Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 151 of 250
Found at i:48801759 original size:38 final size:38
Alignment explanation
Indices: 48801717--48801802 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 38
48801707 AAGCATATGG
* * * * *
48801717 AGCATGTCTATTGCAACTGTTGAACTAAATATATGTTA
1 AGCATATCTATTACAACTGTTAAACTAAATACATGTCA
**
48801755 AGCATATCTATTATTACTGTTAAACTAAATACATGTCA
1 AGCATATCTATTACAACTGTTAAACTAAATACATGTCA
48801793 AGCATATCTA
1 AGCATATCTA
48801803 CTGTTTTTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (38 bp):
AGCATATCTATTACAACTGTTAAACTAAATACATGTCA
Found at i:48803768 original size:30 final size:30
Alignment explanation
Indices: 48803732--48803794 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
48803722 ATAAAATATG
*
48803732 AAAAATATGGGCAAAACCATAAAAAT-TAAA
1 AAAAATAAGGGCAAAACCAT-AAAATCTAAA
*
48803762 AAAAATAAGGGCAAAACTATAAAATCTAAA
1 AAAAATAAGGGCAAAACCATAAAATCTAAA
48803792 AAA
1 AAA
48803795 CAGGGACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.65, C:0.10, G:0.10, T:0.16
Consensus pattern (30 bp):
AAAAATAAGGGCAAAACCATAAAATCTAAA
Found at i:48803885 original size:28 final size:28
Alignment explanation
Indices: 48803710--48803896 Score: 80
Period size: 28 Copynumber: 6.7 Consensus size: 28
48803700 TTTGTAAAGC
* *
48803710 AGGGGAAAAACTATAAAAT-ATGAAAAAT
1 AGGGGCAAAACTATAAAATCA-AAAAAAT
* * *
48803738 ATGGGCAAAACCATAAAAATTAAAAAAAAT
1 AGGGGCAAAACTAT-AAAA-TCAAAAAAAT
* * *
48803768 AAGGGCAAAACTATAAAATCTAAAAAAC
1 AGGGGCAAAACTATAAAATCAAAAAAAT
* * * * *
48803796 A-GGG-ACAATTGTCAAATCTAAAAAAT
1 AGGGGCAAAACTATAAAATCAAAAAAAT
* * **
48803822 AGAAGG-AAAA-TGA-AAATTTTGAAAAAAT
1 AG-GGGCAAAACT-ATAAA-ATCAAAAAAAT
***
48803850 AATAGCAAAACTATAAAATCAAAAAAAT
1 AGGGGCAAAACTATAAAATCAAAAAAAT
* *
48803878 AGGGGCAAAATTCTAAAAT
1 AGGGGCAAAACTATAAAAT
48803897 TTGAAAATAA
Statistics
Matches: 117, Mismatches: 32, Indels: 20
0.69 0.19 0.12
Matches are distributed among these distances:
26 18 0.15
27 7 0.06
28 60 0.51
29 12 0.10
30 19 0.16
31 1 0.01
ACGTcount: A:0.59, C:0.09, G:0.13, T:0.19
Consensus pattern (28 bp):
AGGGGCAAAACTATAAAATCAAAAAAAT
Found at i:48803903 original size:28 final size:28
Alignment explanation
Indices: 48803856--48804075 Score: 123
Period size: 28 Copynumber: 8.0 Consensus size: 28
48803846 AAATAATAGC
* ** *
48803856 AAAACTATAAAATCAAAAAAATAGGGGC
1 AAAATTATAAAATCTGAAAAATAGGGGT
* * *
48803884 AAAATTCTAAAATTTG-AAAATAAAGGGT
1 AAAATTATAAAATCTGAAAAAT-AGGGGT
* * *
48803912 AAAACTGTAAAATCTG-AAAA-A---GA
1 AAAATTATAAAATCTGAAAAATAGGGGT
* * ** *
48803935 AAAATTGTCAAATCTGAAAAATAGACGC
1 AAAATTATAAAATCTGAAAAATAGGGGT
* *
48803963 AAAATTATAAAATTTG-AAAACAGGGGT
1 AAAATTATAAAATCTGAAAAATAGGGGT
* ** * *
48803990 AAAACTATAAAATCAAAAAAAAATATGGGA
1 AAAATTATAAAATC--TGAAAAATAGGGGT
* *
48804020 AAAATTGTAAAATTTAGAAAAATAGGGGT
1 AAAATTATAAAATCT-GAAAAATAGGGGT
48804049 AAAATTATAAAATCT-AAGAAATAGGGG
1 AAAATTATAAAATCTGAA-AAATAGGGG
48804076 ACACATGGCC
Statistics
Matches: 144, Mismatches: 37, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
23 15 0.10
24 4 0.03
25 1 0.01
26 1 0.01
27 26 0.18
28 55 0.38
29 23 0.16
30 19 0.13
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.22
Consensus pattern (28 bp):
AAAATTATAAAATCTGAAAAATAGGGGT
Found at i:48803903 original size:29 final size:29
Alignment explanation
Indices: 48803761--48804075 Score: 112
Period size: 28 Copynumber: 11.4 Consensus size: 29
48803751 TAAAAATTAA
* * *
48803761 AAAAAATAAGGGCAAAACTATAAAATCT-
1 AAAAAATAGGGGTAAAATTATAAAATCTG
* * * *
48803789 AAAAAACA-GGG-ACAATTGTCAAATCT-
1 AAAAAATAGGGGTAAAATTATAAAATCTG
* * * *
48803815 AAAAAATAGAAGG-AAAATGA-AAATTTTG
1 AAAAAATAG-GGGTAAAATTATAAAATCTG
*** * * *
48803843 AAAAAATAATAGCAAAACTATAAAATC-A
1 AAAAAATAGGGGTAAAATTATAAAATCTG
* * *
48803871 AAAAAATAGGGGCAAAATTCTAAAATTTG
1 AAAAAATAGGGGTAAAATTATAAAATCTG
* *
48803900 AAAATAA-A-GGGTAAAACTGTAAAATCTG
1 AAAA-AATAGGGGTAAAATTATAAAATCTG
* * *
48803928 --AAAA-A---GAAAAATTGTCAAATCTG
1 AAAAAATAGGGGTAAAATTATAAAATCTG
** * *
48803951 -AAAAATAGACGCAAAATTATAAAATTTG
1 AAAAAATAGGGGTAAAATTATAAAATCTG
* * **
48803979 --AAAACAGGGGTAAAACTATAAAATCAAA
1 AAAAAATAGGGGTAAAATTATAAAATC-TG
* * * *
48804007 AAAAAATATGGGAAAAATTGTAAAAT-TT
1 AAAAAATAGGGGTAAAATTATAAAATCTG
48804035 AGAAAAATAGGGGTAAAATTATAAAATCT-
1 A-AAAAATAGGGGTAAAATTATAAAATCTG
*
48804064 AAGAAATAGGGG
1 AAAAAATAGGGG
48804076 ACACATGGCC
Statistics
Matches: 212, Mismatches: 58, Indels: 34
0.70 0.19 0.11
Matches are distributed among these distances:
23 15 0.07
24 4 0.02
25 4 0.02
26 20 0.09
27 27 0.13
28 88 0.42
29 32 0.15
30 22 0.10
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.21
Consensus pattern (29 bp):
AAAAAATAGGGGTAAAATTATAAAATCTG
Found at i:48803947 original size:23 final size:23
Alignment explanation
Indices: 48803912--48803955 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
48803902 AATAAAGGGT
48803912 AAAACTGTAAAATCTGAAAAAGA
1 AAAACTGTAAAATCTGAAAAAGA
* *
48803935 AAAATTGTCAAATCTGAAAAA
1 AAAACTGTAAAATCTGAAAAA
48803956 TAGACGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.09, G:0.11, T:0.20
Consensus pattern (23 bp):
AAAACTGTAAAATCTGAAAAAGA
Found at i:48806548 original size:26 final size:26
Alignment explanation
Indices: 48806503--48806575 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
48806493 TCTCATCCCT
* * *
48806503 ATTTTACCCTTAGCATAATTTTGAAG
1 ATTTTACCCATAGTAAAATTTTGAAG
* *
48806529 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCATAGTAAAATTTTGAAG
* *
48806555 ATTTTGCCCATTGTAAAATTT
1 ATTTTACCCATAGTAAAATTT
48806576 CTAGAAAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.42
Consensus pattern (26 bp):
ATTTTACCCATAGTAAAATTTTGAAG
Found at i:48806739 original size:6 final size:6
Alignment explanation
Indices: 48806724--48806758 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
48806714 GCTAATGGGT
* *
48806724 CATTTC CATTTT CATTTA CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
48806759 TTGGAAACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.20, C:0.26, G:0.00, T:0.54
Consensus pattern (6 bp):
CATTTC
Found at i:48806747 original size:18 final size:18
Alignment explanation
Indices: 48806724--48806758 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48806714 GCTAATGGGT
*
48806724 CATTTCCATTTTCATTTA
1 CATTTCCATTTCCATTTA
48806742 CATTTCCATTTCCATTT
1 CATTTCCATTTCCATTT
48806759 TTGGAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.26, G:0.00, T:0.54
Consensus pattern (18 bp):
CATTTCCATTTCCATTTA
Found at i:48820205 original size:23 final size:24
Alignment explanation
Indices: 48820154--48820206 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 24
48820144 TTCTTTGTTG
48820154 AATATGTTAAAAATGTTTCAATTAT
1 AATAT-TTAAAAATGTTTCAATTAT
* *
48820179 --TATTTGAAAAT-TTTCTATTAT
1 AATATTTAAAAATGTTTCAATTAT
48820200 AATATTT
1 AATATTT
48820207 TAATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 9 0.38
22 7 0.29
23 8 0.33
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.51
Consensus pattern (24 bp):
AATATTTAAAAATGTTTCAATTAT
Found at i:48820733 original size:14 final size:16
Alignment explanation
Indices: 48820702--48820734 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
48820692 TTTATTCATA
48820702 AATATTTATATCATTG
1 AATATTTATATCATTG
48820718 AATA-TTATAT-ATTG
1 AATATTTATATCATTG
48820732 AAT
1 AAT
48820735 TTAAGTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 6 0.35
16 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (16 bp):
AATATTTATATCATTG
Found at i:48824427 original size:26 final size:26
Alignment explanation
Indices: 48824391--48824447 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
48824381 GCAAACAGAA
*
48824391 ACAAATACAG-ATCCAGATTCAGGTAT
1 ACAAATACAGAAT-CAGATTCAGATAT
48824417 -CAAATTACAGAATCAGATTCAGATAT
1 ACAAA-TACAGAATCAGATTCAGATAT
48824443 ACAAA
1 ACAAA
48824448 ATCCTAACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 4 0.15
26 17 0.63
27 6 0.22
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (26 bp):
ACAAATACAGAATCAGATTCAGATAT
Found at i:48824886 original size:18 final size:18
Alignment explanation
Indices: 48824863--48824898 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48824853 CAGTATAATA
* *
48824863 GGCCCACATGCCCTTGTG
1 GGCCCACACGCCCGTGTG
48824881 GGCCCACACGCCCGTGTG
1 GGCCCACACGCCCGTGTG
48824899 ACATGCTCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.42, G:0.31, T:0.17
Consensus pattern (18 bp):
GGCCCACACGCCCGTGTG
Found at i:48825580 original size:16 final size:18
Alignment explanation
Indices: 48825548--48825582 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
48825538 AAAAAGTTGG
48825548 AAGAAAACTAGAAAATAA
1 AAGAAAACTAGAAAATAA
48825566 AAGAAAA-TA-AAAATAA
1 AAGAAAACTAGAAAATAA
48825582 A
1 A
48825583 GTAAATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.11
Consensus pattern (18 bp):
AAGAAAACTAGAAAATAA
Found at i:48826723 original size:23 final size:22
Alignment explanation
Indices: 48826667--48826723 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 22
48826657 TTCCTATAAT
48826667 TATTTCTG-AA-ACTTAGATAG
1 TATTTCTGAAACACTTAGATAG
*
48826687 TATATTTTGAAAACACTATAGATAG
1 TAT-TTCTG-AAACACT-TAGATAG
48826712 TATTTCTGAAAC
1 TATTTCTGAAAC
48826724 TGTATTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 3 0.10
21 4 0.13
23 6 0.20
24 7 0.23
25 10 0.33
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (22 bp):
TATTTCTGAAACACTTAGATAG
Found at i:48831841 original size:5 final size:5
Alignment explanation
Indices: 48831833--48831858 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48831823 TTTTATTTTA
48831833 TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT T
48831859 TTGATTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:48834714 original size:42 final size:42
Alignment explanation
Indices: 48834654--48834736 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
48834644 TGACTTCATT
48834654 TTTTTTTCATTTCATTTTTACACAAATACCCATTTATATCCA
1 TTTTTTTCATTTCATTTTTACACAAATACCCATTTATATCCA
*
48834696 TTTTTTTCATTTCGTTTTTACACAAATACCCATTTATATCC
1 TTTTTTTCATTTCATTTTTACACAAATACCCATTTATATCC
48834737 TACCGACTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.01, T:0.51
Consensus pattern (42 bp):
TTTTTTTCATTTCATTTTTACACAAATACCCATTTATATCCA
Found at i:48839100 original size:43 final size:42
Alignment explanation
Indices: 48839052--48839207 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 42
48839042 AGCTCATACA
* * *
48839052 ATGCCAACGTCCCATACATAGTCTTACATGTAATCAAATTTCG
1 ATGCCAACATCCCAAACATGGTCTTACATGTAATCAAA-TTCG
* * * *
48839095 ATGCC-ACTGTCCCAAACAGGGTCTTACATGAAATCAAATACG
1 ATGCCAAC-ATCCCAAACATGGTCTTACATGTAATCAAATTCG
* * * *
48839137 ATGCCAACATCCCAGACGT-GTCTTACACGTAAATCATAAGTCG
1 ATGCCAACATCCCAAACATGGTCTTACATGT-AATCA-AATTCG
*
48839180 ATGCCAACATCCTAAACATGGTCTTACA
1 ATGCCAACATCCCAAACATGGTCTTACA
48839208 CGATATCACT
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
41 9 0.10
42 22 0.24
43 53 0.58
44 8 0.09
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (42 bp):
ATGCCAACATCCCAAACATGGTCTTACATGTAATCAAATTCG
Found at i:48839197 original size:85 final size:85
Alignment explanation
Indices: 48839047--48839207 Score: 193
Period size: 85 Copynumber: 1.9 Consensus size: 85
48839037 CAGAAAGCTC
* * * * *
48839047 ATACAATGCCAACGTCCCATACATAGTCTTACATGTAATCAAATTTCGATGCCACTGTCCCAAAC
1 ATACAATGCCAACATCCCAGACATAGTCTTACACGTAATCAAATGTCGATGCCACTATCCCAAAC
48839112 AGGGTCTTACATGAAATCAA
66 AGGGTCTTACATGAAATCAA
* * *
48839132 ATACGATGCCAACATCCCAGACGT-GTCTTACACGTAAATCATAA-GTCGATGCCAAC-ATCCTA
1 ATACAATGCCAACATCCCAGACATAGTCTTACACGT-AATCA-AATGTCGATGCC-ACTATCCCA
*
48839194 AACATGGTCTTACA
63 AACAGGGTCTTACA
48839208 CGATATCACT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
84 10 0.16
85 50 0.78
86 4 0.06
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.25
Consensus pattern (85 bp):
ATACAATGCCAACATCCCAGACATAGTCTTACACGTAATCAAATGTCGATGCCACTATCCCAAAC
AGGGTCTTACATGAAATCAA
Found at i:48841213 original size:74 final size:74
Alignment explanation
Indices: 48841121--48841268 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
48841111 TGCTAGGTTA
48841121 GAAAAATAATGAAAGTAATTCAACGGGAGATTAAAAATGGATAAAAAGCAATTGAGGTATGGGTT
1 GAAAAATAATGAAAGTAATTCAACGGGAGATTAAAAATGGATAAAAAGCAATTGAGGTATGGGTT
48841186 TCAAATTTT
66 TCAAATTTT
48841195 GAAAAATAATGAAAGTAATTCAACGGGAGATTAAAAATGGATAAAAAGCAATTGAGGTATGGGTT
1 GAAAAATAATGAAAGTAATTCAACGGGAGATTAAAAATGGATAAAAAGCAATTGAGGTATGGGTT
48841260 TCAAATTTT
66 TCAAATTTT
48841269 TTTGGTGGGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (74 bp):
GAAAAATAATGAAAGTAATTCAACGGGAGATTAAAAATGGATAAAAAGCAATTGAGGTATGGGTT
TCAAATTTT
Found at i:48841819 original size:20 final size:20
Alignment explanation
Indices: 48841796--48841835 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
48841786 AATTTAAAGT
48841796 ACATTAAAACTTTATCTTTA
1 ACATTAAAACTTTATCTTTA
48841816 ACATTAAAACTTTATCTTTA
1 ACATTAAAACTTTATCTTTA
48841836 TCATGATGGA
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:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (20 bp):
ACATTAAAACTTTATCTTTA
Found at i:48844089 original size:26 final size:26
Alignment explanation
Indices: 48844053--48844162 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
48844043 TGATACAAAT
48844053 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
48844079 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
48844105 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
48844131 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
48844157 TGATAA
1 TGATAA
48844163 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:48849843 original size:26 final size:26
Alignment explanation
Indices: 48849807--48849916 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
48849797 TGATACAAAT
48849807 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
48849833 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
48849859 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
48849885 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
48849911 TGATAA
1 TGATAA
48849917 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:48852659 original size:3 final size:3
Alignment explanation
Indices: 48852651--48852685 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
48852641 TGTCATTTGC
48852651 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
48852686 AACACGTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:48863830 original size:50 final size:50
Alignment explanation
Indices: 48863775--48863877 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
48863765 TTAAAAGAAA
* *
48863775 AAAGAAAATATCCATAGATATTCAAATGAGTACGGTGTATTTTGCAATTC
1 AAAGAAAATATCCATAGATATTCAAACGAGTACGGTGTATTTTGAAATTC
48863825 AAAGAAAATATCCATAGATATTCAAACGAGTACGGTGTATTTTGAAATTC
1 AAAGAAAATATCCATAGATATTCAAACGAGTACGGTGTATTTTGAAATTC
48863875 AAA
1 AAA
48863878 TGATAACAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.30
Consensus pattern (50 bp):
AAAGAAAATATCCATAGATATTCAAACGAGTACGGTGTATTTTGAAATTC
Found at i:48874446 original size:13 final size:12
Alignment explanation
Indices: 48874428--48874487 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
48874418 AAATAATTCA
48874428 AAATTTAAAAAT
1 AAATTTAAAAAT
*
48874440 CAAATTT-AAACT
1 -AAATTTAAAAAT
**
48874452 AGAATTTAAATTT
1 A-AATTTAAAAAT
48874465 AAAATTTAAAAATT
1 -AAATTTAAAAA-T
48874479 AAATTTAAA
1 AAATTTAAA
48874488 CTAGAATTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 1 0.03
12 9 0.24
13 26 0.68
14 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (12 bp):
AAATTTAAAAAT
Found at i:48874459 original size:12 final size:12
Alignment explanation
Indices: 48874442--48874503 Score: 63
Period size: 12 Copynumber: 5.0 Consensus size: 12
48874432 TTAAAAATCA
48874442 AATTTAAACTAG
1 AATTTAAACTAG
* *
48874454 AATTTAAATTTAA
1 AATTTAAA-CTAG
*
48874467 AATTTAAAAATTA-
1 AATTT--AAACTAG
48874480 AATTTAAACTAG
1 AATTTAAACTAG
48874492 AATTTAAACTAG
1 AATTTAAACTAG
48874504 TTACAGAGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
11 5 0.12
12 20 0.47
13 12 0.28
14 3 0.07
15 3 0.07
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (12 bp):
AATTTAAACTAG
Found at i:48874469 original size:38 final size:38
Alignment explanation
Indices: 48874422--48874499 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
48874412 ATCACTAAAT
48874422 AATTCAAAATTTAAAAATCAAATTTAAACTAGAATTTA
1 AATTCAAAATTTAAAAATCAAATTTAAACTAGAATTTA
* *
48874460 AATTTAAAATTTAAAAATTAAATTTAAACTAGAATTTA
1 AATTCAAAATTTAAAAATCAAATTTAAACTAGAATTTA
48874498 AA
1 AA
48874500 CTAGTTACAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (38 bp):
AATTCAAAATTTAAAAATCAAATTTAAACTAGAATTTA
Found at i:48875065 original size:23 final size:23
Alignment explanation
Indices: 48875022--48875102 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
48875012 TAATGTTCAC
* *
48875022 GAACATGTTCATTTAA-TTTAATT
1 GAACATGTTCA-TGAACATTAATT
* *
48875045 GGACATGTTCATGAACATTAAAT
1 GAACATGTTCATGAACATTAATT
48875068 GAACATGTTCATGAACATATAATT
1 GAACATGTTCATGAACAT-TAATT
*
48875092 GAACATATTCA
1 GAACATGTTCA
48875103 CAATGTTAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 3 0.06
23 32 0.65
24 14 0.29
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (23 bp):
GAACATGTTCATGAACATTAATT
Found at i:48875081 original size:12 final size:12
Alignment explanation
Indices: 48875047--48875085 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
48875037 ATTTAATTGG
48875047 ACATGTTCATGA
1 ACATGTTCATGA
**
48875059 ACAT-TAAATGA
1 ACATGTTCATGA
48875070 ACATGTTCATGA
1 ACATGTTCATGA
48875082 ACAT
1 ACAT
48875086 ATAATTGAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (12 bp):
ACATGTTCATGA
Found at i:48875568 original size:22 final size:21
Alignment explanation
Indices: 48875542--48875591 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
48875532 AAATATTAAA
48875542 AATAATATTTTTAT-AATTTTTT
1 AATAAT-TTTTT-TGAATTTTTT
48875564 AATAATTTTTTTGAA-TTTTT
1 AATAATTTTTTTGAATTTTTT
48875584 AA-AATTTT
1 AATAATTTT
48875592 AAAAGATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.22
20 8 0.30
21 7 0.26
22 6 0.22
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
AATAATTTTTTTGAATTTTTT
Found at i:48891309 original size:14 final size:14
Alignment explanation
Indices: 48891290--48891316 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48891280 TACCAAAGCT
48891290 TGTCTAATTGATAG
1 TGTCTAATTGATAG
48891304 TGTCTAATTGATA
1 TGTCTAATTGATA
48891317 ATGTGTTGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (14 bp):
TGTCTAATTGATAG
Found at i:48896185 original size:13 final size:13
Alignment explanation
Indices: 48896167--48896194 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48896157 GCAATAGAAG
48896167 ATGAATTAGCTGA
1 ATGAATTAGCTGA
48896180 ATGAATTAGCTGA
1 ATGAATTAGCTGA
48896193 AT
1 AT
48896195 ATAGAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.32
Consensus pattern (13 bp):
ATGAATTAGCTGA
Found at i:48899626 original size:21 final size:21
Alignment explanation
Indices: 48899602--48899654 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
48899592 TGTTGCCATT
48899602 GCTGCTGCCTCTGCCTCCCTC
1 GCTGCTGCCTCTGCCTCCCTC
*
48899623 GCTGCTG-TTGCTGCCTCCCTC
1 GCTGCTGCCT-CTGCCTCCCTC
* *
48899644 ACTACTGCCTC
1 GCTGCTGCCTC
48899655 CGCTCTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.04, C:0.47, G:0.19, T:0.30
Consensus pattern (21 bp):
GCTGCTGCCTCTGCCTCCCTC
Found at i:48900090 original size:13 final size:14
Alignment explanation
Indices: 48900064--48900092 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48900054 ACTAACGACG
48900064 AATTAAACCATTAT
1 AATTAAACCATTAT
48900078 AATTAAA-CATTAT
1 AATTAAACCATTAT
48900091 AA
1 AA
48900093 ATATTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:48905145 original size:9 final size:9
Alignment explanation
Indices: 48905127--48905544 Score: 114
Period size: 9 Copynumber: 45.7 Consensus size: 9
48905117 TAAGTATAAT
48905127 TAAGTTATG
1 TAAGTTATG
*
48905136 TAAGTCATG
1 TAAGTTATG
48905145 T-A-TTATG
1 TAAGTTATG
48905152 TAAGTTATG
1 TAAGTTATG
*
48905161 TAAATTATG
1 TAAGTTATG
48905170 TAAGTTATG
1 TAAGTTATG
* *
48905179 -AATTTTGATCTT
1 TAA-GTT-A--TG
*
48905191 TAAATTATG
1 TAAGTTATG
48905200 TAAGTTATG
1 TAAGTTATG
48905209 T-A-TTATG
1 TAAGTTATG
48905216 TAAGTTATG
1 TAAGTTATG
* * *
48905225 AAATTTGATCTT
1 TAAGTT-A--TG
* *
48905237 TAAATTATTATA
1 T-AA--GTTATG
48905249 TAAGTTATG
1 TAAGTTATG
*
48905258 TAAATTATG
1 TAAGTTATG
*
48905267 TAACTTATG
1 TAAGTTATG
* *
48905276 AAATTTGATGG
1 TAAGTT-AT-G
*
48905287 ATTAAATTATG
1 --TAAGTTATG
48905298 TAAGTTATG
1 TAAGTTATG
*
48905307 -AAATT-TG
1 TAAGTTATG
* **
48905314 -AACTTTAAA
1 TAA-GTTATG
*
48905323 TTA-TTATG
1 TAAGTTATG
48905331 TAAGTTATG
1 TAAGTTATG
*
48905340 TAAATTATG
1 TAAGTTATG
*
48905349 TAACTTATG
1 TAAGTTATG
* * * *
48905358 AAATTTGGTCTT
1 TAA---GTTATG
*
48905370 TAAATTATG
1 TAAGTTATG
48905379 TAAGTTATG
1 TAAGTTATG
*
48905388 T-A-TCATG
1 TAAGTTATG
48905395 TAAGTTATG
1 TAAGTTATG
* * *
48905404 AAATTTGATCTT
1 TAAGTT-A--TG
*
48905416 TAAATTATG
1 TAAGTTATG
*
48905425 TAAGTCATG
1 TAAGTTATG
*
48905434 -CA-TTATG
1 TAAGTTATG
48905441 TAAGTTATG
1 TAAGTTATG
48905450 T-A-TTATG
1 TAAGTTATG
*
48905457 TAAGTTAAG
1 TAAGTTATG
*
48905466 TAAATTATG
1 TAAGTTATG
48905475 TAAGTTATG
1 TAAGTTATG
* * *
48905484 AAATTTGAACTT
1 TAAGTT--A-TG
*
48905496 TAAATTATG
1 TAAGTTATG
48905505 TAAGTTATG
1 TAAGTTATG
48905514 T-A-TTATG
1 TAAGTTATG
*
48905521 TAAATTATG
1 TAAGTTATG
*
48905530 TAAATTATG
1 TAAGTTATG
*
48905539 TGAGTT
1 TAAGTT
48905545 GCTGGTGAAC
Statistics
Matches: 298, Mismatches: 71, Indels: 80
0.66 0.16 0.18
Matches are distributed among these distances:
7 36 0.12
8 25 0.08
9 190 0.64
10 7 0.02
11 7 0.02
12 22 0.07
13 8 0.03
14 1 0.00
15 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:48905152 original size:16 final size:16
Alignment explanation
Indices: 48905131--48905531 Score: 117
Period size: 16 Copynumber: 25.0 Consensus size: 16
48905121 TATAATTAAG
*
48905131 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
48905147 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
*
48905165 TTATGTAAGTTATGAA
1 TTATGTAAGTTATGTA
* ** **
48905181 TTTTG-ATCTT-TAAA
1 TTATGTAAGTTATGTA
48905195 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
48905211 TTATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
**
48905228 TT-TG-ATCTTTAAAT-TA
1 TTATGTA-AGTT--ATGTA
*
48905244 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
* *
48905262 TTATGTAACTTATGAAA
1 TTATGTAAGTTATG-TA
* *
48905279 TT-TG-ATGGATTA--AA
1 TTATGTA-AG-TTATGTA
*
48905293 TTATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
*
48905310 TT-TG-AACTTTAAAT-TA
1 TTATGTAA-GTT--ATGTA
48905326 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
* *
48905344 TTATGTAACTTATGAAA
1 TTATGTAAGTTATG-TA
* **
48905361 TT-TG---GTCTTTAAA
1 TTATGTAAGT-TATGTA
48905374 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
48905390 TCATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
** **
48905407 TT-TG-ATCTT-TAAA
1 TTATGTAAGTTATGTA
* *
48905420 TTATGTAAGTCATGCA
1 TTATGTAAGTTATGTA
48905436 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
48905452 TTATGTAAGTTAAGTAAA
1 TTATGTAAGTTATGT--A
*
48905470 TTATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
* **
48905487 TT-TG-AACTT-TAAA
1 TTATGTAAGTTATGTA
48905500 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
48905516 TTATGTAAATTATGTA
1 TTATGTAAGTTATGTA
48905532 AATTATGTGA
Statistics
Matches: 283, Mismatches: 57, Indels: 90
0.66 0.13 0.21
Matches are distributed among these distances:
13 13 0.05
14 24 0.08
15 30 0.11
16 123 0.43
17 30 0.11
18 63 0.22
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:48905226 original size:46 final size:46
Alignment explanation
Indices: 48905146--48905449 Score: 310
Period size: 46 Copynumber: 6.7 Consensus size: 46
48905136 TAAGTCATGT
*
48905146 ATTATGTAAGTTATGTAAATTATGTAAGTTATGAATTTTGATCTTTAA
1 ATTATGTAAGTTATGT--ATTATGTAAGTTATGAAATTTGATCTTTAA
48905194 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAAA
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTT-AA
* * **
48905241 TTATTATATAAGTTATGTAAATTATGTAACTTATGAAATTTGATGGATTAA
1 --ATTATGTAAGTTATGT--ATTATGTAAGTTATGAAATTTGAT-CTTTAA
* **
48905292 ATTATGTAAGTTATG----A---AA-TT-TGAACTTT-A-AATT-A
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
* *
48905326 -TTATGTAAGTTATGTAAATTATGTAACTTATGAAATTTGGTCTTTAA
1 ATTATGTAAGTTATGT--ATTATGTAAGTTATGAAATTTGATCTTTAA
*
48905373 ATTATGTAAGTTATGTATCATGTAAGTTATGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
* *
48905419 ATTATGTAAGTCATGCATTATGTAAGTTATG
1 ATTATGTAAGTTATGTATTATGTAAGTTATG
48905450 TATTATGTAA
Statistics
Matches: 217, Mismatches: 18, Indels: 44
0.78 0.06 0.16
Matches are distributed among these distances:
33 14 0.06
34 1 0.00
35 3 0.01
37 1 0.00
38 7 0.03
39 3 0.01
40 2 0.01
42 2 0.01
43 3 0.01
44 7 0.03
46 84 0.39
47 3 0.01
48 31 0.14
49 29 0.13
51 25 0.12
52 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (46 bp):
ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
Found at i:48905305 original size:82 final size:81
Alignment explanation
Indices: 48905210--48905387 Score: 302
Period size: 82 Copynumber: 2.2 Consensus size: 81
48905200 TAAGTTATGT
*
48905210 ATTATGTAAGTTATGAAATTTGATCTTTAAATTATTATATAAGTTATGTAAATTATGTAACTTAT
1 ATTATGTAAGTTATGAAATTTGAACTTTAAATTATTATATAAGTTATGTAAATTATGTAACTTAT
*
48905275 GAAATTTGATGGATTAA
66 GAAATTTGAT-CATTAA
*
48905292 ATTATGTAAGTTATGAAATTTGAACTTTAAATTATTATGTAAGTTATGTAAATTATGTAACTTAT
1 ATTATGTAAGTTATGAAATTTGAACTTTAAATTATTATATAAGTTATGTAAATTATGTAACTTAT
* *
48905357 GAAATTTGGTCTTTAA
66 GAAATTTGATCATTAA
48905373 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
48905388 TATCATGTAA
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
81 19 0.21
82 72 0.79
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.46
Consensus pattern (81 bp):
ATTATGTAAGTTATGAAATTTGAACTTTAAATTATTATATAAGTTATGTAAATTATGTAACTTAT
GAAATTTGATCATTAA
Found at i:48905348 original size:51 final size:51
Alignment explanation
Indices: 48905289--48905423 Score: 199
Period size: 51 Copynumber: 2.7 Consensus size: 51
48905279 TTTGATGGAT
*
48905289 TAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATTATGTAAGTTATG
1 TAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATTATGTAAGTTATG
* *
48905340 TAAATTATGTAACTTATGAAATTTGGTCTTT-AA--ATTATGTAAGTTATG
1 TAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATTATGTAAGTTATG
*
48905388 T--ATCATGTAAGTTATGAAATTTGATCTTTAAATTAT
1 TAAATTATGTAAGTTATGAAATTTGATCTTTAAATTAT
48905424 GTAAGTCATG
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
46 25 0.33
47 2 0.03
48 16 0.21
49 2 0.03
50 2 0.03
51 28 0.37
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (51 bp):
TAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATTATGTAAGTTATG
Found at i:48905484 original size:80 final size:78
Alignment explanation
Indices: 48905373--48905531 Score: 246
Period size: 80 Copynumber: 2.0 Consensus size: 78
48905363 TGGTCTTTAA
* *
48905373 ATTATGTAAGTTATGTATCATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGCATT
1 ATTATGTAAGTTAAGTATCATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGCATT
*
48905438 ATGTAAGTTATGT
66 ATGTAAATTATGT
* * *
48905451 ATTATGTAAGTTAAGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGTA
1 ATTATGTAAGTTAAGT--ATCATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGCA
48905516 TTATGTAAATTATGT
64 TTATGTAAATTATGT
48905531 A
1 A
48905532 AATTATGTGA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
78 15 0.21
80 58 0.79
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (78 bp):
ATTATGTAAGTTAAGTATCATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGCATT
ATGTAAATTATGT
Found at i:48905513 original size:30 final size:30
Alignment explanation
Indices: 48905258--48905429 Score: 102
Period size: 31 Copynumber: 5.5 Consensus size: 30
48905248 ATAAGTTATG
* ***
48905258 TAAATTATGTAACTTATGAAATTTGATGGAT
1 TAAATTATGTAAGTTATGAAATTTGA-ACTT
48905289 TAAATTATGTAAGTTATGAAATTTGAACTT
1 TAAATTATGTAAGTTATGAAATTTGAACTT
48905319 TAAATTATTATGTAAGTTATGTAAATTATGTAACTT
1 T-AA--ATTATGTAAGTTATG-AAATT-TG-AACTT
* *
48905355 ATGAAATT-TG---GTCT-TTAAATTATGTAAGTT
1 -T-AAATTATGTAAGT-TATGAAATT-TG-AACTT
** * *
48905385 ATGTATCATGTAAGTTATGAAATTTGATCTT
1 -TAAATTATGTAAGTTATGAAATTTGAACTT
48905416 TAAATTATGTAAGT
1 TAAATTATGTAAGT
48905430 CATGCATTAT
Statistics
Matches: 112, Mismatches: 16, Indels: 27
0.72 0.10 0.17
Matches are distributed among these distances:
29 2 0.02
30 30 0.27
31 33 0.29
32 4 0.04
33 23 0.21
34 7 0.06
35 5 0.04
36 5 0.04
37 3 0.03
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (30 bp):
TAAATTATGTAAGTTATGAAATTTGAACTT
Found at i:48905583 original size:17 final size:17
Alignment explanation
Indices: 48905563--48905596 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48905553 ACTTGAAAAA
48905563 ATATATTACTTTTGAAT
1 ATATATTACTTTTGAAT
48905580 ATATATTACTTTTGAAT
1 ATATATTACTTTTGAAT
48905597 TAGAAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
ATATATTACTTTTGAAT
Found at i:48907058 original size:14 final size:14
Alignment explanation
Indices: 48907039--48907067 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
48907029 ATACAATTTA
48907039 ATTTTACTTCATAT
1 ATTTTACTTCATAT
48907053 ATTTTACTTCATAT
1 ATTTTACTTCATAT
48907067 A
1 A
48907068 ATTATTATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTACTTCATAT
Found at i:48908069 original size:27 final size:26
Alignment explanation
Indices: 48908039--48908217 Score: 94
Period size: 27 Copynumber: 6.7 Consensus size: 26
48908029 TTAGTTTACC
48908039 AAATTACTGAAATACCCTTGACTTGTA
1 AAATTACTGAAATACCCTTGA-TTGTA
*
48908066 AAATTAC-CAAAGTACCCTTGATT-TACA
1 AAATTACTGAAA-TACCCTTGATTGT--A
* * **
48908093 AAATTATTGAAATACCCCTGTAGGGTA
1 AAATTACTGAAATACCCTTG-ATTGTA
* * **
48908120 GAATTACTGAAATACCCCTGTAGGGTA
1 AAATTACTGAAATACCCTTG-ATTGTA
* **
48908147 GAATTACTGAAATATCCC-TGTAGGGTA
1 AAATTACTGAAATA-CCCTTG-ATTGTA
* * **
48908174 GAATTACCGAAATACCCTTGTAGGGTA
1 AAATTACTGAAATACCCTTG-ATTGTA
* *
48908201 AAAATACCGAAATACCC
1 AAATTACTGAAATACCC
48908218 CTATAGGGTA
Statistics
Matches: 133, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.01
26 8 0.06
27 116 0.87
28 7 0.05
29 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (26 bp):
AAATTACTGAAATACCCTTGATTGTA
Found at i:48908125 original size:54 final size:54
Alignment explanation
Indices: 48908039--48908261 Score: 197
Period size: 54 Copynumber: 4.1 Consensus size: 54
48908029 TTAGTTTACC
* ** * **
48908039 AAATTACTGAAATACCCTTG-ACTTGTAAAATTACCAAAGTACCCTTG-A-TTTACA
1 AAATTACTGAAATACCCCTGTA-GGGTAGAATTACCAAA-TACCCTTGTAGGGTA-A
* * *
48908093 AAATTATTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGT-A
1 AAATTACTGAAATACCCCTGTAGGGTAGAATTAC-CAAATACCCTTGTAGGGTAA
* *
48908147 GAATTACTGAAATATCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAA
1 AAATTACTGAAATACCCCTGTAGGGTAGAATTACC-AAATACCCTTGTAGGGTAA
* * * * * *
48908202 AAA-TACCGAAATACCCCTATAGGGTAGAATTATCGAGATACCATTGTGGGGT-A
1 AAATTACTGAAATACCCCTGTAGGGTAGAATTA-CCAAATACCCTTGTAGGGTAA
48908255 AAATTAC
1 AAATTAC
48908262 CATTTTGCCC
Statistics
Matches: 139, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
53 4 0.03
54 125 0.90
55 9 0.06
56 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (54 bp):
AAATTACTGAAATACCCCTGTAGGGTAGAATTACCAAATACCCTTGTAGGGTAA
Found at i:48908224 original size:27 final size:27
Alignment explanation
Indices: 48908101--48908262 Score: 207
Period size: 27 Copynumber: 6.0 Consensus size: 27
48908091 CAAAATTATT
*
48908101 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
48908128 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
48908155 GAAATATCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
48908182 GAAATACCCTTGTAGGGTAAAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48908209 GAAATACCCCTATAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* ** * *
48908236 GAGATACCATTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
48908263 ATTTTGCCCT
Statistics
Matches: 117, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:48908622 original size:26 final size:27
Alignment explanation
Indices: 48908586--48908652 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
48908576 ACCGATCGAT
*
48908586 GGCTGAGTGCCAATCAT-GTTACCGAA
1 GGCTGTGTGCCAATCATAGTTACCGAA
* * * *
48908612 GGCTGTGTGCCAAACATATTTGCCTAA
1 GGCTGTGTGCCAATCATAGTTACCGAA
48908639 GGCTGTGTGCCAAT
1 GGCTGTGTGCCAAT
48908653 ATATGATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 15 0.44
27 19 0.56
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (27 bp):
GGCTGTGTGCCAATCATAGTTACCGAA
Found at i:48908688 original size:32 final size:32
Alignment explanation
Indices: 48908651--48908716 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
48908641 CTGTGTGCCA
48908651 ATATATGATTATTGACGACTCGTGTCTATCAT
1 ATATATGATTATTGACGACTCGTGTCTATCAT
*
48908683 ATATATGATTATTGATGACTCGTGTCTATCAT
1 ATATATGATTATTGACGACTCGTGTCTATCAT
48908715 AT
1 AT
48908717 TTACTCAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (32 bp):
ATATATGATTATTGACGACTCGTGTCTATCAT
Found at i:48908859 original size:22 final size:22
Alignment explanation
Indices: 48908807--48908869 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
48908797 GCCAATTATT
*
48908807 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
48908829 CT-ACGTATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
48908851 CTGATTATGG-TTGTGTGCC
1 CTGATTATGGCTT-TGTGCC
48908870 GTTATTGTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 3 0.09
22 31 0.89
23 1 0.03
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:48908966 original size:27 final size:26
Alignment explanation
Indices: 48908936--48909016 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 26
48908926 ATTCTGTTAA
* *
48908936 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
48908963 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
48908990 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
48909016 G
1 G
48909017 AAGCCATGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 6 0.12
27 43 0.88
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:48909143 original size:6 final size:6
Alignment explanation
Indices: 48909134--48909238 Score: 54
Period size: 6 Copynumber: 16.8 Consensus size: 6
48909124 TTGTATTCAC
* * * **
48909134 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG -TCACCAA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
48909184 ATTCTG ATTCTG ATTTTGG ATTCTG ATTCT- ATCACTTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCT-G ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG
48909234 ATTCT
1 ATTCT
48909239 CATTTTAATT
Statistics
Matches: 73, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
5 5 0.07
6 54 0.74
7 10 0.14
8 4 0.05
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:48909193 original size:25 final size:25
Alignment explanation
Indices: 48909134--48909198 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
48909124 TTGTATTCAC
* **
48909134 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCAA
* *
48909159 ATACTAATTCTGATTCTGTCACCAA
1 ATTCTGATTCTGATTCTGTCACCAA
48909184 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
48909199 TTGGATTCTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCAA
Found at i:48911926 original size:37 final size:37
Alignment explanation
Indices: 48911872--48911989 Score: 148
Period size: 37 Copynumber: 3.2 Consensus size: 37
48911862 CTATGCAGCA
**
48911872 GATGCACGGGGCCAAGGCGATGGAGGAGATGGGTTGC
1 GATGCACGGGGAGAAGGCGATGGAGGAGATGGGTTGC
* * *
48911909 GATGCATGGGGTGAAGGCGATGGAAGG-GATGGTTTGC
1 GATGCACGGGGAGAAGGCGATGG-AGGAGATGGGTTGC
* *
48911946 GATGCACGGGGAGAAGGCGACGGAGGAGATGGGTAGC
1 GATGCACGGGGAGAAGGCGATGGAGGAGATGGGTTGC
*
48911983 AATGCAC
1 GATGCAC
48911990 AGGAGATTTG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
36 3 0.04
37 63 0.91
38 3 0.04
ACGTcount: A:0.25, C:0.14, G:0.47, T:0.14
Consensus pattern (37 bp):
GATGCACGGGGAGAAGGCGATGGAGGAGATGGGTTGC
Found at i:48912813 original size:15 final size:15
Alignment explanation
Indices: 48912790--48912821 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48912780 AAATAATAAT
48912790 TTATATATATTTATC
1 TTATATATATTTATC
*
48912805 TTATTTATATTTATC
1 TTATATATATTTATC
48912820 TT
1 TT
48912822 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:48912932 original size:14 final size:15
Alignment explanation
Indices: 48912898--48912936 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
48912888 CATGAACACC
*
48912898 AAACACCAAACCTTA
1 AAACCCCAAACCTTA
*
48912913 AAACCCCAAA-CTTT
1 AAACCCCAAACCTTA
48912927 AAACCCCAAA
1 AAACCCCAAA
48912937 ATCATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (15 bp):
AAACCCCAAACCTTA
Found at i:48913910 original size:105 final size:105
Alignment explanation
Indices: 48913728--48913917 Score: 301
Period size: 105 Copynumber: 1.8 Consensus size: 105
48913718 ATCTATAACC
* * * *
48913728 ACTTTTGCGGCGTTATTATAGAAGCGCCGCTAATTCTTATATATTGCGGCGTTTTTAGTAAAATG
1 ACTTTTGCGGCGTTATTAAAGAAGCGCCGCTAATTCTAATATATTGCGGCGTTTTAAGTAAAACG
48913793 CCACTAATGCCTCTATAGCTACGTCGTCGTTTCTCTCAAG
66 CCACTAATGCCTCTATAGCTACGTCGTCGTTTCTCTCAAG
* * *
48913833 ACTTTTGCGGCGTT-TCTAAAGAAGCGTCGTTAATTCTAATATATTGTGGCGTTTTAAGTAAAAC
1 ACTTTTGCGGCGTTAT-TAAAGAAGCGCCGCTAATTCTAATATATTGCGGCGTTTTAAGTAAAAC
48913897 GCCACTAATGCCTCTATAGCT
65 GCCACTAATGCCTCTATAGCT
48913918 CATTAACATA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
104 1 0.01
105 76 0.99
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (105 bp):
ACTTTTGCGGCGTTATTAAAGAAGCGCCGCTAATTCTAATATATTGCGGCGTTTTAAGTAAAACG
CCACTAATGCCTCTATAGCTACGTCGTCGTTTCTCTCAAG
Found at i:48914847 original size:62 final size:62
Alignment explanation
Indices: 48914778--48914902 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
48914768 TTTTTATCAG
* * * *
48914778 TATAAACCTTTTTTTGTTGTATTATATAGGTTTTGAGAAGTTGATGTCATGTTTATGTTATT
1 TATAAACCTTTTTATGTTGTATTATATAGATTTTGAGAAGTTCATATCATGTTTATGTTATT
* * * **
48914840 TATAAACCTTTTTATGTTGTTTTATATTGATTTTGAGATGTTCATATTGTGTTTATGTTATT
1 TATAAACCTTTTTATGTTGTATTATATAGATTTTGAGAAGTTCATATCATGTTTATGTTATT
48914902 T
1 T
48914903 TTATGTCATA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (62 bp):
TATAAACCTTTTTATGTTGTATTATATAGATTTTGAGAAGTTCATATCATGTTTATGTTATT
Found at i:48915063 original size:23 final size:23
Alignment explanation
Indices: 48915033--48915079 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
48915023 ATATTTTTAA
48915033 AATTTTAAACTAATTTGCATTTT
1 AATTTTAAACTAATTTGCATTTT
48915056 AATTTTAAACTAATTTGCATTTT
1 AATTTTAAACTAATTTGCATTTT
48915079 A
1 A
48915080 TGCTACATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (23 bp):
AATTTTAAACTAATTTGCATTTT
Found at i:48918205 original size:28 final size:28
Alignment explanation
Indices: 48918161--48918268 Score: 112
Period size: 28 Copynumber: 3.9 Consensus size: 28
48918151 AATATGACCG
* * *
48918161 TTACAATATAACCGTTGGAATCTAAG-TA
1 TTACAATATGACTGTTGGAATCT-GGCTA
* *
48918189 TTACAATATGACTGTTGGAATCTGGTTG
1 TTACAATATGACTGTTGGAATCTGGCTA
* *
48918217 TTACAATAT-AGCTGTTGGAATTTGGCCA
1 TTACAATATGA-CTGTTGGAATCTGGCTA
*
48918245 TTACAATATGACTGTTGGGATCTG
1 TTACAATATGACTGTTGGAATCTG
48918269 ACCGTTGCAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 64 0.96
29 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (28 bp):
TTACAATATGACTGTTGGAATCTGGCTA
Found at i:48918279 original size:28 final size:28
Alignment explanation
Indices: 48918158--48918282 Score: 110
Period size: 28 Copynumber: 4.5 Consensus size: 28
48918148 AAAAATATGA
* * *
48918158 CCGTTACAATATAACCGTTGGAATCTAAG
1 CCGTTACAATATGACTGTTGGAATCT-GG
**
48918187 -TATTACAATATGACTGTTGGAATCTGG
1 CCGTTACAATATGACTGTTGGAATCTGG
** *
48918214 TTGTTACAATAT-AGCTGTTGGAATTTGG
1 CCGTTACAATATGA-CTGTTGGAATCTGG
* * *
48918242 CCATTACAATATGACTGTTGGGATCTGA
1 CCGTTACAATATGACTGTTGGAATCTGG
*
48918270 CCGTTGCAATATG
1 CCGTTACAATATG
48918283 GTCAGTTAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
27 2 0.03
28 75 0.96
29 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (28 bp):
CCGTTACAATATGACTGTTGGAATCTGG
Found at i:48921923 original size:23 final size:25
Alignment explanation
Indices: 48921893--48921938 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
48921883 AAATTGCTTC
48921893 TAAATCTA-TATATATAT-GTTTTG
1 TAAATCTATTATATATATAGTTTTG
*
48921916 TAAATCTATTATGTATATAGTTT
1 TAAATCTATTATATATATAGTTT
48921939 ATTTCCTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 8 0.40
25 4 0.20
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (25 bp):
TAAATCTATTATATATATAGTTTTG
Found at i:48933208 original size:42 final size:43
Alignment explanation
Indices: 48933110--48933210 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
48933100 ATATCCCATA
*
48933110 ATAATATCCTATAATATCCTATTAGGAATAAAATTTCTAAGAG
1 ATAATATCCTATAATATCCTATTAGGAATAAAATTTCTAAAAG
* * * *
48933153 ATAATATCTTATAATATCTTTTTAGGAAT-CAATTTGCTAAAAG
1 ATAATATCCTATAATATCCTATTAGGAATAAAATTT-CTAAAAG
48933196 AT-ATATCCTATAATA
1 ATAATATCCTATAATA
48933211 ATATCTTAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 17 0.33
43 34 0.67
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.39
Consensus pattern (43 bp):
ATAATATCCTATAATATCCTATTAGGAATAAAATTTCTAAAAG
Found at i:48934982 original size:20 final size:18
Alignment explanation
Indices: 48934930--48934983 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
48934920 ATATAAAAGA
48934930 TAAATATTAAATTAA-AT
1 TAAATATTAAATTAATAT
48934947 TAAATATTAAGA-TAATCACT
1 TAAATATTAA-ATTAAT-A-T
*
48934967 TCAATATTAAATTAATA
1 TAAATATTAAATTAATA
48934984 AAATACTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 13 0.42
18 1 0.03
19 3 0.10
20 14 0.45
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAATATTAAATTAATAT
Found at i:48935041 original size:68 final size:70
Alignment explanation
Indices: 48934899--48935043 Score: 170
Period size: 68 Copynumber: 2.1 Consensus size: 70
48934889 ATATTAAATC
* * *
48934899 TATTAAATTAATAGAATACTTATATAAAAGATAAATATTAAATTAAATTAAATATTAAGATAATC
1 TATTAAATTAATAAAATAC-T-TATAAAAGATAAATATTAAATTAAATTAAATATTAAAATAATA
**
48934964 ACTTCAA
64 AAATCAA
* * *
48934971 TATTAAATTAATAAAATAC-TAT-CAAGATAAGTATTAAATTAAATTTAATATTAAAACTAATAA
1 TATTAAATTAATAAAATACTTATAAAAGATAAATATTAAATTAAATTAAATATTAAAA-TAATAA
48935034 AAT-AA
65 AATCAA
48935039 TATTA
1 TATTA
48935044 TTTTTGAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
68 37 0.58
69 9 0.14
72 18 0.28
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (70 bp):
TATTAAATTAATAAAATACTTATAAAAGATAAATATTAAATTAAATTAAATATTAAAATAATAAA
ATCAA
Found at i:48936654 original size:4 final size:4
Alignment explanation
Indices: 48936639--48936670 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
48936629 GAAATGTTAA
48936639 ATTT ACTTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATT
48936671 CATCGTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:48940763 original size:12 final size:12
Alignment explanation
Indices: 48940748--48940772 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48940738 TATTTATTGG
48940748 TTTTTCTTTTTT
1 TTTTTCTTTTTT
48940760 TTTTTCTTTTTT
1 TTTTTCTTTTTT
48940772 T
1 T
48940773 CTCACTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:48941036 original size:18 final size:18
Alignment explanation
Indices: 48940994--48941038 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
48940984 ATATTTTTTC
48940994 ATTATTATTATTATTTGT
1 ATTATTATTATTATTTGT
*
48941012 ATCATTATTATTATTTGCT
1 ATTATTATTATTATTTG-T
48941031 -TTATTATT
1 ATTATTATT
48941039 TATTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (18 bp):
ATTATTATTATTATTTGT
Found at i:48943320 original size:21 final size:20
Alignment explanation
Indices: 48943294--48943337 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
48943284 ATAATTAGAA
*
48943294 TAATTAGAATT-ATTTCTTTAT
1 TAATTAAAATTCATTT-TTT-T
48943315 TAATTAAAATTCATTTTTTT
1 TAATTAAAATTCATTTTTTT
48943335 TAA
1 TAA
48943338 AAATCATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 13 0.62
22 4 0.19
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (20 bp):
TAATTAAAATTCATTTTTTT
Found at i:48945510 original size:17 final size:18
Alignment explanation
Indices: 48945470--48945513 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
48945460 GTTTTTGCAG
48945470 ATTTGATTTTAATACTTTA
1 ATTT-ATTTTAATACTTTA
* *
48945489 CTTTATTTTATTA-TTTA
1 ATTTATTTTAATACTTTA
48945506 ATTTATTT
1 ATTTATTT
48945514 ATTTTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 11 0.50
18 8 0.36
19 3 0.14
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTATTTTAATACTTTA
Found at i:48945531 original size:21 final size:21
Alignment explanation
Indices: 48945485--48945536 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
48945475 ATTTTAATAC
48945485 TTTACTTTATTTTATTATTTAA
1 TTTACTTTATTTTATTATTT-A
48945507 TTTA-TTTATTTTATTATGATT-
1 TTTACTTTATTTTATTAT--TTA
48945528 TTTACTTTA
1 TTTACTTTA
48945537 AATTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 17 0.63
22 8 0.30
23 2 0.07
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTACTTTATTTTATTATTTA
Found at i:48945862 original size:18 final size:18
Alignment explanation
Indices: 48945836--48945873 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
48945826 CATGTGCATA
*
48945836 TTTTGTCATTATTATTAT
1 TTTTATCATTATTATTAT
48945854 TTTTATCATTATTATTAT
1 TTTTATCATTATTATTAT
48945872 TT
1 TT
48945874 ACTTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTATCATTATTATTAT
Found at i:48945866 original size:15 final size:14
Alignment explanation
Indices: 48945846--48945885 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
48945836 TTTTGTCATT
48945846 ATTATTATTTTTATC
1 ATTATTATTTTTA-C
48945861 ATTATTATTATTTAC
1 ATTATTATT-TTTAC
*
48945876 TTTATTATTT
1 ATTATTATTT
48945886 ACTTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 18 0.78
16 4 0.17
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTATTATTTTTAC
Found at i:48945880 original size:12 final size:12
Alignment explanation
Indices: 48945865--48945893 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
48945855 TTTATCATTA
48945865 TTATTATTTACT
1 TTATTATTTACT
48945877 TTATTATTTACT
1 TTATTATTTACT
48945889 TTATT
1 TTATT
48945894 TTTTTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATTATTTACT
Found at i:48947056 original size:29 final size:27
Alignment explanation
Indices: 48947014--48947073 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
48947004 AATAAACCAT
*
48947014 TTTTTTCAAATTAC-AGAAATAGGCCAAA
1 TTTTTTAAAATTACAAG-AATAGGCC-AA
*
48947042 TTTTTTAAAATTTACAAGAATGGGCCAA
1 TTTTTTAAAA-TTACAAGAATAGGCCAA
48947070 TTTT
1 TTTT
48947074 GGTAAAACGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 15 0.54
29 11 0.39
30 2 0.07
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (27 bp):
TTTTTTAAAATTACAAGAATAGGCCAA
Found at i:48949102 original size:24 final size:24
Alignment explanation
Indices: 48949074--48949125 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
48949064 TTAGTAGGTC
* *
48949074 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
48949098 AAATATATTATATTAATAAATACT
1 AAATAAACTATACTAATAAATACT
48949122 AAAT
1 AAAT
48949126 CTTTTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:48983874 original size:32 final size:32
Alignment explanation
Indices: 48983838--48983900 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
48983828 CTAGCTGATC
* * * *
48983838 TTAGAATCAATATTAGTTGGGCCTATCCCATA
1 TTAGAACCAATATCAGTTGCGCCTAGCCCATA
48983870 TTAGAACCAATATCAGTTGCGCCTAGCCCAT
1 TTAGAACCAATATCAGTTGCGCCTAGCCCAT
48983901 TTCAATATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (32 bp):
TTAGAACCAATATCAGTTGCGCCTAGCCCATA
Found at i:48984277 original size:27 final size:26
Alignment explanation
Indices: 48984235--48984325 Score: 110
Period size: 27 Copynumber: 3.4 Consensus size: 26
48984225 AGGCATAATC
*
48984235 GTCATTTTACCATACAGGGTTATTACG
1 GTCATTTTACCCTACAGGG-TATTACG
*
48984262 GTCATTTTACCCTACATGGGTATTACA
1 GTCATTTTACCCTACA-GGGTATTACG
* * *
48984289 ATCGTTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACA-GGGTATTACG
48984316 GTCATTTTAC
1 GTCATTTTAC
48984326 TAATTTTGAG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 51 0.94
28 3 0.06
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGTATTACG
Found at i:49003182 original size:20 final size:20
Alignment explanation
Indices: 49003145--49003182 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49003135 TGTGGTTTCC
**
49003145 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTCCCTTGGG
49003165 ACACGCCCGTGTCCCTTG
1 ACACGCCCGTGTCCCTTG
49003183 TCCGTGGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.37, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTCCCTTGGG
Found at i:49004981 original size:37 final size:37
Alignment explanation
Indices: 49004931--49005009 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
49004921 TTATTACGAA
* *
49004931 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
49004968 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
49005005 GTCTT
1 GTCTT
49005010 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:49005206 original size:47 final size:47
Alignment explanation
Indices: 49005128--49005658 Score: 810
Period size: 47 Copynumber: 11.4 Consensus size: 47
49005118 CCCTTCGGGA
* * * * * * *
49005128 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49005175 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49005222 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49005269 CTTATTACATATATACACTTTCACATTCATCACAT----C-----GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49005307 CTTATCACATATATATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49005354 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49005401 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49005450 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49005499 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49005546 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49005593 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49005640 CTTATCACATATATACACT
1 CTTATCACATATATACACT
49005659 GTCTTGGCTA
Statistics
Matches: 448, Mismatches: 25, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
38 35 0.08
43 1 0.00
47 318 0.71
49 94 0.21
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49015613 original size:19 final size:20
Alignment explanation
Indices: 49015589--49015637 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
49015579 ACAAAACATG
49015589 TTAACATGAATTAA-ATAAA
1 TTAACATGAATTAATATAAA
49015608 TTAACATGAATTAATATAAA
1 TTAACATGAATTAATATAAA
49015628 TTAACATGAA
1 TTAACATGAA
49015638 AATCATGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (20 bp):
TTAACATGAATTAATATAAA
Found at i:49015619 original size:10 final size:10
Alignment explanation
Indices: 49015589--49015637 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
49015579 ACAAAACATG
49015589 TTAACATGAA
1 TTAACATGAA
*
49015599 TTAA-ATAAA
1 TTAACATGAA
49015608 TTAACATGAA
1 TTAACATGAA
* *
49015618 TTAATATAAA
1 TTAACATGAA
49015628 TTAACATGAA
1 TTAACATGAA
49015638 AATCATGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (10 bp):
TTAACATGAA
Found at i:49017214 original size:42 final size:42
Alignment explanation
Indices: 49017154--49017234 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
49017144 AAAAAAAGAG
* *
49017154 TCACATGGCTTGGACACACACCTGTGTCCTTGCCTGTGTAAC
1 TCACACGGCCTGGACACACACCTGTGTCCTTGCCTGTGTAAC
* * * * *
49017196 TCACACGGCCTGGGCACACGCTTGTGTGCTTGCTTGTGT
1 TCACACGGCCTGGACACACACCTGTGTCCTTGCCTGTGT
49017235 GGTCCAAAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (42 bp):
TCACACGGCCTGGACACACACCTGTGTCCTTGCCTGTGTAAC
Found at i:49018243 original size:27 final size:27
Alignment explanation
Indices: 49018213--49018267 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
49018203 ACGGATAAGG
49018213 ATAGTTTTTAAAATAATAAAGCTTTTA
1 ATAGTTTTTAAAATAATAAAGCTTTTA
49018240 ATAGTTTTTAAAATAATAAAGCTTTTA
1 ATAGTTTTTAAAATAATAAAGCTTTTA
49018267 A
1 A
49018268 CGATACGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (27 bp):
ATAGTTTTTAAAATAATAAAGCTTTTA
Found at i:49019912 original size:20 final size:19
Alignment explanation
Indices: 49019874--49019910 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
49019864 AAAATAAAAT
49019874 AAAATTTAAAATATTTATA
1 AAAATTTAAAATATTTATA
*
49019893 AAAATTTCAAA-ATTTATA
1 AAAATTTAAAATATTTATA
49019911 TATTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTTAAAATATTTATA
Found at i:49019929 original size:17 final size:16
Alignment explanation
Indices: 49019907--49019939 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
49019897 TTTCAAAATT
49019907 TATATATTTTTATAAAA
1 TATATATTTTT-TAAAA
49019924 TATATATTTTTTAAAA
1 TATATATTTTTTAAAA
49019940 AAATTCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATTTTTTAAAA
Found at i:49019940 original size:17 final size:19
Alignment explanation
Indices: 49019901--49019940 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
49019891 TAAAAATTTC
*
49019901 AAAATTTATATATTTTTAT
1 AAAATATATATATTTTTAT
49019920 AAAATATATAT-TTTTTA-
1 AAAATATATATATTTTTAT
49019937 AAAA
1 AAAA
49019941 AATTCTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 6 0.30
19 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAATATATATATTTTTAT
Found at i:49019943 original size:19 final size:19
Alignment explanation
Indices: 49019901--49019941 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
49019891 TAAAAATTTC
* *
49019901 AAAATTTATATATTTTTAT
1 AAAATATATATATTTTTAA
49019920 AAAATATATAT-TTTTTAA
1 AAAATATATATATTTTTAA
49019938 AAAA
1 AAAA
49019942 ATTCTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAATATATATATTTTTAA
Found at i:49020621 original size:21 final size:21
Alignment explanation
Indices: 49020582--49020621 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49020572 ATTATTTATT
*
49020582 ATATGCTATTTTGAAACATAA
1 ATATGCTATTTTAAAACATAA
49020603 ATATG-TATTTTAAATACAT
1 ATATGCTATTTTAAA-ACAT
49020622 GGTTTCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.42
Consensus pattern (21 bp):
ATATGCTATTTTAAAACATAA
Found at i:49020759 original size:16 final size:16
Alignment explanation
Indices: 49020718--49020759 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
49020708 TAGGGTACTA
49020718 ATATTTTTATATAATT
1 ATATTTTTATATAATT
*
49020734 AAATTTTTATAT-ATCT
1 ATATTTTTATATAAT-T
*
49020750 ATATTGTTAT
1 ATATTTTTAT
49020760 TTAAGCCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
ATATTTTTATATAATT
Found at i:49029269 original size:38 final size:38
Alignment explanation
Indices: 49029226--49029301 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
49029216 TTCATCCTTT
49029226 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
49029264 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
49029302 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:49030581 original size:40 final size:40
Alignment explanation
Indices: 49030487--49030631 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
49030477 TACTCGAATG
*
49030487 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
49030528 ACATCAGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
49030568 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
49030608 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
49030632 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:49042498 original size:23 final size:23
Alignment explanation
Indices: 49042472--49042530 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
49042462 CTTAGCTCTT
49042472 TATTAAAAATATACTGAAAATCA
1 TATTAAAAATATACTGAAAATCA
49042495 TATTAAAAATATACTGAAAATCA
1 TATTAAAAATATACTGAAAATCA
49042518 TATTAAAAATATA
1 TATTAAAAATATA
49042531 TCTTAGTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (23 bp):
TATTAAAAATATACTGAAAATCA
Found at i:49042531 original size:11 final size:11
Alignment explanation
Indices: 49042472--49042531 Score: 66
Period size: 11 Copynumber: 5.3 Consensus size: 11
49042462 CTTAGCTCTT
49042472 TATTAAAAATA
1 TATTAAAAATA
* *
49042483 TACTGAAAATCA
1 TATTAAAAAT-A
49042495 TATTAAAAATA
1 TATTAAAAATA
* *
49042506 TACTGAAAATCA
1 TATTAAAAAT-A
49042518 TATTAAAAATA
1 TATTAAAAATA
49042529 TAT
1 TAT
49042532 CTTAGTTCTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 21 0.54
12 18 0.46
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:49051399 original size:84 final size:83
Alignment explanation
Indices: 49051291--49051457 Score: 262
Period size: 84 Copynumber: 2.0 Consensus size: 83
49051281 TATTTGTTCC
* * *
49051291 CATACGAAGAAGGAACGATCCTAAGAAGTCAATGCCCTATACGTCGAATAATTAAATCTCTAAAA
1 CATACGAAGAAGGAACGATCCTAAGAAGTCAATGCCCCATACATCGAATAATTAAATCTCCAAAA
*
49051356 TGTTTGTCAAGGGCATCT
66 TGTTTATCAAGGGCATCT
* * *
49051374 CATACGAAGAAGGGAACGGTCCTAAGAAGTCAGTGCCCCATACATCGAATAATTCAATCTCCAAA
1 CATACGAAGAA-GGAACGATCCTAAGAAGTCAATGCCCCATACATCGAATAATTAAATCTCCAAA
49051439 ATGTTTATCAAGGGCATCT
65 ATGTTTATCAAGGGCATCT
49051458 AATTCCTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
83 11 0.14
84 65 0.86
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (83 bp):
CATACGAAGAAGGAACGATCCTAAGAAGTCAATGCCCCATACATCGAATAATTAAATCTCCAAAA
TGTTTATCAAGGGCATCT
Found at i:49057664 original size:13 final size:14
Alignment explanation
Indices: 49057643--49057675 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49057633 TTTATTAATG
49057643 AAATATATTAAA-AT
1 AAAT-TATTAAATAT
49057657 AAATTATTAAATAT
1 AAATTATTAAATAT
49057671 AAATT
1 AAATT
49057676 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:49058611 original size:16 final size:16
Alignment explanation
Indices: 49058590--49058621 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49058580 CTAATTGATT
49058590 CTTCAAAAACACTGTC
1 CTTCAAAAACACTGTC
49058606 CTTCAAAAACACTGTC
1 CTTCAAAAACACTGTC
49058622 ACTCCCCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.06, T:0.25
Consensus pattern (16 bp):
CTTCAAAAACACTGTC
Found at i:49068562 original size:14 final size:15
Alignment explanation
Indices: 49068539--49068567 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49068529 TGGAGGTATA
49068539 GTTTTATGTTGTTTT
1 GTTTTATGTTGTTTT
49068554 GTTTT-TGTTGTTTT
1 GTTTTATGTTGTTTT
49068568 AATTTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.03, C:0.00, G:0.21, T:0.76
Consensus pattern (15 bp):
GTTTTATGTTGTTTT
Found at i:49072357 original size:18 final size:18
Alignment explanation
Indices: 49072334--49072371 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
49072324 TGTATGAGGT
*
49072334 TAGTTTGATTATTATGTA
1 TAGTTTAATTATTATGTA
49072352 TAGTTTAATTATTATGTA
1 TAGTTTAATTATTATGTA
49072370 TA
1 TA
49072372 ATTATCGAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (18 bp):
TAGTTTAATTATTATGTA
Found at i:49072541 original size:25 final size:25
Alignment explanation
Indices: 49072507--49072562 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
49072497 AGACTCACCA
* *
49072507 CAGCTCGTATGACCTTATTGATTTG
1 CAGCTCGTATGAACTTACTGATTTG
*
49072532 CAGCTCGTATGAACTTACTGATTTT
1 CAGCTCGTATGAACTTACTGATTTG
49072557 CAGCTC
1 CAGCTC
49072563 AGAGGAGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (25 bp):
CAGCTCGTATGAACTTACTGATTTG
Found at i:49076754 original size:31 final size:31
Alignment explanation
Indices: 49076714--49076797 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
49076704 TTAGTCTTGA
*
49076714 CATAT-ACTGGACCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
49076744 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
49076775 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
49076798 ACTATAAACG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:49076880 original size:42 final size:42
Alignment explanation
Indices: 49076821--49076954 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
49076811 TGGCCCTTAG
*
49076821 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
49076863 GCCCATTTCAATATCACATGTAATGTCAATAAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
49076905 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
49076947 GCCCATTT
1 GCCCATTT
49076955 GGGGAGACTA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:49077135 original size:25 final size:25
Alignment explanation
Indices: 49077102--49077171 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
49077092 CTCTTTTAAT
49077102 AACTGGGGCAAAG-CCTTTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
49077127 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
49077152 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
49077172 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 36 0.84
26 7 0.16
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:49078042 original size:26 final size:28
Alignment explanation
Indices: 49078003--49078054 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
49077993 TACAAGGGTA
*
49078003 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTAACCTATTAGGGGCT
*
49078030 TTACGGTC-TTTTAACCTATTAGGGG
1 TTACGGTCACTTTAACCTATTAGGGG
49078055 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (28 bp):
TTACGGTCACTTTAACCTATTAGGGGCT
Found at i:49078202 original size:27 final size:27
Alignment explanation
Indices: 49078162--49078285 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
49078152 AGAAAGTTAA
* *
49078162 GGGTATTTTTGTAATTTTATAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAG
*
49078189 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAG
* *
49078215 AGGGTATTTTAGTAATTTCACAAA-CTAG
1 -GGGTATTTTGGTAATTTTACAAATC-AG
* * *
49078243 TGGTATTTCGGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAATCAG
49078270 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
49078286 CTATCCTACA
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.01
27 78 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:49078231 original size:110 final size:108
Alignment explanation
Indices: 49078079--49078285 Score: 254
Period size: 110 Copynumber: 1.9 Consensus size: 108
49078069 CATCCTACAA
* *** *
49078079 GGGTGTTTTGGTAAATCTACAAATGAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA
1 GGGTATTTTGGTAAATCTACAAATGAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTTCGA
* *
49078144 TAATTTTTAGAAAGTTAAGGGTATTTTTGTAATTTTATAAATCAG
66 TAA-TTTTACAAA-TTAAGGGTATTTTGGTAATTTTATAAATCAG
* * * * *
49078189 GGGTATTTTGGTAATTTTACAAATTG-AGGGTATTTTAGTAATTTCACAAACTAGTGGTATTTCG
1 GGGTATTTTGGTAAATCTACAAA-TGAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTTCG
* *
49078253 GTAATTTTACAAATTAGGGGTATTTTGGTAATT
65 ATAATTTTACAAATTAAGGGTATTTTGGTAATT
49078286 CTATCCTACA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
108 18 0.22
109 8 0.10
110 54 0.66
111 2 0.02
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (108 bp):
GGGTATTTTGGTAAATCTACAAATGAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTTCGA
TAATTTTACAAATTAAGGGTATTTTGGTAATTTTATAAATCAG
Found at i:49078301 original size:81 final size:81
Alignment explanation
Indices: 49078163--49078318 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 81
49078153 GAAAGTTAAG
** * * ** *
49078163 GGTATTTTTGTAATTTTATAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGT
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAACAGAGGGTATTTCAGT
49078228 AATTTCACAAACTAGT
66 AATTTCACAAACTAGT
* **
49078244 GGTATTTCGGTAATTTTACAAATTAGGGGTATTTTGGTAATTCTATCCTACAG-GGGTATTTCAG
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTA-CAAACAGAGGGTATTTCAG
49078308 TAATTTCACAA
65 TAATTTCACAA
49078319 TCGAGGGTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 61 0.95
82 3 0.05
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.42
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAACAGAGGGTATTTCAGT
AATTTCACAAACTAGT
Found at i:49078302 original size:54 final size:53
Alignment explanation
Indices: 49078052--49078327 Score: 173
Period size: 54 Copynumber: 5.1 Consensus size: 53
49078042 AACCTATTAG
* ** * * * * *
49078052 GGGTATTTTAGTCATTTCATCCTACAAGGGTGTTTTGGTAAATCTACAAA-TGAA
1 GGGTATTTTAGTAATTTCA-CAAACAGGGGTATTTCGGTAATTTTACAAATTG-A
* *** ** ** * *
49078106 GGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAAGTTAA
1 GGGTATTTTAGTAATTTCACAAA-CAGGGGTATTTCGGTAA-TTTTACAAA-TTGA
* * * *
49078162 GGGTATTTTTGTAATTTTATAAATCAGGGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTAGTAATTTCACAAA-CAGGGGTATTTCGGTAATTTTACAAATTGA
*
49078216 GGGTATTTTAGTAATTTCACAAACTAGTGGTATTTCGGTAATTTTACAAATT-A
1 GGGTATTTTAGTAATTTCACAAAC-AGGGGTATTTCGGTAATTTTACAAATTGA
* ** * * *
49078269 GGGGTATTTTGGTAA-TTCTATCCTACAGGGGTATTTCAGTAATTTCAC-AATCGA
1 -GGGTATTTTAGTAATTTC-A-CAAACAGGGGTATTTCGGTAATTTTACAAATTGA
49078323 GGGTA
1 GGGTA
49078328 AAACGGAAAT
Statistics
Matches: 174, Mismatches: 39, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
53 14 0.08
54 109 0.63
55 17 0.10
56 33 0.19
57 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (53 bp):
GGGTATTTTAGTAATTTCACAAACAGGGGTATTTCGGTAATTTTACAAATTGA
Found at i:49078325 original size:27 final size:26
Alignment explanation
Indices: 49078162--49078325 Score: 100
Period size: 27 Copynumber: 6.1 Consensus size: 26
49078152 AGAAAGTTAA
* * *
49078162 GGGTATTTTTGTAATTTTATAAATCAG
1 GGGTATTTTGGTAATTTCA-CAATCAG
* *
49078189 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTCAC-AATCAG
* *
49078215 AGGGTATTTTAGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTCACAATC-AG
* * * *
49078243 TGGTATTTCGGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTCAC-AATCAG
*
49078270 GGGTATTTTGGTAA-TTCTATC-CTACAG
1 GGGTATTTTGGTAATTTC-A-CAAT-CAG
**
49078297 GGGTATTTCAGTAATTTCACAATCGAG
1 GGGTATTTTGGTAATTTCACAATC-AG
49078324 GG
1 GG
49078326 TAAAACGGAA
Statistics
Matches: 105, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
26 8 0.08
27 90 0.86
28 7 0.07
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTCACAATCAG
Found at i:49078351 original size:27 final size:28
Alignment explanation
Indices: 49078317--49078522 Score: 165
Period size: 27 Copynumber: 7.3 Consensus size: 28
49078307 GTAATTTCAC
49078317 AATCGAGGGTAAAACGGA-AATTTTGTA
1 AATCGAGGGTAAAACGGATAATTTTGTA
*
49078344 AA-CTGAGGGTAAAA-TGATAATTTTGTA
1 AATC-GAGGGTAAAACGGATAATTTTGTA
* *
49078371 AATCGAGGGTAAAACTGTAATTCTGTAATTCTGTA
1 AATCGAGGGTAAAAC-G-GA-----TAATTTTGTA
* * *
49078406 AATCGAGGGTAAAATGG-TAATTCTATA
1 AATCGAGGGTAAAACGGATAATTTTGTA
49078433 AATCGAGGGTAAAAC-GATAATTTTGTA
1 AATCGAGGGTAAAACGGATAATTTTGTA
* * *
49078460 AATCGAGGGTGAAACGG-TAATTCTATA
1 AATCGAGGGTAAAACGGATAATTTTGTA
* * * **
49078487 AATCGATGGTAAAATGG-TAATTCTACA
1 AATCGAGGGTAAAACGGATAATTTTGTA
49078514 AATCGAGGG
1 AATCGAGGG
49078523 CATTTCAGTA
Statistics
Matches: 148, Mismatches: 18, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
26 4 0.03
27 117 0.79
28 2 0.01
30 1 0.01
34 1 0.01
35 23 0.16
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AATCGAGGGTAAAACGGATAATTTTGTA
Found at i:49078406 original size:35 final size:35
Alignment explanation
Indices: 49078361--49078429 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
49078351 GGTAAAATGA
*
49078361 TAATTTTGTAAATCGAGGGTAAAACT-GTAATTCTG
1 TAATTCTGTAAATCGAGGGTAAAA-TGGTAATTCTG
49078396 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCT
1 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCT
49078430 ATAAATCGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 1 0.03
35 31 0.97
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (35 bp):
TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTG
Found at i:49078437 original size:62 final size:61
Alignment explanation
Indices: 49078335--49078510 Score: 199
Period size: 54 Copynumber: 3.0 Consensus size: 61
49078325 GTAAAACGGA
* * *
49078335 AATTTTGTAAA-CTGAGGGTAAAATGATAATTTTGTAAATCGAGGGTAAAACTGTAATTCTGT
1 AATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACTGTAATTCT-T
*
49078397 AATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC-G--A----T
1 AATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACTGTAATTCTT
* * *
49078451 AATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGATGGTAAAA-TGGTAATTCT
1 AATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACT-GTAATTCT
49078511 ACAAATCGAG
Statistics
Matches: 97, Mismatches: 8, Indels: 19
0.78 0.06 0.15
Matches are distributed among these distances:
54 47 0.48
55 1 0.01
57 1 0.01
59 1 0.01
61 1 0.01
62 45 0.46
63 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (61 bp):
AATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACTGTAATTCTT
Found at i:49087775 original size:25 final size:25
Alignment explanation
Indices: 49087719--49087767 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
49087709 AGACTCACCA
49087719 CAACTCGTATGAGCTTACCAATTTG
1 CAACTCGTATGAGCTTACCAATTTG
*
49087744 CAACTCGTATGAGCTTACCGATTT
1 CAACTCGTATGAGCTTACCAATTT
49087768 TAAGCTCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (25 bp):
CAACTCGTATGAGCTTACCAATTTG
Found at i:49088922 original size:64 final size:63
Alignment explanation
Indices: 49088822--49088945 Score: 212
Period size: 64 Copynumber: 2.0 Consensus size: 63
49088812 CAGCCATATG
* *
49088822 TGACACACGGTGTGTCCCCTGATACTTCTATAGAAATCAAGTCAGTAGCTTCACACGGCCAGA
1 TGACACACCGTGTGTCCCCTGATACTTCTATAGAAATCAAGCCAGTAGCTTCACACGGCCAGA
*
49088885 TGACACATCCGTGTGTCCCTTGATACTTCTATAGAAATCAAGCCAGTAGCTTCACACGGCC
1 TGACACA-CCGTGTGTCCCCTGATACTTCTATAGAAATCAAGCCAGTAGCTTCACACGGCC
49088946 TAGCACACGG
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
63 7 0.12
64 50 0.88
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (63 bp):
TGACACACCGTGTGTCCCCTGATACTTCTATAGAAATCAAGCCAGTAGCTTCACACGGCCAGA
Found at i:49089383 original size:34 final size:33
Alignment explanation
Indices: 49089334--49089419 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 33
49089324 ACCAACACAA
* * *
49089334 ATATATTATACATATAACATCCATGCACCCAAAT
1 ATATATTTTATATATAACACCCATGCACCC-AAT
*
49089368 ATATATTTTATATATAACACCCATGCACGCAAT
1 ATATATTTTATATATAACACCCATGCACCCAAT
49089401 ATATA--TTATATATAACACC
1 ATATATTTTATATATAACACC
49089420 AAAACCCATA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
31 14 0.29
33 8 0.17
34 26 0.54
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (33 bp):
ATATATTTTATATATAACACCCATGCACCCAAT
Found at i:49105585 original size:28 final size:28
Alignment explanation
Indices: 49105546--49105607 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
49105536 ACACCAGGGG
*
49105546 ACACACGGCAGTGTACTTGACGTGTGTC
1 ACACACAGCAGTGTACTTGACGTGTGTC
49105574 ACACACAGCAGTGTACTTGACGTGTGTC
1 ACACACAGCAGTGTACTTGACGTGTGTC
49105602 ACACAC
1 ACACAC
49105608 GATTGAGACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (28 bp):
ACACACAGCAGTGTACTTGACGTGTGTC
Found at i:49110991 original size:5 final size:5
Alignment explanation
Indices: 49110976--49111174 Score: 305
Period size: 5 Copynumber: 39.4 Consensus size: 5
49110966 TGTTGATTAA
* * *
49110976 ATATT AAATT ATA-T -TATT ATATCAT ATATT AAATT ATATT AAATT ATATT
1 ATATT ATATT ATATT ATATT ATAT--T ATATT ATATT ATATT ATATT ATATT
49111026 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT-TAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT-T
49111076 ATTATT ATTATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 A-TATT A-TATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
49111128 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
49111175 TATAAATAAA
Statistics
Matches: 181, Mismatches: 6, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
3 2 0.01
4 3 0.02
5 161 0.89
6 9 0.05
7 6 0.03
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:49111206 original size:15 final size:16
Alignment explanation
Indices: 49111179--49111208 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49111169 TATTATTATA
49111179 AATAAACTATATGTGT
1 AATAAACTATATGTGT
49111195 AATAAA-TATATGTG
1 AATAAACTATATGTG
49111209 GACAATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (16 bp):
AATAAACTATATGTGT
Found at i:49111690 original size:3 final size:3
Alignment explanation
Indices: 49111684--49111745 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
49111674 AATAATAATA
*
49111684 ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
49111732 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
49111746 AAGATATAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Done.