTA
15336895 TTTTTGTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
TTAATTTTTATTAATATTAGA
Found at i:15337141 original size:6 final size:6
Alignment explanation
Indices: 15337130--15337154 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15337120 ACAAGAGTTT
15337130 TTATAA TTATAA TTATAA TTATAA T
1 TTATAA TTATAA TTATAA TTATAA T
15337155 ATTTTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:15342778 original size:3 final size:3
Alignment explanation
Indices: 15342770--15342805 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
15342760 TCTTTAAAAA
*
15342770 CAT CAT CAT CAT CAT CAT CAT CAG CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
15342806 TATTATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:15344907 original size:145 final size:144
Alignment explanation
Indices: 15344487--15344907 Score: 404
Period size: 145 Copynumber: 2.9 Consensus size: 144
15344477 TCATTTTTTG
* * * * * * ** *
15344487 GATTTTAAAGCACTAGAACTCATAAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAATTC
1 GATTTTAAAGCACCAAAAATCATGAAATATTATAAAATTAAG-TCTGAAAAGTTTCACAAAAATC
* * * * **
15344552 CAAGCTCGAAAAAGCT-AAATTATAAAAATACCCTTTA-AAGGGTAGTTTAGTAATTTCATATTT
65 CAAGCTC-AAAAAGGTCAAATTATGAAAATA-CCTTTATAAGGGTATTTTGGTAATTTCACCTTT
* * * *
15344615 TTTGGGGTATTGCTGTC
128 CTTGAGGTACTGCTATC
* * * *
15344632 G-TTTCAAACTCACCAAAAATCATGAAATATTATAAAATTGAA-ACATGAAAAGTTTCACAATAA
1 GATTTTAAA-GCACCAAAAATCATGAAATATTATAAAATT-AAGTC-TGAAAAGTTTCACAAAAA
*** * * * ** *
15344695 TTTGAGCTAAAAAAAG-CTAAATTATGAAAATACCCTTATAATAGTATTTTGGTAATTTCACCAT
63 TCCAAGCTCAAAAAGGTC-AAATTATGAAAATACCTTTATAAGGGTATTTTGGTAATTTCACCTT
15344759 TCTTGAGGTACTGCTAT-
127 TCTTGAGGTACTGCTATC
15344776 GATTTTAAAGGCACCAAAAATCATGAAATATTATAAAATTAAGGTCTGAAAAGTTTCACAAAAAT
1 GATTTTAAA-GCACCAAAAATCATGAAATATTATAAAATTAA-GTCTGAAAAGTTTCACAAAAAT
* **
15344841 CCAAGCTCAAAAAGGTCAAATTATGAAAACACCTTTATAAGGGTATTTTGGTAATTTTGCCTTTC
64 CCAAGCTCAAAAAGGTCAAATTATGAAAATACCTTTATAAGGGTATTTTGGTAATTTCACCTTTC
15344906 TT
129 TT
15344908 AGGCGTAATG
Statistics
Matches: 217, Mismatches: 49, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
144 20 0.09
145 193 0.89
146 4 0.02
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (144 bp):
GATTTTAAAGCACCAAAAATCATGAAATATTATAAAATTAAGTCTGAAAAGTTTCACAAAAATCC
AAGCTCAAAAAGGTCAAATTATGAAAATACCTTTATAAGGGTATTTTGGTAATTTCACCTTTCTT
GAGGTACTGCTATC
Found at i:15347404 original size:21 final size:21
Alignment explanation
Indices: 15347375--15347420 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
15347365 ATTTTTAGAA
15347375 TTGACCCAAGCTCTTATCCAAT
1 TTGACCCAAGCT-TTATCCAAT
* *
15347397 TTGA-CCAAGCTTTGTGCAAT
1 TTGACCCAAGCTTTATCCAAT
15347417 TTGA
1 TTGA
15347421 TTGAATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 7 0.32
22 4 0.18
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (21 bp):
TTGACCCAAGCTTTATCCAAT
Found at i:15347688 original size:7 final size:7
Alignment explanation
Indices: 15347676--15347726 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
15347666 AAACCCTCAC
15347676 TTTTTAT
1 TTTTTAT
15347683 TTTTTAT
1 TTTTTAT
15347690 TTTTT-T
1 TTTTTAT
15347696 TGTTTT-T
1 T-TTTTAT
15347703 GTTTTTAT
1 -TTTTTAT
15347711 TTTTTAT
1 TTTTTAT
15347718 TTTTT-T
1 TTTTTAT
15347724 TTT
1 TTT
15347727 GCCATATCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.15
7 33 0.80
8 2 0.05
ACGTcount: A:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:15347867 original size:68 final size:68
Alignment explanation
Indices: 15347795--15347924 Score: 147
Period size: 68 Copynumber: 1.9 Consensus size: 68
15347785 ACAATGAATG
* *
15347795 GGATTAAACTGCT-AGTCAGAGAATAATGAGACCA-AAATTGAACAACGAGTCAAAAAATAAAGA
1 GGATTAAACTG-TGAGTAAGAGAATAACGAGA-CAGAAATTGAACAACGAGTCAAAAAATAAAGA
15347858 GACCC
64 GACCC
* * * ** * *
15347863 GGATTGAATTGTGAGTAAGAGAATAACGAGATAGGGATTGAACCATGAGTCAAAAAATAAAG
1 GGATTAAACTGTGAGTAAGAGAATAACGAGACAGAAATTGAACAACGAGTCAAAAAATAAAG
15347925 GAAACTAGGA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
67 2 0.04
68 49 0.96
ACGTcount: A:0.47, C:0.12, G:0.23, T:0.18
Consensus pattern (68 bp):
GGATTAAACTGTGAGTAAGAGAATAACGAGACAGAAATTGAACAACGAGTCAAAAAATAAAGAGA
CCC
Found at i:15348238 original size:68 final size:69
Alignment explanation
Indices: 15348095--15348354 Score: 187
Period size: 68 Copynumber: 3.9 Consensus size: 69
15348085 TCGTAAGTCA
* * *
15348095 AAGAATAACGAGAAAGGGATTAAACCACGAGCTGAAAAATAAAAGAGACCAAGATTGAACCATGA
1 AAGAATAACGAGACAGGGATTAAACCACGAGCTAAAAAATAAAAGAGACCAAAATTGAACCATGA
15348160 ATTG
66 ATTG
* * * * ***
15348164 AAGAATAACGAGACAGGGATTAAATCACTAGTTAAAAAATAAAA-AGATCAAAATTGAATTGTGA
1 AAGAATAACGAGACAGGGATTAAACCACGAGCTAAAAAATAAAAGAGACCAAAATTGAACCATGA
15348228 ATT-
66 ATTG
* * * *** * * * **
15348231 AGAGAATAACGAAACATGGATTGAACTGTGAG-T----TAGAAAA-AGATCAGGATTGAACCATG
1 A-AGAATAACGAGACAGGGATTAAACCACGAGCTAAAAAATAAAAGAGACCAAAATTGAACCATG
*
15348290 AGTT-
65 AATTG
* * * * * * *
15348294 AAAAATAACGAGACAGGGATTGAACCATGAGTTGAAAAATAAAGGAGACCGAAATTGAACC
1 AAGAATAACGAGACAGGGATTAAACCACGAGCTAAAAAATAAAAGAGACCAAAATTGAACC
15348355 TTGAGTCAAG
Statistics
Matches: 146, Mismatches: 38, Indels: 15
0.73 0.19 0.08
Matches are distributed among these distances:
62 25 0.17
63 24 0.16
67 6 0.04
68 52 0.36
69 39 0.27
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.19
Consensus pattern (69 bp):
AAGAATAACGAGACAGGGATTAAACCACGAGCTAAAAAATAAAAGAGACCAAAATTGAACCATGA
ATTG
Found at i:15348351 original size:35 final size:33
Alignment explanation
Indices: 15348279--15348360 Score: 101
Period size: 35 Copynumber: 2.4 Consensus size: 33
15348269 AAAGATCAGG
**
15348279 ATTGAACCATGAGTTAAAAATAACGAGACAGGG
1 ATTGAACCATGAGTTAAAAATAACGAGACAGAA
* *
15348312 ATTGAACCATGAGTTGAAAAATAAAGGAGACCGAA
1 ATTGAACCATGAGTT-AAAAAT-AACGAGACAGAA
*
15348347 ATTGAACCTTGAGT
1 ATTGAACCATGAGT
15348361 CAAGGAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 15 0.36
34 6 0.14
35 21 0.50
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (33 bp):
ATTGAACCATGAGTTAAAAATAACGAGACAGAA
Found at i:15363672 original size:13 final size:13
Alignment explanation
Indices: 15363654--15363678 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15363644 GATTAAGAGC
15363654 AACAAAAGAAAGA
1 AACAAAAGAAAGA
15363667 AACAAAAGAAAG
1 AACAAAAGAAAG
15363679 TCAATAACGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (13 bp):
AACAAAAGAAAGA
Done.