Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 52 of 189
Found at i:14942653 original size:20 final size:20
Alignment explanation
Indices: 14942621--14942673 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
14942611 AATCAAAATA
14942621 AAAAGTTATAAAAAT-TATT
1 AAAAGTTATAAAAATATATT
14942640 AAAAGTTATAAAAATATATT
1 AAAAGTTATAAAAATATATT
* *
14942660 AAAAATTAGAAAAA
1 AAAAGTTATAAAAA
14942674 AAATGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (20 bp):
AAAAGTTATAAAAATATATT
Found at i:14942747 original size:22 final size:22
Alignment explanation
Indices: 14942649--14942747 Score: 61
Period size: 21 Copynumber: 4.7 Consensus size: 22
14942639 TAAAAGTTAT
* *
14942649 AAAAATATAT-TAAAAATTAGA
1 AAAAATATATATAAAAATCATA
*
14942670 AAAAA-A-ATGATAAAAATCGTA
1 AAAAATATAT-ATAAAAATCATA
*
14942691 AAAGAA-AT-TATAAAAA--ATTG
1 AAA-AATATATATAAAAATCA-TA
* *
14942711 TAAAAT-TTTATAAAAATCATA
1 AAAAATATATATAAAAATCATA
14942732 AAAAATATATATAAAA
1 AAAAATATATATAAAA
14942748 TGCATCAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 19
0.68 0.10 0.22
Matches are distributed among these distances:
19 5 0.08
20 12 0.20
21 29 0.49
22 13 0.22
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (22 bp):
AAAAATATATATAAAAATCATA
Found at i:14942973 original size:19 final size:20
Alignment explanation
Indices: 14942937--14942992 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
14942927 GTACGATAAT
*
14942937 TTTTAGAATTT-TTGTACAAA
1 TTTTATAATTTCTT-TACAAA
**
14942957 TTTTAT-ATTTCTTTACATT
1 TTTTATAATTTCTTTACAAA
*
14942976 TTTTATAATTTGTTTAC
1 TTTTATAATTTCTTTAC
14942993 GACTTTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTATAATTTCTTTACAAA
Found at i:14943008 original size:31 final size:30
Alignment explanation
Indices: 14942973--14943043 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
14942963 ATTTCTTTAC
14942973 ATTTTTTATAATTTGTTTACGACTTTATAAA
1 ATTTTTTATAATTTGTTTACGA-TTTATAAA
* * * *
14943004 ATTTTATA-AATTTTTTTACGATTTTTATA
1 ATTTTTTATAATTTGTTTACGATTTATAAA
*
14943033 ATTTTTAATAA
1 ATTTTTTATAA
14943044 AATTTAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 12 0.36
30 14 0.42
31 7 0.21
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
ATTTTTTATAATTTGTTTACGATTTATAAA
Found at i:14943022 original size:30 final size:28
Alignment explanation
Indices: 14942976--14943041 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
14942966 TCTTTACATT
14942976 TTTTATAATTTGTTTACGACTTTATAAAA
1 TTTTATAATTTGTTTACGA-TTTATAAAA
* * *
14943005 TTTTATAAATTTTTTTACGATTTTTATAA
1 TTTTAT-AATTTGTTTACGATTTATAAAA
14943034 TTTT-TAAT
1 TTTTATAAT
14943042 AAAATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 3 0.09
28 1 0.03
29 17 0.52
30 12 0.36
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTTATAATTTGTTTACGATTTATAAAA
Found at i:14943044 original size:41 final size:41
Alignment explanation
Indices: 14942999--14943098 Score: 100
Period size: 41 Copynumber: 2.5 Consensus size: 41
14942989 TTACGACTTT
**
14942999 ATAAAATTTTATAAATTTTTTTACGATTTTTA-TAATTTTTA
1 ATAAAATTTTATAAATTTTTTTA-GATTTTTATTAAAATTTA
*
14943040 ATAAAA-TTTA-AATATTGTTTTTATATTTTTATTAAAATTTA
1 ATAAAATTTTATAA-ATT-TTTTTAGATTTTTATTAAAATTTA
* *
14943081 AT-AATTTTTATAACTTTT
1 ATAAAATTTTATAAATTTT
14943099 ATTTTTTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
39 2 0.04
40 18 0.37
41 27 0.55
42 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (41 bp):
ATAAAATTTTATAAATTTTTTTAGATTTTTATTAAAATTTA
Found at i:14943122 original size:17 final size:17
Alignment explanation
Indices: 14943058--14943123 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 17
14943048 TAAATATTGT
*
14943058 TTTTATATTTTTATTAAAA
1 TTTTATATTTTTA-T-AAC
*
14943077 TTTAATAATTTTTATAAC
1 TTTTAT-ATTTTTATAAC
* *
14943095 TTTTATTTTTTTAT-TC
1 TTTTATATTTTTATAAC
14943111 TTTTATCATTTTT
1 TTTTAT-ATTTTT
14943124 TCGCCATATG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.18
17 12 0.31
18 7 0.18
19 6 0.15
20 7 0.18
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATATTTTTATAAC
Found at i:14944832 original size:19 final size:19
Alignment explanation
Indices: 14944787--14944834 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
14944777 TTTTTTTTTG
14944787 GCTTTTCTCTTCTTTCGAGTT
1 GCTTTT-TC-TCTTTCGAGTT
*
14944808 -CTTTTTCTCTTTTGAGTT
1 GCTTTTTCTCTTTCGAGTT
14944826 GCTTTTTCT
1 GCTTTTTCT
14944835 TTGCGTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 10 0.40
20 5 0.20
ACGTcount: A:0.04, C:0.21, G:0.12, T:0.62
Consensus pattern (19 bp):
GCTTTTTCTCTTTCGAGTT
Found at i:14948680 original size:75 final size:73
Alignment explanation
Indices: 14948585--14948804 Score: 350
Period size: 75 Copynumber: 3.0 Consensus size: 73
14948575 AGTTTTACTA
* *
14948585 ACCTAATATTAAAACTATAAATAGTTAACTAATGATACACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTAAAA-TATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
14948650 ATACTTTCCC
65 ATACTTT-CC
*
14948660 ACCTAATATTAAAATAATAAATAGTTAACTAATCATATACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTAAAAT-ATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
14948725 ATACTTTCC
65 ATACTTTCC
** *
14948734 ACCTAATATTATAACCATAAATAGTTAACTGATAATATACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTA-AAATATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
14948799 ATACTT
65 ATACTT
14948805 ACCAATTTTG
Statistics
Matches: 137, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
74 67 0.49
75 70 0.51
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (73 bp):
ACCTAATATTAAAATATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGATA
TACTTTCC
Found at i:14948776 original size:74 final size:75
Alignment explanation
Indices: 14948585--14948804 Score: 361
Period size: 74 Copynumber: 2.9 Consensus size: 75
14948575 AGTTTTACTA
* * *
14948585 ACCTAATATTAAAACTATAAATAGTTAACTAATGATACACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTAAAACAATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
14948650 ATACTTTCCC
66 ATACTTTCCC
* *
14948660 ACCTAATATTAAAATAATAAATAGTTAACTAATCATATACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTAAAACAATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
14948725 ATACTTT-CC
66 ATACTTTCCC
* * *
14948734 ACCTAATATTATAACCATAAATAGTTAACTGATAATATACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTAAAACAATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
14948799 ATACTT
66 ATACTT
14948805 ACCAATTTTG
Statistics
Matches: 136, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
74 68 0.50
75 68 0.50
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (75 bp):
ACCTAATATTAAAACAATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
ATACTTTCCC
Found at i:14950027 original size:31 final size:30
Alignment explanation
Indices: 14949972--14950030 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
14949962 GTAAATACTC
***
14949972 AAAATTTGAAGGGTTAAAGTGTAAATATGA
1 AAAATTTGAAGGACCAAAGTGTAAATATGA
14950002 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAATTTGAAGGACCAA-AGTGTAAATAT
14950031 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (30 bp):
AAAATTTGAAGGACCAAAGTGTAAATATGA
Found at i:14952643 original size:50 final size:50
Alignment explanation
Indices: 14952582--14952723 Score: 214
Period size: 49 Copynumber: 2.9 Consensus size: 50
14952572 CATTGAGATT
* *
14952582 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
*
14952632 ATGAGATGTCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * * *
14952681 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG
14952724 TAGTACAGAA
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
49 45 0.54
50 39 0.46
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:14955599 original size:18 final size:19
Alignment explanation
Indices: 14955578--14955619 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
14955568 ATTTTAATTT
14955578 TTTTATATATTT-AAACAA
1 TTTTATATATTTGAAACAA
* * *
14955596 TTTTTTATTTTTGAAATAA
1 TTTTATATATTTGAAACAA
14955615 TTTTA
1 TTTTA
14955620 GTTTTTTCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTATATATTTGAAACAA
Found at i:14955624 original size:18 final size:17
Alignment explanation
Indices: 14955598--14955648 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
14955588 TTAAACAATT
14955598 TTTTA-TTTTTGAAATAA
1 TTTTAGTTTTT-AAATAA
**
14955615 TTTTAGTTTTTTCATAA
1 TTTTAGTTTTTAAATAA
14955632 TTTTAGATTTTTAAATA
1 TTTTAG-TTTTTAAATA
14955649 TATATTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTAGTTTTTAAATAA
Found at i:14958943 original size:21 final size:21
Alignment explanation
Indices: 14958898--14958945 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
14958888 TGAAATAATT
*
14958898 TTTATAATGTTTTATAAAAAA
1 TTTATAATGTTGTATAAAAAA
14958919 -TTATAAT-TTGTATAAAAAA
1 TTTATAATGTTGTATAAAAAA
14958938 CTTTATAA
1 -TTTATAA
14958946 AAAGTGCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.46
20 7 0.29
21 6 0.25
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (21 bp):
TTTATAATGTTGTATAAAAAA
Found at i:14969237 original size:17 final size:17
Alignment explanation
Indices: 14969217--14969257 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
14969207 TGGGTTTAGA
14969217 AAATAATTTAATTAAAT
1 AAATAATTTAATTAAAT
* *
14969234 AAATAAATTGATTAAAT
1 AAATAATTTAATTAAAT
14969251 AAATAAT
1 AAATAAT
14969258 ATTTTCGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
AAATAATTTAATTAAAT
Found at i:14973550 original size:30 final size:29
Alignment explanation
Indices: 14973493--14973552 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
14973483 TTTGCGGTTG
**
14973493 AAAATTATTTTTTAAAGATGTTTTAGAAA
1 AAAATTATTTTTTAAAGATGTGGTAGAAA
14973522 AAAATATATTTTTTAAA-AGTGTGGTAGAAA
1 AAAAT-TATTTTTTAAAGA-TGTGGTAGAAA
14973552 A
1 A
14973553 TACTGTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (29 bp):
AAAATTATTTTTTAAAGATGTGGTAGAAA
Found at i:14973952 original size:26 final size:25
Alignment explanation
Indices: 14973922--14973975 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
14973912 AATACCTTTT
*
14973922 AATTAATTAATA-TAAATTATTTATAA
1 AATTAA-TAATACTAAAATATTT-TAA
14973948 AATTAATAATACTTAAAATATTTTAA
1 AATTAATAATAC-TAAAATATTTTAA
14973974 AA
1 AA
14973976 ACTTAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 5 0.20
26 11 0.44
27 9 0.36
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
AATTAATAATACTAAAATATTTTAA
Found at i:14974036 original size:33 final size:33
Alignment explanation
Indices: 14973951--14974066 Score: 123
Period size: 33 Copynumber: 3.5 Consensus size: 33
14973941 TTTATAAAAT
* *
14973951 TAATAATACTTAAAATATTTTAAA-AACTTAA-A
1 TAATAATACATAAAATA-TTTAAATAATTTAATA
*
14973983 T-ATAGTA-ATAAATTATATTTAAATAATTTAATA
1 TAATAATACATAAA--ATATTTAAATAATTTAATA
* * *
14974016 TAATGATACATGAAATATTTAAATAATTTAATG
1 TAATAATACATAAAATATTTAAATAATTTAATA
14974049 TAATAATACATAAAATAT
1 TAATAATACATAAAATAT
14974067 AAATTAATCT
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
30 4 0.06
31 11 0.16
32 10 0.14
33 36 0.52
34 4 0.06
35 4 0.06
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (33 bp):
TAATAATACATAAAATATTTAAATAATTTAATA
Found at i:14984739 original size:32 final size:32
Alignment explanation
Indices: 14984698--14984762 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
14984688 TAATAAGGTA
14984698 AGATTTCTATCCTTAATTATAGGGATTCCAAC
1 AGATTTCTATCCTTAATTATAGGGATTCCAAC
14984730 AGATTTCTATCCTTAATTATAGGGATTCCAAC
1 AGATTTCTATCCTTAATTATAGGGATTCCAAC
14984762 A
1 A
14984763 CTCCCCTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (32 bp):
AGATTTCTATCCTTAATTATAGGGATTCCAAC
Found at i:14995976 original size:10 final size:11
Alignment explanation
Indices: 14995956--14995980 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14995946 ATTTTGCCTC
14995956 AAAAATAAAAA
1 AAAAATAAAAA
14995967 AAAAATAAAAA
1 AAAAATAAAAA
14995978 AAA
1 AAA
14995981 TTGTATGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:14996825 original size:6 final size:6
Alignment explanation
Indices: 14996814--14996860 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
14996804 TAAGATTAGG
14996814 TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGG
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGG
14996861 GGGTTAGGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.34, T:0.66
Consensus pattern (6 bp):
TTTGGT
Found at i:15007730 original size:7 final size:7
Alignment explanation
Indices: 15007720--15007745 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15007710 TTTAATTAGT
15007720 AATTTTA
1 AATTTTA
15007727 AATTTTA
1 AATTTTA
15007734 AATTTTA
1 AATTTTA
15007741 AATTT
1 AATTT
15007746 ATATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:15013837 original size:29 final size:30
Alignment explanation
Indices: 15013795--15013853 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
15013785 GGATTGGATC
* * *
15013795 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATATACAAAATTGCACA
*
15013825 AAATC-AAAGTTCATATACACAATTGCACA
1 AAATCAAAAGTTCATATACAAAATTGCACA
15013854 TTAAACCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (30 bp):
AAATCAAAAGTTCATATACAAAATTGCACA
Found at i:15021134 original size:17 final size:18
Alignment explanation
Indices: 15021106--15021143 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
15021096 ACTTCAAGTA
*
15021106 ATTTTCTCCTTTTTTTTT
1 ATTTTCTCCTTTGTTTTT
15021124 ATTTT-TCCTTTGTTTTT
1 ATTTTCTCCTTTGTTTTT
15021141 ATT
1 ATT
15021144 GTTCAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (18 bp):
ATTTTCTCCTTTGTTTTT
Found at i:15024939 original size:22 final size:20
Alignment explanation
Indices: 15024891--15024939 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
15024881 AAAATAAAAG
*
15024891 TTAAATAAAAACTATTATTT
1 TTAAATAAAAAATATTATTT
*
15024911 TT-TATAAAAAATATTATTGAT
1 TTAAATAAAAAATATTATT--T
15024932 TTAAATAA
1 TTAAATAA
15024940 TATATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 14 0.61
20 2 0.09
21 3 0.13
22 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TTAAATAAAAAATATTATTT
Found at i:15025962 original size:17 final size:16
Alignment explanation
Indices: 15025923--15025980 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 16
15025913 AAAACACTAG
*
15025923 AAAATATTAATTTTTCT
1 AAAA-ATTAATTTTTTT
15025940 AGAAAATTAATTTATTTTT
1 A-AAAATTAA-TT-TTTTT
*
15025959 AAAAA-TCATTTTTTT
1 AAAAATTAATTTTTTT
15025974 AAAAATT
1 AAAAATT
15025981 GTTTTCAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 10 0.29
16 3 0.09
17 8 0.23
18 9 0.26
19 5 0.14
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (16 bp):
AAAAATTAATTTTTTT
Found at i:15034809 original size:23 final size:22
Alignment explanation
Indices: 15034779--15034822 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15034769 ATAGACATTC
15034779 TTAAATTATGATTTAAAATTTTT
1 TTAAATTA-GATTTAAAATTTTT
* *
15034802 TTAAATTAGTTTTCAAATTTT
1 TTAAATTAGATTTAAAATTTT
15034823 AAAATGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (22 bp):
TTAAATTAGATTTAAAATTTTT
Found at i:15045454 original size:86 final size:86
Alignment explanation
Indices: 15045309--15045479 Score: 279
Period size: 86 Copynumber: 2.0 Consensus size: 86
15045299 ATTCAAACAA
*
15045309 GATTTGTGCAAGAATTAGATATTATTTTCAAGATTTATCAAGATTACCAGGAAATATCGACAAGA
1 GATTTGCGCAAGAATTAGATATTATTTTCAAGATTTATCAAGATTACCAGGAAATATCGACAAGA
* *
15045374 TTCGTAAGAGGTCTTTTAATT
66 TTCGTAAGAGATCATTTAATT
* ***
15045395 GATTTGCGCAAGAATTAGATATTGTTTTCAAGATTTATCAAGATTATTGGGAAATATCGACAAGA
1 GATTTGCGCAAGAATTAGATATTATTTTCAAGATTTATCAAGATTACCAGGAAATATCGACAAGA
15045460 TTCGTAAGAGATCATTTAAT
66 TTCGTAAGAGATCATTTAAT
15045480 CGATCTTAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (86 bp):
GATTTGCGCAAGAATTAGATATTATTTTCAAGATTTATCAAGATTACCAGGAAATATCGACAAGA
TTCGTAAGAGATCATTTAATT
Found at i:15048627 original size:26 final size:25
Alignment explanation
Indices: 15048586--15048634 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
15048576 TCTCATCCCA
*
15048586 ATTTTACTCCGGTAAAATTTTGATG
1 ATTTTACTCCGATAAAATTTTGATG
15048611 ATTTTACCTCCGATAAAATTTTGA
1 ATTTTA-CTCCGATAAAATTTTGA
15048635 GAAAATTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (25 bp):
ATTTTACTCCGATAAAATTTTGATG
Found at i:15050781 original size:106 final size:106
Alignment explanation
Indices: 15050596--15050802 Score: 414
Period size: 106 Copynumber: 2.0 Consensus size: 106
15050586 ACATGGATTC
15050596 ACAATACTAGTGTGTCATGAATGGAAATAGTTGTTTTCATAATTTTGCTCCAATTATTTGTGTTT
1 ACAATACTAGTGTGTCATGAATGGAAATAGTTGTTTTCATAATTTTGCTCCAATTATTTGTGTTT
15050661 GTGGGACTAATTTATTATCACCGCTCTATCTTTCATGAGAA
66 GTGGGACTAATTTATTATCACCGCTCTATCTTTCATGAGAA
15050702 ACAATACTAGTGTGTCATGAATGGAAATAGTTGTTTTCATAATTTTGCTCCAATTATTTGTGTTT
1 ACAATACTAGTGTGTCATGAATGGAAATAGTTGTTTTCATAATTTTGCTCCAATTATTTGTGTTT
15050767 GTGGGACTAATTTATTATCACCGCTCTATCTTTCAT
66 GTGGGACTAATTTATTATCACCGCTCTATCTTTCAT
15050803 ACGTTTCTCA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 101 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (106 bp):
ACAATACTAGTGTGTCATGAATGGAAATAGTTGTTTTCATAATTTTGCTCCAATTATTTGTGTTT
GTGGGACTAATTTATTATCACCGCTCTATCTTTCATGAGAA
Found at i:15052246 original size:26 final size:26
Alignment explanation
Indices: 15052170--15052247 Score: 102
Period size: 26 Copynumber: 3.0 Consensus size: 26
15052160 TAAATTTTAG
*
15052170 GAAAGAAAAGCCTTTGTGGCGTAACAT
1 GAAAG-AAAGCCTTTGTGGCGTAATAT
*
15052197 GAAATAAAGCCTTTGTGGCGTAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
* * *
15052223 GAAAGAAAGCTTTTGTAGCATAATA
1 GAAAGAAAGCCTTTGTGGCGTAATA
15052248 ATGTTTTTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
26 41 0.91
27 4 0.09
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (26 bp):
GAAAGAAAGCCTTTGTGGCGTAATAT
Found at i:15053276 original size:13 final size:13
Alignment explanation
Indices: 15053258--15053284 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15053248 CGAGTTGAAG
15053258 TTGTAATTACTTA
1 TTGTAATTACTTA
15053271 TTGTAATTACTTA
1 TTGTAATTACTTA
15053284 T
1 T
15053285 GTATTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TTGTAATTACTTA
Found at i:15054441 original size:45 final size:45
Alignment explanation
Indices: 15054391--15054587 Score: 295
Period size: 45 Copynumber: 4.4 Consensus size: 45
15054381 TGACTACTGT
* *
15054391 TACTGTTACCGTTACTGTTACCAATTCAACACTTTGTATGTCGAA
1 TACTGTTACCGTTACTGTTACCAATTCAGCACTTTGTGTGTCGAA
* * *
15054436 TACTGTTACCGTTACTGTTATCAATTCGGCACTTTGTGTGTCAAA
1 TACTGTTACCGTTACTGTTACCAATTCAGCACTTTGTGTGTCGAA
* *
15054481 TACTATTACCGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACCAATTCAGCACTTTGTGTGTCGAA
* *
15054526 TACTGTTACCGTTACTGTTACAAATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACCAATTCAGCACTTTGTGTGTCGAA
* *
15054571 TATTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
15054588 ATACTGCTAC
Statistics
Matches: 138, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 138 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACCAATTCAGCACTTTGTGTGTCGAA
Found at i:15057173 original size:41 final size:41
Alignment explanation
Indices: 15057116--15057265 Score: 273
Period size: 41 Copynumber: 3.6 Consensus size: 41
15057106 GACTATATGT
15057116 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
15057157 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
15057198 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
15057239 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
15057266 TTAAATTAAG
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
41 101 0.95
42 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:15060252 original size:18 final size:17
Alignment explanation
Indices: 15060221--15060268 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
15060211 TATACCTACA
*
15060221 TTTTTTATTTTACTTTCTT
1 TTTTTTA-TATACTTT-TT
15060240 TTTTTTATATACTTTTT
1 TTTTTTATATACTTTTT
*
15060257 TTGCTTTATATA
1 TT-TTTTATATA
15060269 TACATATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 4 0.15
18 15 0.58
19 7 0.27
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTTATATACTTTTT
Found at i:15064200 original size:20 final size:20
Alignment explanation
Indices: 15064175--15064214 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15064165 TTCACCTCAT
15064175 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
15064195 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
15064215 AAAACCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:15071255 original size:19 final size:19
Alignment explanation
Indices: 15071226--15071279 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
15071216 AATATTACAT
15071226 ATTTTTATTATTATACCTAC
1 ATTTTT-TTATTATACCTAC
* * *
15071246 ATTTTTTTATTTTACTTTC
1 ATTTTTTTATTATACCTAC
15071265 -TTTTTTTATATATAC
1 ATTTTTTTAT-TATAC
15071280 TTTTTTGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 9 0.31
19 14 0.48
20 6 0.21
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTTTATTATACCTAC
Found at i:15071280 original size:19 final size:18
Alignment explanation
Indices: 15071247--15071298 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
15071237 TATACCTACA
*
15071247 TTTTTTTAT-TTTACTTT
1 TTTTTTTATATATACTTT
15071264 CTTTTTTTATATATACTTT
1 -TTTTTTTATATATACTTT
*
15071283 TTTGCTTTATATATAC
1 TTT-TTTTATATATAC
15071299 ATATATGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTTTATATATACTTT
Found at i:15071310 original size:19 final size:19
Alignment explanation
Indices: 15071268--15071312 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
15071258 TACTTTCTTT
* * *
15071268 TTTTATATATACTTTTTTG
1 TTTTATATATACATATATG
*
15071287 CTTTATATATACATATATG
1 TTTTATATATACATATATG
15071306 TTTTATA
1 TTTTATA
15071313 ACATGGACAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTATATATACATATATG
Found at i:15072873 original size:3 final size:3
Alignment explanation
Indices: 15072865--15072906 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
15072855 ATGAAATGTA
15072865 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15072907 GGTTGAAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15077070 original size:30 final size:30
Alignment explanation
Indices: 15077036--15077098 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
15077026 ACTTAACAAG
15077036 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
15077066 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
15077096 CAA
1 CAA
15077099 GAAATAAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:15078389 original size:24 final size:24
Alignment explanation
Indices: 15078357--15078412 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
15078347 TATATATTAA
* *
15078357 ATAT-TTTTTTATTTTTAATCAAAT
1 ATATATTTTTTATATAT-ATCAAAT
*
15078381 ATATATTTTTTATATATATTAAAT
1 ATATATTTTTTATATATATCAAAT
15078405 ATATATTT
1 ATATATTT
15078413 AATATGGGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
ATATATTTTTTATATATATCAAAT
Found at i:15079454 original size:11 final size:11
Alignment explanation
Indices: 15079438--15079463 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15079428 TTACACATTA
15079438 TCAATTTCCAT
1 TCAATTTCCAT
15079449 TCAATTTCCAT
1 TCAATTTCCAT
15079460 TCAA
1 TCAA
15079464 ATACAAAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (11 bp):
TCAATTTCCAT
Found at i:15080862 original size:24 final size:24
Alignment explanation
Indices: 15080830--15080878 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
15080820 CACTAATATG
15080830 ATTAATGA-TAA-TTAAATTAAATTA
1 ATTAATGATTAAGTT-AATT-AATTA
15080854 ATTAATGATTAAGTTAATTAATTA
1 ATTAATGATTAAGTTAATTAATTA
15080878 A
1 A
15080879 GGTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 14 0.61
25 7 0.30
26 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (24 bp):
ATTAATGATTAAGTTAATTAATTA
Found at i:15080870 original size:16 final size:16
Alignment explanation
Indices: 15080827--15080875 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
15080817 CTCCACTAAT
*
15080827 ATGATTAATGATAATTA
1 ATGATTAA-GTTAATTA
*
15080844 A--ATTAAATTAATTA
1 ATGATTAAGTTAATTA
15080858 ATGATTAAGTTAATTA
1 ATGATTAAGTTAATTA
15080874 AT
1 AT
15080876 TAAGGTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 7 0.26
15 5 0.19
16 14 0.52
17 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (16 bp):
ATGATTAAGTTAATTA
Found at i:15086382 original size:22 final size:22
Alignment explanation
Indices: 15086357--15086400 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15086347 TAGTCATATA
15086357 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
15086379 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
15086401 TATTTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:15086435 original size:18 final size:18
Alignment explanation
Indices: 15086400--15086438 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15086390 TTTTAATAAA
*
15086400 TTATTTAATAATTCAATT
1 TTATTTAATAATTAAATT
15086418 TTATTGTAATAA-TAAATT
1 TTATT-TAATAATTAAATT
15086436 TTA
1 TTA
15086439 AAAATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TTATTTAATAATTAAATT
Found at i:15086444 original size:16 final size:16
Alignment explanation
Indices: 15086424--15086460 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15086414 AATTTTATTG
15086424 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
15086441 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
15086456 TAATA
1 TAATA
15086461 TTATACACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:15086513 original size:15 final size:15
Alignment explanation
Indices: 15086493--15086550 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 15
15086483 ATTCAATATT
15086493 AATATTTTAATAATA
1 AATATTTTAATAATA
*
15086508 AATATTTATTACATTTATA
1 AATA-TT-TTA-A-TAATA
*
15086527 AATATATTAATAATA
1 AATATTTTAATAATA
15086542 AATATTTTA
1 AATATTTTA
15086551 TAGTATAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 16 0.46
16 3 0.09
17 6 0.17
18 2 0.06
19 8 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:15088115 original size:6 final size:6
Alignment explanation
Indices: 15088085--15088114 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
15088075 ATGCAAAAGA
*
15088085 GTATAT GTATAT GTATAT GTATAT ATATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT
15088115 AAAGCATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:15088572 original size:3 final size:3
Alignment explanation
Indices: 15088559--15088608 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
15088549 TAGTTGAGTA
* * * *
15088559 AAT AGT AAT AAT AAT ATT TAT AAT AAT -AT AAT -AT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15088605 AAT A
1 AAT A
15088609 TGTAAAATGA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:15089822 original size:27 final size:27
Alignment explanation
Indices: 15089784--15089861 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
15089774 GGCTAATCAC
*
15089784 ATTGGCGGCACCAAAGGTGCCAAAGA-G
1 ATTGGCGGCACCAATGGTGCCAAA-ATG
*
15089811 ATTGGTGGCACCAATGGTGCCAAAATG
1 ATTGGCGGCACCAATGGTGCCAAAATG
15089838 ATTGGCGGCACCAATGGTGCCAAA
1 ATTGGCGGCACCAATGGTGCCAAA
15089862 TGACTAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.31, C:0.22, G:0.31, T:0.17
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAATG
Found at i:15089963 original size:19 final size:19
Alignment explanation
Indices: 15089936--15090005 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
15089926 TCAACTCATT
*
15089936 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
15089955 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
15089973 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
15089992 TTTTAATTTAATAA
1 TTTTAATTTAATAA
15090006 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:15089986 original size:37 final size:37
Alignment explanation
Indices: 15089941--15090011 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
15089931 TCATTTTTTT
15089941 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
15089978 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
15090012 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:15090233 original size:19 final size:19
Alignment explanation
Indices: 15090209--15090264 Score: 78
Period size: 18 Copynumber: 3.0 Consensus size: 19
15090199 TCTAATTAAG
15090209 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
15090228 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
15090246 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
15090265 AAAAAATTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:15090266 original size:18 final size:18
Alignment explanation
Indices: 15090204--15090266 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
15090194 AGAATTCTAA
*
15090204 TTAAGTAATAACTCTATT
1 TTAATTAATAACTCTATT
*
15090222 TTAATTTAATAA-ACTATT
1 TTAA-TTAATAACTCTATT
* *
15090240 CTCATTTAATAACTCTATT
1 -TTAATTAATAACTCTATT
15090259 TTAATTAA
1 TTAATTAA
15090267 AAAATTAAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 22 0.63
19 13 0.37
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.48
Consensus pattern (18 bp):
TTAATTAATAACTCTATT
Found at i:15090286 original size:37 final size:37
Alignment explanation
Indices: 15090209--15090287 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
15090199 TCTAATTAAG
* * * *
15090209 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAAAAAACTAGTATCACT
* *
15090246 TAATAACTCTATTTTAA-TTAAAAAATTAAGTATTACT
1 TAATAACTCTATTTTAATTTAAAAAACT-AGTATCACT
15090283 TAATA
1 TAATA
15090288 GTTTATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 8 0.23
37 27 0.77
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAAAAAACTAGTATCACT
Found at i:15090328 original size:37 final size:37
Alignment explanation
Indices: 15090284--15090354 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
15090274 AGTATTACTT
15090284 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
15090321 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
15090355 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:15090359 original size:19 final size:19
Alignment explanation
Indices: 15090290--15090358 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
15090280 ACTTAATAGT
15090290 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
15090309 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
15090327 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
15090346 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
15090359 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:15090520 original size:27 final size:27
Alignment explanation
Indices: 15090434--15090511 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
15090424 ATTTTAGTCA
*
15090434 TTTGGCACCATTGGTGCCGCCAATCAC
1 TTTGGCACCATTGGTGCCGCCAATCTC
*
15090461 TTTGGCACCATTGGTGCCACCAATCTC
1 TTTGGCACCATTGGTGCCGCCAATCTC
*
15090488 TTTGGCACCTTTGGTGCCGCCAAT
1 TTTGGCACCATTGGTGCCGCCAAT
15090512 GTGATTGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.17, C:0.32, G:0.22, T:0.29
Consensus pattern (27 bp):
TTTGGCACCATTGGTGCCGCCAATCTC
Found at i:15090623 original size:28 final size:28
Alignment explanation
Indices: 15090583--15090648 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
15090573 TTTTTTTGGT
* *
15090583 ATATTTTCGTAAATAATCAAAAA-TAATA
1 ATATTTTGGTAAATAA-AAAAAAGTAATA
*
15090611 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTAATA
15090639 ATATTTTGGT
1 ATATTTTGGT
15090649 TAATTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 5 0.15
28 29 0.85
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTAATA
Found at i:15092427 original size:41 final size:42
Alignment explanation
Indices: 15092379--15092495 Score: 128
Period size: 41 Copynumber: 2.8 Consensus size: 42
15092369 CTTGTGTTTA
* ** *
15092379 CGTGTAAGACCATGTCTAGGACATTGGCATTGTATTTGAT-T
1 CGTGTAAGACCATGTCTGGGACATTGGCATTGTATGAGATAG
* * *
15092420 CGTGTAAGACCCTGTCTGGGACAATGGCATCGATATGAGATAG
1 CGTGTAAGACCATGTCTGGGACATTGGCATTG-TATGAGATAG
* * *
15092463 CATGTAAGACCACGTCTGGGACGTTGGCATTGT
1 CGTGTAAGACCATGTCTGGGACATTGGCATTGT
15092496 TCGATATATG
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 28 0.46
42 7 0.11
43 26 0.43
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATTGTATGAGATAG
Found at i:15098840 original size:42 final size:41
Alignment explanation
Indices: 15098793--15098877 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 41
15098783 TACTCTGCCA
*
15098793 TTTATTTTAATATTAAAATCAAATATTTTCATGGGTAAATAT
1 TTTATTTTAATATTAAAATCAAAGATTTTCATGGGTAAA-AT
* * *
15098835 TTTATTTTAATATTAATATTAAGGATTTTCATGGGTAAAAT
1 TTTATTTTAATATTAAAATCAAAGATTTTCATGGGTAAAAT
15098876 TT
1 TT
15098878 ATACATCAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 4 0.10
42 35 0.90
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (41 bp):
TTTATTTTAATATTAAAATCAAAGATTTTCATGGGTAAAAT
Found at i:15104477 original size:32 final size:32
Alignment explanation
Indices: 15104441--15104504 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
15104431 CAAAATAAGG
*
15104441 TTCAACCCGTCCAAGATCCCCCAAAGCTCCGT
1 TTCAACCCATCCAAGATCCCCCAAAGCTCCGT
15104473 TTCAACCCATCCAAGATCCCCCAAAGCTCCGT
1 TTCAACCCATCCAAGATCCCCCAAAGCTCCGT
15104505 CTCCATCACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.44, G:0.11, T:0.19
Consensus pattern (32 bp):
TTCAACCCATCCAAGATCCCCCAAAGCTCCGT
Found at i:15106180 original size:41 final size:41
Alignment explanation
Indices: 15106110--15106199 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
15106100 AAATTTTCCC
* *
15106110 TAGGGTCGCACGGGTAGTTCTGATCGACTATGGGCCTACCG
1 TAGGGTCGCACGAGTAGTTCCGATCGACTATGGGCCTACCG
* * *
15106151 TAGGGTCGCATGAGTCGTTCCGATTGACTATGGGCCTACCG
1 TAGGGTCGCACGAGTAGTTCCGATCGACTATGGGCCTACCG
15106192 TAGGGTCG
1 TAGGGTCG
15106200 GTAAGGGCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (41 bp):
TAGGGTCGCACGAGTAGTTCCGATCGACTATGGGCCTACCG
Found at i:15114339 original size:23 final size:23
Alignment explanation
Indices: 15114308--15114429 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
15114298 AGTGTTATTG
*
15114308 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
15114331 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
15114354 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
15114377 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
15114400 AACAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15114423 ATCAGTG
1 ATCAGTG
15114430 TTGCACTTAT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 89 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:15114363 original size:46 final size:46
Alignment explanation
Indices: 15114310--15114429 Score: 213
Period size: 46 Copynumber: 2.6 Consensus size: 46
15114300 TGTTATTGAT
*
15114310 CAGTGGTAGCTTCGGCTACGTTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
15114356 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
* *
15114402 CAGTGGTAGCTTTGGCTACATATCAGTG
1 CAGTGGTAGCTTCGGCTACATTTCAGTG
15114430 TTGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (46 bp):
CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
Found at i:15116798 original size:17 final size:17
Alignment explanation
Indices: 15116778--15116869 Score: 59
Period size: 17 Copynumber: 5.5 Consensus size: 17
15116768 AATTATGACA
15116778 AAAATTATATTATTTAT
1 AAAATTATATTATTTAT
* *
15116795 AAAATAATGTTACTTTAT
1 AAAATTATATTA-TTTAT
15116813 AAAACTT-T-TT-TTTAT
1 AAAA-TTATATTATTTAT
*
15116828 AAATGTTATA-TA-TTAT
1 AAA-ATTATATTATTTAT
* *
15116844 AAATTTTATATTATTTTT
1 AAA-ATTATATTATTTAT
*
15116862 AACATTAT
1 AAAATTAT
15116870 TTGTCACACC
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
15 10 0.17
16 15 0.25
17 18 0.31
18 15 0.25
19 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (17 bp):
AAAATTATATTATTTAT
Found at i:15116845 original size:16 final size:14
Alignment explanation
Indices: 15116824--15116857 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
15116814 AAACTTTTTT
15116824 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
15116840 TTATAAATTTTATA
1 TTATAAATTTTATA
15116854 TTAT
1 TTAT
15116858 TTTTAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:15125392 original size:31 final size:31
Alignment explanation
Indices: 15125354--15125418 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
15125344 GCCCGGCCCG
*
15125354 AATTATATATTAAATATATATTTTTGTTTTT
1 AATTATATATTAAATATATATTTTTATTTTT
15125385 AATTATATATTAAATATATATTTTTATTTTT
1 AATTATATATTAAATATATATTTTTATTTTT
15125416 AAT
1 AAT
15125419 CAAATATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (31 bp):
AATTATATATTAAATATATATTTTTATTTTT
Found at i:15125444 original size:42 final size:39
Alignment explanation
Indices: 15125388--15125509 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 39
15125378 TGTTTTTAAT
15125388 TATATATT-AA-ATATATATTTTTATTTTTAATCAAATA
1 TATATATTAAATATATATATTTTTATTTTTAATCAAATA
* * *
15125425 TACTTTTTATTAAATATATATATTTTTTAGACTTTTAATCCGAAT-
1 TA---TATATTAAATATATATA-TTTTT--ATTTTTAAT-CAAATA
15125470 TATATATTAAATATATATATTTTTATTTTTAATCAAATA
1 TATATATTAAATATATATATTTTTATTTTTAATCAAATA
15125509 T
1 T
15125510 GGGCCGGGCC
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
37 2 0.03
38 4 0.06
39 9 0.13
40 5 0.07
41 7 0.10
42 23 0.33
43 5 0.07
45 10 0.14
46 4 0.06
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (39 bp):
TATATATTAAATATATATATTTTTATTTTTAATCAAATA
Found at i:15125445 original size:20 final size:19
Alignment explanation
Indices: 15125392--15125451 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
15125382 TTTAATTATA
15125392 TATTAAATATATAT-TTTT
1 TATTAAATATATATATTTT
* * *
15125410 ATTTTTAATCAAATATACTTTT
1 -TATTAAAT-ATATATA-TTTT
15125432 TATTAAATATATATATTTT
1 TATTAAATATATATATTTT
15125451 T
1 T
15125452 TAGACTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
19 11 0.34
20 11 0.34
21 6 0.19
22 4 0.12
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTAAATATATATATTTT
Found at i:15125452 original size:20 final size:20
Alignment explanation
Indices: 15125392--15125453 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
15125382 TTTAATTATA
15125392 TATTAAATATATAT-TTTTAT
1 TATTAAATATATATATTTT-T
* * *
15125412 T-TTTAATCAAATATACTTTT
1 TATTAAAT-ATATATATTTTT
15125432 TATTAAATATATATATTTTT
1 TATTAAATATATATATTTTT
15125452 TA
1 TA
15125454 GACTTTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 5 0.15
20 20 0.61
21 8 0.24
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTAAATATATATATTTTT
Found at i:15128913 original size:16 final size:15
Alignment explanation
Indices: 15128889--15128939 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 15
15128879 CTATGATGGG
*
15128889 AATAAAAAATATATAA
1 AATATAAAATAT-TAA
15128905 AATATAAAATATTAA
1 AATATAAAATATTAA
*
15128920 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
15128936 AATA
1 AATA
15128940 ATAATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.25
16 24 0.75
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:15128922 original size:8 final size:8
Alignment explanation
Indices: 15128894--15128939 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
15128884 ATGGGAATAA
15128894 AAAATATAT
1 AAAATAT-T
15128903 AAAATA-T
1 AAAATATT
15128910 AAAATATT
1 AAAATATT
*
15128918 AAAATATC
1 AAAATATT
15128926 AAAATATT
1 AAAATATT
*
15128934 AGAATA
1 AAAATA
15128940 ATAATAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.21
8 20 0.61
9 6 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (8 bp):
AAAATATT
Found at i:15129104 original size:23 final size:22
Alignment explanation
Indices: 15129054--15129106 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
15129044 ATACTACATC
15129054 ATATGTACATAT-ATA--AAAA
1 ATATGTACATATAATATTAAAA
**
15129073 ATAAATACATGATAATATTAAAA
1 ATATGTACAT-ATAATATTAAAA
15129096 ATATGTACATA
1 ATATGTACATA
15129107 ATATAGTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 8 0.31
20 2 0.08
21 3 0.12
22 1 0.04
23 12 0.46
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.32
Consensus pattern (22 bp):
ATATGTACATATAATATTAAAA
Found at i:15129153 original size:22 final size:24
Alignment explanation
Indices: 15129069--15129154 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
15129059 TACATATATA
* *
15129069 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
15129092 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
15129117 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
15129140 -AAGATATATACATAA
1 AAAAATATATACATAA
15129155 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:15129205 original size:25 final size:25
Alignment explanation
Indices: 15129177--15129310 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
15129167 AAAAAAAAAT
15129177 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
15129202 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
15129227 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
15129253 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
15129275 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
15129298 AAATAT-AATAATA
1 ATATATAAATAATA
15129311 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:15129865 original size:30 final size:30
Alignment explanation
Indices: 15129829--15129972 Score: 123
Period size: 30 Copynumber: 4.8 Consensus size: 30
15129819 CAAGTTGTGG
*
15129829 TGGAGCAAGTGTGGTTAGTGGAGTAGGTAA
1 TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
* **
15129859 TGGAGCAAGTGTGGCTAGTGGATTAGGTGG
1 TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
* **
15129889 TGGAG-AAGGTGTGGCTAGTGGAGTTGGTGG
1 TGGAGCAA-GTGTGGCTAGTGGAGTAGGTAA
* * * **
15129919 TGGA-AAAGGAGTGGCTAGTGGAGTTGGTGG
1 TGGAGCAA-GTGTGGCTAGTGGAGTAGGTAA
*
15129949 TGGA-AAAGTTGTGGCTAGTGGAGT
1 TGGAGCAAG-TGTGGCTAGTGGAGT
15129973 TGGTGGTGGA
Statistics
Matches: 103, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
29 3 0.03
30 100 0.97
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.26
Consensus pattern (30 bp):
TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
Found at i:15129933 original size:60 final size:60
Alignment explanation
Indices: 15129821--15129997 Score: 227
Period size: 60 Copynumber: 3.0 Consensus size: 60
15129811 TGTAGGTACA
* * ** *
15129821 AGTT-GTGGTGGAGCAA-GTGTGGTTAGTGGAGTAGGTAATGGAGCAA-GTGTGGCTAGTGG
1 AGTTGGTGGTGGAG-AAGGTGTGGCTAGTGGAGTTGGTGGTGGA-AAAGGTGTGGCTAGTGG
*
15129880 A-TTAGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGTGG
1 AGTT-GGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGG
* *
15129940 AGTTGGTGGTGGAAAAGTTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGT
1 AGTTGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGT
15129998 TGAGAAAAGT
Statistics
Matches: 104, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
58 2 0.02
59 5 0.05
60 95 0.91
61 2 0.02
ACGTcount: A:0.21, C:0.04, G:0.47, T:0.27
Consensus pattern (60 bp):
AGTTGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGG
Found at i:15129973 original size:30 final size:30
Alignment explanation
Indices: 15129867--15129997 Score: 219
Period size: 30 Copynumber: 4.4 Consensus size: 30
15129857 AATGGAGCAA
*
15129867 GTGTGGCTAGTGGA-TTAGGTGGTGGAGAAG
1 GTGTGGCTAGTGGAGTT-GGTGGTGGAAAAG
15129897 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
15129927 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
15129957 TTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
15129987 GTGTGGCTAGT
1 GTGTGGCTAGT
15129998 TGAGAAAAGT
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 93 0.98
31 2 0.02
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.27
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:15131019 original size:93 final size:93
Alignment explanation
Indices: 15130852--15131023 Score: 231
Period size: 93 Copynumber: 1.8 Consensus size: 93
15130842 GTTGATTTTT
* * * *
15130852 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCGCTCGCAATAC
15130917 GAGTCGATTTTTTTTTGAAAGGTAGAAA
66 GAGTCGATTTTTTTTTGAAAGGTAGAAA
* * * *
15130945 TTGAAAAACGGAAATTGAAAATACCTC-GACGTGTGA-CCTGAGGCTCAACTCGCCGCTCGCAAT
1 TTGAAAAACAGAAATTGAAAATACCTCAG-CGCGTGAGCC-AAGGCTCAACTCACCGCTCGCAAT
*
15131008 ACGAGTTGATTTTTTT
64 ACGAGTCGATTTTTTT
15131024 GACAATAGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 3 0.04
93 65 0.96
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (93 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCGCTCGCAATAC
GAGTCGATTTTTTTTTGAAAGGTAGAAA
Found at i:15131110 original size:76 final size:75
Alignment explanation
Indices: 15130955--15131848 Score: 477
Period size: 74 Copynumber: 11.9 Consensus size: 75
15130945 TTGAAAAACG
*
15130955 GAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
*
15131020 TTTTGACAATA
65 TTTTGACAACA
* *
15131031 GAAATT-AAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 GAAATTGAAAA-TACCTCGA-CGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGA-T
15131093 TTTTTTGA-AAGGCA
63 TTTTTTGACAA--CA
* * *** * * * *
15131107 GAAATTGAAAA-ACGAAAATTGA-AAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCA
1 GAAATTGAAAATAC----CTCGACGTGTACCT----GAG-G--CTCA-ACTC-AC-CG---CTCG
* *
15131170 CAATACGAGTTGATTTTTTTCAAAACA
49 CAATACGAGTTGATTTTTTTGACAACA
* * *
15131197 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
* *
15131260 TTTTGAAAAAAA
65 TTTTG-ACAACA
* ** *** * *
15131272 GAAATTGAAAATACCTC-AGCATGT-TTTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
*
15131335 TTTTGAAAACA
65 TTTTGACAACA
* * *** * *
15131346 GAAATTGAAAATACCTC-AGCATGT-CTTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGA---
* *
15131409 TTTTTTTGAAAAATA
62 TTTTTTTG-ACAACA
* * **** * *
15131424 GAAATTGAAAATACCTC-AGCATGT-CTTGAGGCTCAACTCATTTATCGCAATATGAGTTGA--A
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
*
15131485 TTTTGAAAACA
65 TTTTGACAACA
* * *** *
15131496 TAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
*
15131559 TTTTAACAACA
65 TTTTGACAACA
* * * *
15131570 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
*
15131633 TTTTGA-AAGAA
65 TTTTGACAA-CA
* * * *** * *
15131644 AAGAATTGAAAATACCTCAACGTGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--A
1 GA-AATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
* *
15131706 TTTTGAAAATA
65 TTTTGACAACA
* * * * * *
15131717 GAAATTGAAATTACCTCAACGTGT-CTTGAGGCTCAACTCA---TTCGCAATATGAGTTGA--AT
1 GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
* *
15131776 TTTGAAAATA
66 TTTGACAACA
* * * * * *
15131786 GAAATTG-AATTAACCTC-ACGTGT-CCCGAGGCTCAACTCATCTCTAGCAATATGAGTTGATTT
1 GAAATTGAAAAT-ACCTCGACGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
15131848 T
65 T
15131849 GAAAAACAAA
Statistics
Matches: 698, Mismatches: 74, Indels: 95
0.81 0.09 0.11
Matches are distributed among these distances:
68 24 0.03
69 40 0.06
71 15 0.02
72 97 0.14
73 16 0.02
74 198 0.28
75 133 0.19
76 25 0.04
77 13 0.02
78 66 0.09
79 7 0.01
80 4 0.01
82 1 0.00
83 4 0.01
84 1 0.00
86 4 0.01
87 7 0.01
88 3 0.00
89 1 0.00
90 12 0.02
91 10 0.01
92 17 0.02
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:15131131 original size:166 final size:154
Alignment explanation
Indices: 15130812--15131848 Score: 933
Period size: 149 Copynumber: 6.7 Consensus size: 154
15130802 GGTGTGTTAT
* *
15130812 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAA-TAG
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATT-AAAATTAC
* * *
15130876 CTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTGAAAGGT
64 CTCA--GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTT------T
* *
15130940 AGAAATTGAAAAACGGAAATTGAAAATACCTC-GACGTGTGAC
118 -G-AATTGAAAAA-GAAAATTGAAAATACCTCAG-CATGT--C
* * * * *
15130982 CTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTGACAATAGAAATTAAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAAATTACCT
15131047 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAAT
66 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT--------G-AAT
* *
15131112 TGAAAAACGAAAATTGAAAATACCTCGGCGTGTGAC
122 TGAAAAA-GAAAATTGAAAATACCTCAGCATGT--C
* * * * *
15131148 CTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTCAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAAATTACCT
15131213 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAA---AAAAAG-
66 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAATTGAAAAAGA
*
15131273 AAATTGAAAATACCTCAGCATGTT
131 AAATTGAAAATACCTCAGCATGTC
* ** *
15131297 TTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAA-TACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATT-AAAATTACC
* * ** * *
15131361 TCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTT---TTGAAAAAT
65 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAATTGAAAAAG
15131423 AGAAATTGAAAATACCTCAGCATGTC
130 A-AAATTGAAAATACCTCAGCATGTC
* ** * * * *
15131449 TTGAGGCTCAACTCATTTATCGCAATATGAGTTGA--ATTTTGAAAACATAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAAATTACCT
** * *
15131512 CAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTT-AA---CAACAG-
66 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAATTGAAAAAGA
* *
15131571 AAATTGAAATTACCTCAGCGTGTC
131 AAATTGAAAATACCTCAGCATGTC
* *
15131595 CTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAGA-AAAGAATTGAAAA-TA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGA-AATT-AAAATTA
* * ** * *
15131658 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA---ATTTTG-A---AAAT
63 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAATTGAAAA
* * *
15131716 AG-AAATTGAAATTACCTCAACGTGTC
128 AGAAAATTGAAAATACCTCAGCATGTC
* * * *
15131742 TTGAGGCTCAACTCA--T-TCGCAATATGAGTTGA--ATTTTGAAAATAGAAATT-GAATTAACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAAATT-ACC
* * *
15131801 TCA-CGTGTCCCGAGGCTCAACTCATCTCTAGCAATATGAGTTGATTTT
65 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
15131849 GAAAAACAAA
Statistics
Matches: 764, Mismatches: 71, Indels: 91
0.83 0.08 0.10
Matches are distributed among these distances:
139 2 0.00
140 38 0.05
141 11 0.01
142 10 0.01
144 15 0.02
145 1 0.00
146 52 0.07
147 46 0.06
148 13 0.02
149 155 0.20
150 80 0.10
151 21 0.03
152 57 0.07
153 5 0.01
156 2 0.00
157 1 0.00
159 1 0.00
165 14 0.02
166 144 0.19
167 37 0.05
168 4 0.01
169 14 0.02
170 41 0.05
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (154 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAAATTACCT
CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAATTGAAAAAGA
AAATTGAAAATACCTCAGCATGTC
Found at i:15131205 original size:90 final size:90
Alignment explanation
Indices: 15131032--15131206 Score: 248
Period size: 92 Copynumber: 1.9 Consensus size: 90
15131022 TTGACAATAG
* *
15131032 AAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATACGAGTTGATTTTTT
* *
15131097 TTGAAAGGCAGAAATTGAAAAACGA
66 TTCAAAGACAGAAATTGAAAAACGA
* *
15131122 AAATTGAAAA-TACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGA-TT
1 AAATT-AAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCACAATACGAGTTGATTT
15131185 TTTTTCAAA-ACAGAAATTGAAA
63 TTTTTCAAAGACAGAAATTGAAA
15131207 TTACCTCAGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
90 29 0.38
91 14 0.18
92 33 0.43
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (90 bp):
AAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATACGAGTTGATTTTTT
TTCAAAGACAGAAATTGAAAAACGA
Found at i:15131956 original size:117 final size:114
Alignment explanation
Indices: 15131798--15132090 Score: 435
Period size: 114 Copynumber: 2.6 Consensus size: 114
15131788 AATTGAATTA
*
15131798 ACCTCACGTGTCCCGAGGCTCAACTCATCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT
1 ACCTCACGTGCCCCGAGGCTCAACTCATCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT
* *
15131863 AAAAAGGCTTAACTCACCTCTCGCAGTATGAGTCACTTTAAAACTAAAAAT
66 AAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACT--AAAT
15131914 ACCTCAGCGTGCCCCGA-GCTCAACTCACTCTCTAGCAATATGAGTTGATTTTG-AAAAC-AAAA
1 ACCTCA-CGTGCCCCGAGGCTCAACTCA-TCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAA
15131976 TT-AAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAT
64 TTAAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAT
*
15132026 ACCTCAACGTGCCCCGAGGCTC-ACT--TCTC--GCAATATGAGTTGATTTTGAAAAA-AACAAT
1 ACCTC-ACGTGCCCCGAGGCTCAACTCATCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAAT
15132085 TAAAAA
65 TAAAAA
15132091 TACCTCAACG
Statistics
Matches: 166, Mismatches: 4, Indels: 21
0.87 0.02 0.11
Matches are distributed among these distances:
107 19 0.11
108 9 0.05
109 8 0.05
112 22 0.13
113 5 0.03
114 42 0.25
115 6 0.04
116 21 0.13
117 34 0.20
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (114 bp):
ACCTCACGTGCCCCGAGGCTCAACTCATCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT
AAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAT
Found at i:15144774 original size:23 final size:23
Alignment explanation
Indices: 15144756--15144809 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
15144746 GGTATACACG
15144756 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* **
15144779 TACATAATAATAATA-ATGGTAA
1 TACATAATAAAAATATATACTAA
15144801 TAC-TAATAA
1 TACATAATAA
15144810 TACTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 6 0.21
22 8 0.29
23 14 0.50
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:15144790 original size:3 final size:3
Alignment explanation
Indices: 15144759--15144829 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
15144749 ATACACGTAC
* * * * *
15144759 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATG GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
15144806 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
15144830 CAAGGATATT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:15145436 original size:10 final size:10
Alignment explanation
Indices: 15145418--15145447 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
15145408 AAGGTAAAAA
15145418 ATATTTTTTT
1 ATATTTTTTT
15145428 -TATTTTTTT
1 ATATTTTTTT
15145437 ATATTTTTTT
1 ATATTTTTTT
15145447 A
1 A
15145448 ATGCTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:15149516 original size:52 final size:52
Alignment explanation
Indices: 15149381--15149485 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
15149371 CAAATAAAAG
*
15149381 TAAAATTGCAAAAAATGACCAAATTGCACAATGTGTAAATGTTGAGGGTTAA
1 TAAAATTGCAAAAGATGACCAAATTGCACAATGTGTAAATGTTGAGGGTTAA
15149433 TAAAATTGCAAAAGATGACCAAATTGCACAATGTGTAAATGTTGAGGGTTAA
1 TAAAATTGCAAAAGATGACCAAATTGCACAATGTGTAAATGTTGAGGGTTAA
15149485 T
1 T
15149486 TTTTTTGGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.28
Consensus pattern (52 bp):
TAAAATTGCAAAAGATGACCAAATTGCACAATGTGTAAATGTTGAGGGTTAA
Found at i:15152867 original size:11 final size:11
Alignment explanation
Indices: 15152851--15152875 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15152841 AATCATTCAT
15152851 ATTATGTGTTA
1 ATTATGTGTTA
15152862 ATTATGTGTTA
1 ATTATGTGTTA
15152873 ATT
1 ATT
15152876 TCAAGACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (11 bp):
ATTATGTGTTA
Found at i:15174415 original size:38 final size:38
Alignment explanation
Indices: 15174373--15174540 Score: 103
Period size: 38 Copynumber: 4.3 Consensus size: 38
15174363 ATGATTTGAG
15174373 TAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
* * * * * * * *
15174411 TAAATTATATATTTAATTAAAATATATTTAATAATAATTATGT
1 TAAATT-CATA--TAA-GAATAT-TAATTATTAAGAATTTTAT
* * * * *
15174454 TAAATTATCTTTTATAG--TATT-ATATATTATG-ATTTGAG
1 TAAA-T-TCATATA-AGAATATTAAT-TATTAAGAATTTTAT
15174492 TAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
15174530 TAAATT-ATATA
1 TAAATTCATATA
15174541 TTTTAATTAT
Statistics
Matches: 91, Mismatches: 26, Indels: 27
0.63 0.18 0.19
Matches are distributed among these distances:
35 2 0.02
36 5 0.05
37 16 0.18
38 27 0.30
39 8 0.09
40 2 0.02
41 3 0.03
42 6 0.07
43 19 0.21
44 2 0.02
45 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (38 bp):
TAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
Found at i:15174424 original size:17 final size:17
Alignment explanation
Indices: 15174404--15174437 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15174394 ATTATTAAGA
* *
15174404 ATTTTATTAAATTATAT
1 ATTTAATTAAAATATAT
15174421 ATTTAATTAAAATATAT
1 ATTTAATTAAAATATAT
15174438 TTAATAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTAATTAAAATATAT
Found at i:15174562 original size:15 final size:15
Alignment explanation
Indices: 15174527--15174578 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15174517 TTAAGAATTT
*
15174527 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15174541 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15174555 TATTTAATAATAAT-
1 TATTTAATTATAATA
15174569 TATGTTAATT
1 TAT-TTAATT
15174579 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15174618 original size:120 final size:120
Alignment explanation
Indices: 15174283--15174699 Score: 730
Period size: 120 Copynumber: 3.5 Consensus size: 120
15174273 AATTATTTTA
* *
15174283 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTT
15174347 TATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
15174403 AATTTTATTAAATTATATA-TTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
*
15174467 ATAGTATTATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
15174522 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
* *
15174587 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGATTATTAATTATTAAG
66 ATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
15174642 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
15174700 ATGATTAAAT
Statistics
Matches: 284, Mismatches: 10, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
119 114 0.40
120 165 0.58
121 5 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:15174671 original size:18 final size:17
Alignment explanation
Indices: 15174643--15174677 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15174633 ATTATTAAGA
*
15174643 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15174660 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15174678 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15174862 original size:39 final size:40
Alignment explanation
Indices: 15174819--15174923 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
15174809 TTCCATTATG
15174819 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
15174858 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
15174903 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
15174924 ACACCTTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:15174917 original size:45 final size:44
Alignment explanation
Indices: 15174817--15174926 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
15174807 TTTTCCATTA
15174817 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
15174856 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
15174901 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
15174927 CCTTTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:15174926 original size:16 final size:16
Alignment explanation
Indices: 15174907--15174958 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
15174897 GATTTGCTAT
* *
15174907 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
*
15174923 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
15174939 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
15174955 TACA
1 TACA
15174959 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:15175839 original size:3 final size:3
Alignment explanation
Indices: 15175833--15175877 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
15175823 CATCATTATT
* *
15175833 ATA ATA ATA A-A AT- ATA ATA ATA CTA ATA TTA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15175878 TAAAATATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15180762 original size:36 final size:37
Alignment explanation
Indices: 15180722--15180795 Score: 114
Period size: 39 Copynumber: 2.0 Consensus size: 37
15180712 TGGATTGTGT
15180722 ATCAATACTT-AACAATAATAATACATTAATAAAGAG
1 ATCAATACTTAAACAATAATAATACATTAATAAAGAG
*
15180758 ATCAATACTTAACAACAATAATAATAGATTAATAAAGA
1 ATCAATACTT-A-AACAATAATAATACATTAATAAAGA
15180796 TAGTTAAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 10 0.29
39 24 0.71
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (37 bp):
ATCAATACTTAAACAATAATAATACATTAATAAAGAG
Found at i:15181163 original size:22 final size:21
Alignment explanation
Indices: 15181135--15181193 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
15181125 TAAATCTTTT
* *
15181135 CTCTCAATTTCTCTCCAATATC
1 CTCTCAATTCCTCTCAAAT-TC
15181157 CTCTCAAATTCCTCTCAAATTC
1 CTCTC-AATTCCTCTCAAATTC
15181179 CTCTCAATCTCCTCT
1 CTCTCAAT-TCCTCT
15181194 TAAAAAAAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 3 0.09
22 18 0.55
23 12 0.36
ACGTcount: A:0.22, C:0.39, G:0.00, T:0.39
Consensus pattern (21 bp):
CTCTCAATTCCTCTCAAATTC
Found at i:15181169 original size:11 final size:11
Alignment explanation
Indices: 15181135--15181185 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
15181125 TAAATCTTTT
*
15181135 CTCTC-AATTT
1 CTCTCAAATTC
*
15181145 CTCTCCAATATC
1 CTCTCAAAT-TC
15181157 CTCTCAAATTC
1 CTCTCAAATTC
15181168 CTCTCAAATTC
1 CTCTCAAATTC
15181179 CTCTCAA
1 CTCTCAA
15181186 TCTCCTCTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
10 5 0.14
11 23 0.62
12 9 0.24
ACGTcount: A:0.25, C:0.37, G:0.00, T:0.37
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:15181191 original size:11 final size:10
Alignment explanation
Indices: 15181135--15181193 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 10
15181125 TAAATCTTTT
*
15181135 CTCTCAATTT
1 CTCTCAATTC
15181145 CTCTCCAATATC
1 CTCT-CAAT-TC
15181157 CTCTCAAATTC
1 CTCTC-AATTC
15181168 CTCTCAAATTC
1 CTCTC-AATTC
15181179 CTCTCAATCTC
1 CTCTCAAT-TC
15181190 CTCT
1 CTCT
15181194 TAAAAAAAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
10 7 0.16
11 29 0.66
12 8 0.18
ACGTcount: A:0.22, C:0.39, G:0.00, T:0.39
Consensus pattern (10 bp):
CTCTCAATTC
Found at i:15182958 original size:126 final size:126
Alignment explanation
Indices: 15182733--15183026 Score: 473
Period size: 126 Copynumber: 2.3 Consensus size: 126
15182723 GGCGAAACAT
* * * * * * *
15182733 GAGCTACTAAAGCAAAAGCGCATCCATGTGAAAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTTAGTACTTTTACTGACAAAGCATC
*
15182798 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGCAATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
*
15182859 GAGCTACTATAGCAAAAGTGCGTCCACGTGGAAGCTTCTTTTAGTACTTTTACTGACAAAGCATC
1 GAGCTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTTAGTACTTTTACTGACAAAGCATC
*
15182924 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAG
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
* *
15182985 GAGCTACTATAGCAAAAAAGCGTCCACGTGGGAGCTT-TTTTA
1 GAGCTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTTA
15183027 AATTAACACT
Statistics
Matches: 156, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
125 5 0.03
126 151 0.97
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (126 bp):
GAGCTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTTAGTACTTTTACTGACAAAGCATC
CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
Found at i:15183852 original size:20 final size:20
Alignment explanation
Indices: 15183827--15183895 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
15183817 GCAGACTACG
*
15183827 TTTAAAATCTTATTATAAAA
1 TTTAAAATATTATTATAAAA
* *
15183847 TTTAAAATAATATTTTAAAA
1 TTTAAAATATTATTATAAAA
* *
15183867 ATTAAATATTATTTTTATAAAA
1 TTTAAA-A-TATTATTATAAAA
15183889 -TTAAAAT
1 TTTAAAAT
15183896 TGAATCTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.03
20 23 0.57
21 6 0.15
22 10 0.25
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTAAAATATTATTATAAAA
Found at i:15183869 original size:21 final size:22
Alignment explanation
Indices: 15183839--15183895 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
15183829 TAAAATCTTA
15183839 TTATAAAATTTAAAATAATA-TT
1 TTATAAAA-TTAAAATAATATTT
*
15183861 TTA-AAAATT-AAATATTATTT
1 TTATAAAATTAAAATAATATTT
15183881 TTATAAAATTAAAAT
1 TTATAAAATTAAAAT
15183896 TGAATCTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 7 0.23
20 7 0.23
21 10 0.32
22 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTATAAAATTAAAATAATATTT
Found at i:15183905 original size:21 final size:20
Alignment explanation
Indices: 15183837--15183908 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
15183827 TTTAAAATCT
15183837 TATTATAAAATTTAAAA-TAA
1 TATTATAAAA-TTAAAATTAA
* *
15183857 TATTTTAAAAATTAAATATTAT
1 TATTAT-AAAATTAAA-ATTAA
*
15183879 TTTTATAAAATTAAAATTGAA
1 TATTATAAAATTAAAATT-AA
*
15183900 TCTTATAAA
1 TATTATAAA
15183909 GATGTCATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
20 13 0.31
21 23 0.55
22 6 0.14
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (20 bp):
TATTATAAAATTAAAATTAA
Found at i:15184603 original size:18 final size:19
Alignment explanation
Indices: 15184580--15184620 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
15184570 GAAATTGATT
15184580 AAAAATCTTAAAA-AATAA
1 AAAAATCTTAAAATAATAA
*
15184598 AAAAATTTTAAAATAATAA
1 AAAAATCTTAAAATAATAA
15184617 AAAA
1 AAAA
15184621 GAGAGTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATCTTAAAATAATAA
Found at i:15185383 original size:23 final size:23
Alignment explanation
Indices: 15185351--15185566 Score: 67
Period size: 23 Copynumber: 9.5 Consensus size: 23
15185341 TACATGTATT
* *
15185351 TATGCAAACCGTACA-AGTAGTAA
1 TATGCGAACCCTACATA-TAGTAA
*
15185374 TATGCGAACCCTACATATTGTAA
1 TATGCGAACCCTACATATAGTAA
* * * *
15185397 TATGTGAACCCT--GT-TTGTTTA
1 TATGCGAACCCTACATATAG-TAA
* * * *
15185418 TCATGCGAGCCCTATACAT-GTATT
1 T-ATGCGAACCCTACATATAGTA-A
* * *
15185442 TATGCAAATCGTACA-ACTAGTAA
1 TATGCGAACCCTACATA-TAGTAA
*
15185465 TATGCGAACCCTACATATTGTAA
1 TATGCGAACCCTACATATAGTAA
* * * *
15185488 TATGTGAACCCT--GT-TTGTTTA
1 TATGCGAACCCTACATATAG-TAA
* * *
15185509 TCATGCGAGCCCTATATAT-GTATT
1 T-ATGCGAACCCTACATATAGTA-A
*
15185533 TATGTGAACCCTACA-AGTAGTAA
1 TATGCGAACCCTACATA-TAGTAA
15185556 TATGCGAACCC
1 TATGCGAACCC
15185567 CGTATGTTTA
Statistics
Matches: 140, Mismatches: 35, Indels: 36
0.66 0.17 0.17
Matches are distributed among these distances:
20 6 0.04
21 8 0.06
22 20 0.14
23 91 0.65
24 13 0.09
25 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (23 bp):
TATGCGAACCCTACATATAGTAA
Found at i:15185389 original size:91 final size:91
Alignment explanation
Indices: 15185282--15185566 Score: 444
Period size: 91 Copynumber: 3.1 Consensus size: 91
15185272 CTACATATGC
** * * * * * *
15185282 ATATGCGAACATTACATATTTTAATATGCGAACCCTGTATATTTATCATACGAGCTCTATACATG
1 ATATGCGAACCCTACATATTGTAATATGTGAACCCTGTTTGTTTATCATGCGAGCCCTATACATG
15185347 TATTTATGCAAACCGTACAAGTAGTA
66 TATTTATGCAAACCGTACAAGTAGTA
15185373 ATATGCGAACCCTACATATTGTAATATGTGAACCCTGTTTGTTTATCATGCGAGCCCTATACATG
1 ATATGCGAACCCTACATATTGTAATATGTGAACCCTGTTTGTTTATCATGCGAGCCCTATACATG
* *
15185438 TATTTATGCAAATCGTACAACTAGTA
66 TATTTATGCAAACCGTACAAGTAGTA
*
15185464 ATATGCGAACCCTACATATTGTAATATGTGAACCCTGTTTGTTTATCATGCGAGCCCTATATATG
1 ATATGCGAACCCTACATATTGTAATATGTGAACCCTGTTTGTTTATCATGCGAGCCCTATACATG
** *
15185529 TATTTATGTGAACCCTACAAGTAGTA
66 TATTTATGCAAACCGTACAAGTAGTA
15185555 ATATGCGAACCC
1 ATATGCGAACCC
15185567 CGTATGTTTA
Statistics
Matches: 178, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 178 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (91 bp):
ATATGCGAACCCTACATATTGTAATATGTGAACCCTGTTTGTTTATCATGCGAGCCCTATACATG
TATTTATGCAAACCGTACAAGTAGTA
Found at i:15185431 original size:45 final size:45
Alignment explanation
Indices: 15185375--15185544 Score: 132
Period size: 45 Copynumber: 3.8 Consensus size: 45
15185365 AAGTAGTAAT
15185375 ATGCGAACCCTACATATTGTA-ATATGTGAACCCTGTTTGTTTATC
1 ATGCGAACCCTACATA-TGTATATATGTGAACCCTGTTTGTTTATC
* * * * ** * *** * *
15185420 ATGCGAGCCCTATACATGTATTTATGCAAATCGTACAACTAG-TAAT-
1 ATGCGAACCCTACATATGTATATATGTGAA-C--CCTGTTTGTTTATC
15185466 ATGCGAACCCTACATATTGTA-ATATGTGAACCCTGTTTGTTTATC
1 ATGCGAACCCTACATA-TGTATATATGTGAACCCTGTTTGTTTATC
* * *
15185511 ATGCGAGCCCTATATATGTATTTATGTGAACCCT
1 ATGCGAACCCTACATATGTATATATGTGAACCCT
15185545 ACAAGTAGTA
Statistics
Matches: 90, Mismatches: 27, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
43 3 0.03
44 11 0.12
45 46 0.51
46 20 0.22
47 7 0.08
48 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (45 bp):
ATGCGAACCCTACATATGTATATATGTGAACCCTGTTTGTTTATC
Found at i:15185644 original size:30 final size:30
Alignment explanation
Indices: 15185605--15185674 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
15185595 CGAATTAGCA
* *
15185605 TGCGAACCCTGTATGTGCAAACCCTAGATG
1 TGCGAACCCTGTATGTGCAAACCCAACATG
* **
15185635 TGTGAACCCTGTATGTGTGAACCCAACATG
1 TGCGAACCCTGTATGTGCAAACCCAACATG
15185665 TGCGAACCCT
1 TGCGAACCCT
15185675 TCTTGTGAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (30 bp):
TGCGAACCCTGTATGTGCAAACCCAACATG
Found at i:15185652 original size:15 final size:15
Alignment explanation
Indices: 15185608--15185658 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
15185598 ATTAGCATGC
*
15185608 GAACCCTGTATGTGC
1 GAACCCTGTATGTGT
*
15185623 AAACCCTAG-ATGTGT
1 GAACCCT-GTATGTGT
15185638 GAACCCTGTATGTGT
1 GAACCCTGTATGTGT
15185653 GAACCC
1 GAACCC
15185659 AACATGTGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 29 0.94
16 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (15 bp):
GAACCCTGTATGTGT
Found at i:15189628 original size:23 final size:23
Alignment explanation
Indices: 15189578--15189628 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
15189568 ATTGAAATGT
* *
15189578 ATTAAATTATTTTTTATTTAATC
1 ATTAAATTATTTTTTAATTAATA
*
15189601 TTTAAATTGATTTTTTAATTAA-A
1 ATTAAATT-ATTTTTTAATTAATA
15189624 ATTAA
1 ATTAA
15189629 GAAATTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTAAATTATTTTTTAATTAATA
Found at i:15190870 original size:23 final size:23
Alignment explanation
Indices: 15190824--15190870 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
15190814 AAAAATCTTG
*
15190824 AAAAAAAAATATAAACAGTTTCA
1 AAAAAAAAATATAAACAGTATCA
*
15190847 AAAAATAAAATATAATCAG-ATCA
1 AAAAA-AAAATATAAACAGTATCA
15190870 A
1 A
15190871 TTTTGGAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.66, C:0.09, G:0.04, T:0.21
Consensus pattern (23 bp):
AAAAAAAAATATAAACAGTATCA
Found at i:15198084 original size:23 final size:22
Alignment explanation
Indices: 15198057--15198099 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15198047 AGGAATACAT
15198057 AGGTGGTGTGAAGGAAACACTTG
1 AGGTGGT-TGAAGGAAACACTTG
* *
15198080 AGGTGGTTGAGGGACACACT
1 AGGTGGTTGAAGGAAACACT
15198100 GATAAGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.28, C:0.12, G:0.40, T:0.21
Consensus pattern (22 bp):
AGGTGGTTGAAGGAAACACTTG
Found at i:15198839 original size:707 final size:706
Alignment explanation
Indices: 15196890--15199010 Score: 3851
Period size: 707 Copynumber: 3.0 Consensus size: 706
15196880 TGGATTTGAG
15196890 GGAGCTCAACTATAAATAGAGGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
1 GGAGCTCAACTATAAATAGAGGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
15196955 TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTGTGCACTATTTTTTTGTGACTTTTC
66 TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTGTGCACTATTTTTTTGTGACTTTTC
*
15197020 TGTTCGTTCATGGTTTTTTTCTCTTCCGAGTTTGCTTTTGTTTTGTTTCAGTGTCTTAGAGAATT
131 TGTTCGTTCATGGTTTTTTTCTCTTTCGAGTTTGCTTTTGTTTTGTTTCAGTGTCTTAGAGAATT
15197085 TTTGCAAGAATTTTCATTTTTCGAGAGTAAGACTGACTTAGCAAATTTGAACCCAAGAAATCGCC
196 TTTGCAAGAATTTTCATTTTTCGAGAGTAA-ACTGACTTAGCAAATTTGAACCCAAGAAATCGCC
* ** *
15197150 TAAGGCTTCATGGTTGGCCAGACTAAAGTTCTAGCCCCGTGACAATTAGTATCTGAGCCAGTGTT
260 TAAGGCTTCATGGTTTGTTAGACTAAAGTTCTAGCCCCGTGACAATTAGTATCCGAGCCAGTGTT
15197215 CGAAGGCGCCGGTTGAGATGACGAAATGAGGAGACGAACAGAATGTCCCTATGGAGACTTATAGG
325 CGAAGGCGCCGGTTGAGATGACGAAATGAGGAGACGAACAGAATGTCCCTATGGAGACTTATAGG
15197280 AGATTCAGGAAAAATAACAGATCGAGGGATATGTTGTTGGCTTTGGAAGGTCGAGTGACCAATCT
390 AGATTCAGGAAAAATAACAGATCGAGGGATATGTTGTTGGCTTTGGAAGGTCGAGTGACCAATCT
15197345 CGAGGAATACATGGGTGGTGTGAAGGAAACACTCGAGGTGGTTGAGGGACACACTGATGAGTTAG
455 CGAGGAATACATGGGTGGTGTGAAGGAAACACTCGAGGTGGTTGAGGGACACACTGATGAGTTAG
*
15197410 ACTCGATTAGAATACAGCTCAGGGACTATGTGGCGGAGGCTCTTAGTTCCAATCGAGGTGCGATG
520 ACTCGATTAGAATGCAGCTCAGGGACTATGTGGCGGAGGCTCTTAGTTCCAATCGAGGTGCGATG
* *
15197475 AGAGAAACCCTCAATACTGCCATGGATGATAAGTCCGAGAAGCTAATTAAGAAGAATGATGCTCT
585 AGAGAAACCCTCAATACCGTCATGGATGATAAGTCCGAGAAGCTAATTAAGAAGAATGATGCTCT
*
15197540 CAAAGCTATGGTCGTGGCTTTGAAAGTGGAATTGTAGGCCATGATGTTGAGAACTGA
650 CAAAGCTATGGTCGTGGCTTTGAAAGAGGAATTGTAGGCCATGATGTTGAGAACTGA
*
15197597 GGAGCTCAACTATAAATAGATGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
1 GGAGCTCAACTATAAATAGAGGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
*
15197662 TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTGTGCACTATTTTTTCGTGACTTTTC
66 TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTGTGCACTATTTTTTTGTGACTTTTC
*
15197727 TGTTCGTTCATGGTTTTTTTTCTCTTTCGAGTTTACTTTTGTTTTGTTTCAGTGTCTTAGAGAAT
131 TGTTCGTTCATGG-TTTTTTTCTCTTTCGAGTTTGCTTTTGTTTTGTTTCAGTGTCTTAGAGAAT
*
15197792 TTTTCCAAGAATTTTCATTTTTC----G---ACTGACTTAGCAAATTTGAACCCAAGAAATCGCC
195 TTTTGCAAGAATTTTCATTTTTCGAGAGTAAACTGACTTAGCAAATTTGAACCCAAGAAATCGCC
*
15197850 TAAGGCTTCATGGTTTGTTAGACTAAAGTTTTAGCCCCGTGACAATTAGTATCCGAGCCAGTGTT
260 TAAGGCTTCATGGTTTGTTAGACTAAAGTTCTAGCCCCGTGACAATTAGTATCCGAGCCAGTGTT
* *
15197915 CAAAGGCGCCGGTTGAGATGACGAAATGAGGAGACGAATAGAATGTCCCTATGGAGACTTATAGG
325 CGAAGGCGCCGGTTGAGATGACGAAATGAGGAGACGAACAGAATGTCCCTATGGAGACTTATAGG
*
15197980 AGATTCAGGAAAAATAACAGATCGAGGGATATGTTGTTGGCTTTGGAAGGTCGAGTTACCAATCT
390 AGATTCAGGAAAAATAACAGATCGAGGGATATGTTGTTGGCTTTGGAAGGTCGAGTGACCAATCT
* * *
15198045 CGAGGAATACATAGGTGGTGTGAAGGAAACACTTGAGGTGGTTGAGGGACACACTGATAAGTTAG
455 CGAGGAATACATGGGTGGTGTGAAGGAAACACTCGAGGTGGTTGAGGGACACACTGATGAGTTAG
* * *
15198110 ACTCGATTAGAATGCAGCTCAGGGACTATGTAGTGGAGGCTCTTAGTTCCAATCAAGGTGCGATG
520 ACTCGATTAGAATGCAGCTCAGGGACTATGTGGCGGAGGCTCTTAGTTCCAATCGAGGTGCGATG
* *
15198175 AGAGAAACCCTCAATACCGTCATGGATGATAAGTTCGAGAAACTAATTAAGAAGAATGATGCTCT
585 AGAGAAACCCTCAATACCGTCATGGATGATAAGTCCGAGAAGCTAATTAAGAAGAATGATGCTCT
* *
15198240 CAAAGCTATGGTCATGGCTTTGAAAGAGGAATTGTAGGCCATGATGTTCAGAACTGA
650 CAAAGCTATGGTCGTGGCTTTGAAAGAGGAATTGTAGGCCATGATGTTGAGAACTGA
15198297 GGAGCTCAACTATAAATAGAGGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
1 GGAGCTCAACTATAAATAGAGGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
*
15198362 TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTATGCACTATTTTTTTGTGACTTTTC
66 TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTGTGCACTATTTTTTTGTGACTTTTC
*
15198427 TATTCGTTCATGGTTTTTTTCTCTTTCGAGTTTGCTTTTGTTTTGTTTCAGTGTCTTAGAGAATT
131 TGTTCGTTCATGGTTTTTTTCTCTTTCGAGTTTGCTTTTGTTTTGTTTCAGTGTCTTAGAGAATT
15198492 TTTGCAAGAATTTTCATTTTTCGAGAGTAAAACTGACTTAGCAAATTTGAACCCAAGAAATCGCC
196 TTTGCAAGAATTTTCATTTTTCGAGAGT-AAACTGACTTAGCAAATTTGAACCCAAGAAATCGCC
15198557 TAAGGCTTCATGGTTTGTTAGACTAAAGTTCTAGCCCCGTGACAATTAGTATCCGAGCCAGTGTT
260 TAAGGCTTCATGGTTTGTTAGACTAAAGTTCTAGCCCCGTGACAATTAGTATCCGAGCCAGTGTT
* *
15198622 CGAAGGCACCGGTTGAGATGACGAAATAAGGAGACGAACAGAATGTCCCTATGGAGACTTATAGG
325 CGAAGGCGCCGGTTGAGATGACGAAATGAGGAGACGAACAGAATGTCCCTATGGAGACTTATAGG
*
15198687 AGATTCAGGAAAAATAACAGATCGAGGGATATGTTGTTGGATTTGGAAGGTCGAGTGACCAATCT
390 AGATTCAGGAAAAATAACAGATCGAGGGATATGTTGTTGGCTTTGGAAGGTCGAGTGACCAATCT
*
15198752 CGAGGAATACATGGGTGGTGTGAAGGAAACACTCGAGGTGGTTGAGGCACACACTGATGAGTTAG
455 CGAGGAATACATGGGTGGTGTGAAGGAAACACTCGAGGTGGTTGAGGGACACACTGATGAGTTAG
15198817 ACTCGATTAGAATGCAGCTCAGGGACTATGTGGCGGAGGCTCTTAGTTCCAATCGAGGTGCGATG
520 ACTCGATTAGAATGCAGCTCAGGGACTATGTGGCGGAGGCTCTTAGTTCCAATCGAGGTGCGATG
15198882 AGAGAAACCCTCAATACCGTCATGGATGATAAGTCCGAGAAGCTAATTAAGAAGAATGATGCTCT
585 AGAGAAACCCTCAATACCGTCATGGATGATAAGTCCGAGAAGCTAATTAAGAAGAATGATGCTCT
* *
15198947 AAAAGCTATGGTCGTGGCTTTGAAAGAGGAATTTTAGGCCATGATGTTGAGAACTGA
650 CAAAGCTATGGTCGTGGCTTTGAAAGAGGAATTGTAGGCCATGATGTTGAGAACTGA
15199004 GGAGCTC
1 GGAGCTC
15199011 GAGGGAGAGC
Statistics
Matches: 1352, Mismatches: 53, Indels: 18
0.95 0.04 0.01
Matches are distributed among these distances:
699 72 0.05
700 598 0.44
703 1 0.00
704 1 0.00
707 609 0.45
708 71 0.05
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (706 bp):
GGAGCTCAACTATAAATAGAGGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTGTGCACTATTTTTTTGTGACTTTTC
TGTTCGTTCATGGTTTTTTTCTCTTTCGAGTTTGCTTTTGTTTTGTTTCAGTGTCTTAGAGAATT
TTTGCAAGAATTTTCATTTTTCGAGAGTAAACTGACTTAGCAAATTTGAACCCAAGAAATCGCCT
AAGGCTTCATGGTTTGTTAGACTAAAGTTCTAGCCCCGTGACAATTAGTATCCGAGCCAGTGTTC
GAAGGCGCCGGTTGAGATGACGAAATGAGGAGACGAACAGAATGTCCCTATGGAGACTTATAGGA
GATTCAGGAAAAATAACAGATCGAGGGATATGTTGTTGGCTTTGGAAGGTCGAGTGACCAATCTC
GAGGAATACATGGGTGGTGTGAAGGAAACACTCGAGGTGGTTGAGGGACACACTGATGAGTTAGA
CTCGATTAGAATGCAGCTCAGGGACTATGTGGCGGAGGCTCTTAGTTCCAATCGAGGTGCGATGA
GAGAAACCCTCAATACCGTCATGGATGATAAGTCCGAGAAGCTAATTAAGAAGAATGATGCTCTC
AAAGCTATGGTCGTGGCTTTGAAAGAGGAATTGTAGGCCATGATGTTGAGAACTGA
Found at i:15207295 original size:20 final size:19
Alignment explanation
Indices: 15207279--15207332 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
15207269 ATATATATAA
15207279 ATTTTGAAATTTTTATAAAT
1 ATTTTG-AATTTTTATAAAT
*
15207299 ATTTTGAA-TTTTAGAAAATT
1 ATTTTGAATTTTTA-TAAA-T
15207319 ATTTTGAACTTTTT
1 ATTTTGAA-TTTTT
15207333 TTTTGTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
20 15 0.52
22 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (19 bp):
ATTTTGAATTTTTATAAAT
Done.