Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 80 of 221
Found at i:23718495 original size:38 final size:38
Alignment explanation
Indices: 23718444--23718534 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
23718434 TGAATCGTAT
23718444 TGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCC-A
1 TGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGA
23718481 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGA
1 -TGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGA
23718520 TGTTATTCAGGCTTA
1 TGTTATTCAGGCTTA
23718535 TTGTCGGTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 51 0.98
39 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (38 bp):
TGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGA
Found at i:23718533 original size:22 final size:21
Alignment explanation
Indices: 23718444--23718534 Score: 76
Period size: 16 Copynumber: 4.7 Consensus size: 21
23718434 TGAATCGTAT
23718444 TGTTATTCAGGCTTAGTGCC-
1 TGTTATTCAGGCTTAGTGCCA
*
23718464 ---TA-GCAGGCTTAGTGCCA
1 TGTTATTCAGGCTTAGTGCCA
23718481 GTGTTATTCAGGCTTAGTGCC-
1 -TGTTATTCAGGCTTAGTGCCA
*
23718502 ---TA-GCAGGCTTAGTGCCGA
1 TGTTATTCAGGCTTAGTGCC-A
23718520 TGTTATTCAGGCTTA
1 TGTTATTCAGGCTTA
23718535 TTGTCGGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 22
0.68 0.05 0.27
Matches are distributed among these distances:
16 26 0.47
17 4 0.07
21 4 0.07
22 21 0.38
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (21 bp):
TGTTATTCAGGCTTAGTGCCA
Found at i:23728806 original size:50 final size:50
Alignment explanation
Indices: 23728742--23728982 Score: 254
Period size: 50 Copynumber: 4.8 Consensus size: 50
23728732 ATTTGGGTAA
* * * *
23728742 AGAGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCTCCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
23728792 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
23728842 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
23728892 AGAACTCCCATGTAAGTCCATATCTGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** *
23728941 AAACATCCCATGTAAAACCATGTCTGGGACATGG-ATTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCA
23728983 TGTTATTATC
Statistics
Matches: 159, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
48 2 0.01
49 37 0.23
50 120 0.75
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:23734026 original size:21 final size:20
Alignment explanation
Indices: 23733997--23734042 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
23733987 CGAAATACAA
23733997 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
23734018 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
23734038 T-AACC
1 TCAACC
23734043 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:23740723 original size:12 final size:12
Alignment explanation
Indices: 23740706--23740731 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23740696 TTGAAGGTGA
23740706 TCTACTGATCAT
1 TCTACTGATCAT
23740718 TCTACTGATCAT
1 TCTACTGATCAT
23740730 TC
1 TC
23740732 ATCCTCATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.08, T:0.42
Consensus pattern (12 bp):
TCTACTGATCAT
Found at i:23748672 original size:50 final size:51
Alignment explanation
Indices: 23748495--23748680 Score: 169
Period size: 51 Copynumber: 3.7 Consensus size: 51
23748485 TGCCTATAAA
* * * * * * * * *
23748495 CACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTATC-GATAGATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCT-TTGAT
* * * * * * * *
23748546 CACATGTTTAGTACTATGTGTAGGCCACTATGTGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCTTTGAT
* *
23748597 AACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCTTTGAT
*
23748647 CACGTGTGTAGTATTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
23748681 TCTCGAATGA
Statistics
Matches: 110, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
50 36 0.33
51 70 0.64
52 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCTTTGAT
Found at i:23756288 original size:50 final size:50
Alignment explanation
Indices: 23756226--23756363 Score: 188
Period size: 50 Copynumber: 2.8 Consensus size: 50
23756216 CGATAGATAA
* * * * * *
23756226 TGGTCACATGTGTAGTACTATGTGCAGGCTAC-ATGTGTACTGGAAGGCTT
1 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAG-TT
23756276 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAGTT
1 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAGTT
* *
23756326 TGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTG
23756364 TATCAAATGA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 69 0.87
51 10 0.13
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (50 bp):
TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAGTT
Found at i:23759080 original size:42 final size:43
Alignment explanation
Indices: 23759032--23759135 Score: 129
Period size: 42 Copynumber: 2.4 Consensus size: 43
23759022 TTTCGAGGTG
* *
23759032 TGATTTCGTGTAAGACCATGTTTGTGACATTGACATCG-TATA
1 TGATTTCGTGTAAGACCATGTTTGGGACAGTGACATCGATATA
* *
23759074 TGATTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATA
1 TGATTTCGTGTAAGACCATGTTTGGGACAGTGACATCGATATA
* ** *
23759117 TTATAACATGTAAGACCAT
1 TGATTTCGTGTAAGACCAT
23759136 ATCTAGGATA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 34 0.65
43 18 0.35
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATGTTTGGGACAGTGACATCGATATA
Found at i:23759753 original size:48 final size:48
Alignment explanation
Indices: 23759696--23759850 Score: 220
Period size: 48 Copynumber: 3.2 Consensus size: 48
23759686 GATAAGATGT
*
23759696 TGTCCATTTTTTAGTATATTAATGTTGTCCACATTGATGCTTAATTGC
1 TGTCCATTTTTTAGTATATTAATGTTGTCCAAATTGATGCTTAATTGC
* * *
23759744 TGTCCATTTTTGAGTATATTAATGTTATCCAAATTTATGCTTAATTGC
1 TGTCCATTTTTTAGTATATTAATGTTGTCCAAATTGATGCTTAATTGC
* * * * * *
23759792 TGCCCATTTTTTAGTTTATTAATGCTGTCCAAATTGGTGCTTAAATGT
1 TGTCCATTTTTTAGTATATTAATGTTGTCCAAATTGATGCTTAATTGC
23759840 TGTCCATTTTT
1 TGTCCATTTTT
23759851 GTACAAATCA
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 93 1.00
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.48
Consensus pattern (48 bp):
TGTCCATTTTTTAGTATATTAATGTTGTCCAAATTGATGCTTAATTGC
Found at i:23760541 original size:13 final size:13
Alignment explanation
Indices: 23760523--23760547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23760513 TTTAAATTAG
23760523 TTATGTGTTTTAA
1 TTATGTGTTTTAA
23760536 TTATGTGTTTTA
1 TTATGTGTTTTA
23760548 TTAATATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (13 bp):
TTATGTGTTTTAA
Found at i:23777019 original size:104 final size:104
Alignment explanation
Indices: 23776839--23777041 Score: 379
Period size: 104 Copynumber: 2.0 Consensus size: 104
23776829 AAGCTTTTAC
*
23776839 TTACATCAAAGTATACAAGTCATGCATACATAGCCTGTCATTCAGTTAGGATTTAAGTATGCCAC
1 TTACATCAAAGTATACAAGTCATGCATACATAGCCCGTCATTCAGTTAGGATTTAAGTATGCCAC
23776904 ACTATGAACGTCACAAGTGAATAAATCCATAAACAAATT
66 ACTATGAACGTCACAAGTGAATAAATCCATAAACAAATT
**
23776943 TTACATCAAAGTATATGAGTCATGCATACATAGCCCGTCATTCAGTTAGGATTTAAGTATGCCAC
1 TTACATCAAAGTATACAAGTCATGCATACATAGCCCGTCATTCAGTTAGGATTTAAGTATGCCAC
23777008 ACTATGAACGTCACAAGTGAATAAATCCATAAAC
66 ACTATGAACGTCACAAGTGAATAAATCCATAAAC
23777042 GGATTTAGGA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 96 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (104 bp):
TTACATCAAAGTATACAAGTCATGCATACATAGCCCGTCATTCAGTTAGGATTTAAGTATGCCAC
ACTATGAACGTCACAAGTGAATAAATCCATAAACAAATT
Found at i:23779050 original size:53 final size:53
Alignment explanation
Indices: 23778975--23779077 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
23778965 TGCTTATAAA
*
23778975 ATTTTGAGTCTGTTGAATATAGGAATACGTGAAATAGGTTTAGTAATTAATTT
1 ATTTTGAGTCTGTTGAACATAGGAATACGTGAAATAGGTTTAGTAATTAATTT
* *
23779028 ATTTTGAGTCTGTTGAACATAGGAATATGTGAGATAGGTTTAGTAATTAA
1 ATTTTGAGTCTGTTGAACATAGGAATACGTGAAATAGGTTTAGTAATTAA
23779078 GTAAGTTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (53 bp):
ATTTTGAGTCTGTTGAACATAGGAATACGTGAAATAGGTTTAGTAATTAATTT
Found at i:23781072 original size:20 final size:20
Alignment explanation
Indices: 23781043--23781083 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
23781033 AAAACCTAAG
23781043 AAACCAAAAGAATA-AATCTA
1 AAACCAAAAGAA-AGAATCTA
*
23781063 AAACCTAAAGAAAGAATCTA
1 AAACCAAAAGAAAGAATCTA
23781083 A
1 A
23781084 GCCAATGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (20 bp):
AAACCAAAAGAAAGAATCTA
Found at i:23787036 original size:20 final size:20
Alignment explanation
Indices: 23787013--23787055 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
23787003 TACACTTCGA
*
23787013 TGCCCCTGTTCGCACATTGG
1 TGCCCCTATTCGCACATTGG
* *
23787033 TGCCCCTATTTGCACTTTGG
1 TGCCCCTATTCGCACATTGG
23787053 TGC
1 TGC
23787056 TTCTTACTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.09, C:0.33, G:0.23, T:0.35
Consensus pattern (20 bp):
TGCCCCTATTCGCACATTGG
Found at i:23795061 original size:39 final size:40
Alignment explanation
Indices: 23794961--23795038 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
23794951 AAATTGTTGT
* * *
23794961 ATGAAAGCACATACATGCCCCTATTGGTACTTAAGTACCC
1 ATGAATGCACATACGTGCCCCTATTTGTACTTAAGTACCC
*
23795001 ATGAATGCACATACGTGCCCCTATTTGTACTTCAGTAC
1 ATGAATGCACATACGTGCCCCTATTTGTACTTAAGTAC
23795039 TTTGAATGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (40 bp):
ATGAATGCACATACGTGCCCCTATTTGTACTTAAGTACCC
Found at i:23798035 original size:42 final size:42
Alignment explanation
Indices: 23797955--23798036 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
23797945 CGTTTTCTCT
* * **
23797955 ATGCCATAGTCCAACTATGGTTTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
23797997 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
23798037 CACATCGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:23798110 original size:47 final size:47
Alignment explanation
Indices: 23797996--23798114 Score: 118
Period size: 47 Copynumber: 2.5 Consensus size: 47
23797986 TTTACATATT
* * **
23797996 GATGCCATAGCCCAGCTATGGTCTTACACAGTAGCACATATCACATC
1 GATGCCATAGTCCAACTATGGTCTTACACAAAAGCACATATCACATC
* * *
23798043 GATGCCATA-TCCCGGA-TATGGTCTTATACGAAAATCACATATCACAT-
1 GATGCCATAGT-CC-AACTATGGTCTTACAC-AAAAGCACATATCACATC
*
23798090 GTTGCCATAGTCCAACTATGGTCTT
1 GATGCCATAGTCCAACTATGGTCTT
23798115 TTTCATACTA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
46 1 0.02
47 42 0.72
48 15 0.26
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (47 bp):
GATGCCATAGTCCAACTATGGTCTTACACAAAAGCACATATCACATC
Found at i:23800641 original size:45 final size:45
Alignment explanation
Indices: 23800573--23800666 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
23800563 AACAGATACT
* * *
23800573 CGGTGGATTCAGCACATAACAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
* * *
23800618 CGGTGGAATCAACACATAGCAACCACTTTACTAATCAATGATGTT
1 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
23800663 CGGT
1 CGGT
23800667 TCACATATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
Found at i:23800734 original size:51 final size:50
Alignment explanation
Indices: 23800663--23800806 Score: 175
Period size: 50 Copynumber: 2.9 Consensus size: 50
23800653 CAATGATGTT
* *
23800663 CGGTTCACATA-TGAGCCTGCACATAGTACTACACATGTGATCGAAAC-TATC
1 CGGTACACATAGT-AGCCTGCACATAGTACTACACATGTGA-CCAAACAT-TC
* * * *
23800714 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAAACATTC
* *
23800764 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCA
23800807 TCACTTTCAC
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
50 43 0.54
51 36 0.45
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAAACATTC
Found at i:23808788 original size:30 final size:30
Alignment explanation
Indices: 23808747--23808838 Score: 148
Period size: 30 Copynumber: 3.1 Consensus size: 30
23808737 ATTTATGATC
* *
23808747 ATCGATAAATAAAAAGGGATAGCTTCGACT
1 ATCGATCAATAAAAAGGGATAGCTTTGACT
23808777 ATCGATCAATAAAAAGGGATAGCTTTGACT
1 ATCGATCAATAAAAAGGGATAGCTTTGACT
* *
23808807 ATCGACCAATGAAAAGGGATAGCTTTGACT
1 ATCGATCAATAAAAAGGGATAGCTTTGACT
23808837 AT
1 AT
23808839 TGAATTATGA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (30 bp):
ATCGATCAATAAAAAGGGATAGCTTTGACT
Found at i:23808849 original size:30 final size:30
Alignment explanation
Indices: 23808758--23809071 Score: 230
Period size: 30 Copynumber: 10.5 Consensus size: 30
23808748 TCGATAAATA
* * *
23808758 AAAAGGGATAGCTTCGACTATC-GATCAATA
1 AAAAGGGATAGCTTCGACTATCAAAT-TATG
* * ***
23808788 AAAAGGGATAGCTTTGACTATCGACCAATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
* **
23808818 AAAAGGGATAGCTTTGACTATTGAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
* *
23808848 AAAAGAGATAGCTTC-AGTTATCAAATTATG
1 AAAAGGGATAGCTTCGA-CTATCAAATTATG
* * * *
23808878 AAAGGGGAT-GGTGACGACCATCAACA--ATG
1 AAAAGGGATAGCT-TCGACTATCAA-ATTATG
* * * *
23808907 AAAAGCGAT-GGTGAT-GACCATCAAACTATG
1 AAAAGGGATAGCT--TCGACTATCAAATTATG
*
23808937 AAAAGGGATAGCTTCGACTATCGAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
* *
23808967 AAAAAGGATAGCTTCGGCTATCAAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
*
23808997 AAAAGGGATAGCTTCGGCTATCAAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
* * * * * *
23809027 AAAAGGGAT-GGTGACAACCATCAAAATAAG
1 AAAAGGGATAGCT-TCGACTATCAAATTATG
23809057 AAAAGGGATAGCTTC
1 AAAAGGGATAGCTTC
23809072 AGCTATCGAA
Statistics
Matches: 230, Mismatches: 42, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.00
29 28 0.12
30 195 0.85
31 6 0.03
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.24
Consensus pattern (30 bp):
AAAAGGGATAGCTTCGACTATCAAATTATG
Found at i:23808908 original size:29 final size:30
Alignment explanation
Indices: 23808875--23808945 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
23808865 TTATCAAATT
*
23808875 ATGAAAGGGGATGGTGACGACCATC-AACA
1 ATGAAAAGGGATGGTGACGACCATCAAACA
* * *
23808904 ATGAAAAGCGATGGTGATGACCATCAAACT
1 ATGAAAAGGGATGGTGACGACCATCAAACA
23808934 ATGAAAAGGGAT
1 ATGAAAAGGGAT
23808946 AGCTTCGACT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 22 0.61
30 14 0.39
ACGTcount: A:0.41, C:0.14, G:0.28, T:0.17
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATCAAACA
Found at i:23809096 original size:60 final size:58
Alignment explanation
Indices: 23808900--23809107 Score: 202
Period size: 60 Copynumber: 3.5 Consensus size: 58
23808890 GACGACCATC
** *
23808900 AACAATGAAAAGCGATGGTGATGACCATCAAACTATGAAAAGGGATAGCTTCGACTATCG
1 AACAATGAAAAG-GATGGTGACAACCATCAAAATATGAAAAGGGATAGCTTCG-CTATCG
** * * ** * * *
23808960 AATTATGAAAAAGGATAGCT-TCGGCTATCAAATTATGAAAAGGGATAGCTTCGGCTATCA
1 AACAATG-AAAAGGAT-GGTGACAACCATCAAAATATGAAAAGGGATAGCTTC-GCTATCG
** *
23809020 AATTATGAAAAGGGATGGTGACAACCATCAAAATAAGAAAAGGGATAGCTTCAGCTATCG
1 AACAATGAAAA-GGATGGTGACAACCATCAAAATATGAAAAGGGATAGCTTC-GCTATCG
23809080 AACAATGGAAAAGGATGGTGACAACCAT
1 AACAAT-GAAAAGGATGGTGACAACCAT
23809108 TGCGATTTTT
Statistics
Matches: 122, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
59 6 0.05
60 103 0.84
61 13 0.11
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (58 bp):
AACAATGAAAAGGATGGTGACAACCATCAAAATATGAAAAGGGATAGCTTCGCTATCG
Found at i:23815980 original size:12 final size:12
Alignment explanation
Indices: 23815971--23815995 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23815961 TAAGAACAGG
23815971 GGCTAGAACACA
1 GGCTAGAACACA
23815983 GGCTAGAACACA
1 GGCTAGAACACA
23815995 G
1 G
23815996 ATGTGTGTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.28, T:0.08
Consensus pattern (12 bp):
GGCTAGAACACA
Found at i:23820439 original size:27 final size:27
Alignment explanation
Indices: 23820406--23820460 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
23820396 AGATAATATC
*
23820406 ATAAATTAGGTGTAGCTTTGGAGGCTA
1 ATAAATTAAGTGTAGCTTTGGAGGCTA
23820433 ATAAATTAAGTGTAGCTTTGGAGGCTA
1 ATAAATTAAGTGTAGCTTTGGAGGCTA
23820460 A
1 A
23820461 GTATTTGGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (27 bp):
ATAAATTAAGTGTAGCTTTGGAGGCTA
Found at i:23820926 original size:40 final size:40
Alignment explanation
Indices: 23820871--23821077 Score: 353
Period size: 40 Copynumber: 5.2 Consensus size: 40
23820861 TTAGTCAAAA
*
23820871 GAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCC
1 GAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCC
*
23820911 GAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCC
1 GAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCC
*
23820951 GAAGGCAATTATGCGAGATGATATATCCGGGCTAAGA-CC
1 GAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCC
* *
23820990 GAAGGCAATTATGCGAGATGATATGTCCGGGCTAAGACCC
1 GAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCC
*
23821030 GAAGGCAATTATGCGAGTTGATATGTCCGGGCTAAGACCC
1 GAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCC
23821070 GAAGGCAA
1 GAAGGCAA
23821078 ATGTGTTTGC
Statistics
Matches: 162, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
39 38 0.23
40 124 0.77
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (40 bp):
GAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCC
Found at i:23821022 original size:79 final size:80
Alignment explanation
Indices: 23820871--23821077 Score: 353
Period size: 79 Copynumber: 2.6 Consensus size: 80
23820861 TTAGTCAAAA
* *
23820871 GAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGATATA
1 GAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATA
*
23820936 TCCGGGCTATGACCC
66 TCCGGGCTAAGACCC
* *
23820951 GAAGGCAATTATGCGAGATGATATATCCGGGCTAAGA-CCGAAGGCAATTATGCGAGATGATATG
1 GAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATA
23821015 TCCGGGCTAAGACCC
66 TCCGGGCTAAGACCC
*
23821030 GAAGGCAATTATGCGAGTTGATATGTCCGGGCTAAGACCCGAAGGCAA
1 GAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAA
23821078 ATGTGTTTGC
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
79 74 0.62
80 45 0.38
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (80 bp):
GAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATA
TCCGGGCTAAGACCC
Found at i:23822586 original size:178 final size:178
Alignment explanation
Indices: 23822287--23822632 Score: 692
Period size: 178 Copynumber: 1.9 Consensus size: 178
23822277 GGGACATGAG
23822287 TCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTTGA
1 TCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTTGA
23822352 AGCGACTAGTACTCAGACTGGACAGTGTCTGGAAAAATTTTTAAAAGTCTGTCAACACCTCGTAT
66 AGCGACTAGTACTCAGACTGGACAGTGTCTGGAAAAATTTTTAAAAGTCTGTCAACACCTCGTAT
23822417 TCGACTCCGGTGACGGTCTCGGGTTTGGGGTGTTACAATTGATTGGTA
131 TCGACTCCGGTGACGGTCTCGGGTTTGGGGTGTTACAATTGATTGGTA
23822465 TCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTTGA
1 TCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTTGA
23822530 AGCGACTAGTACTCAGACTGGACAGTGTCTGGAAAAATTTTTAAAAGTCTGTCAACACCTCGTAT
66 AGCGACTAGTACTCAGACTGGACAGTGTCTGGAAAAATTTTTAAAAGTCTGTCAACACCTCGTAT
23822595 TCGACTCCGGTGACGGTCTCGGGTTTGGGGTGTTACAA
131 TCGACTCCGGTGACGGTCTCGGGTTTGGGGTGTTACAA
23822633 GTCTGACGTT
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
178 168 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (178 bp):
TCTAGTTTCAGGGAAAAATCACAAAACTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTTGA
AGCGACTAGTACTCAGACTGGACAGTGTCTGGAAAAATTTTTAAAAGTCTGTCAACACCTCGTAT
TCGACTCCGGTGACGGTCTCGGGTTTGGGGTGTTACAATTGATTGGTA
Found at i:23823540 original size:16 final size:16
Alignment explanation
Indices: 23823502--23823541 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
23823492 GACAAATGTT
* *
23823502 GAAATGGCGGGATGCC
1 GAAATGTCGGAATGCC
23823518 GAAATGTCGGAATGCC
1 GAAATGTCGGAATGCC
23823534 GAAATGTC
1 GAAATGTC
23823542 AGAAAGCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.35, T:0.17
Consensus pattern (16 bp):
GAAATGTCGGAATGCC
Found at i:23824342 original size:27 final size:27
Alignment explanation
Indices: 23824301--23824389 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
23824291 CTTAATATTT
* *
23824301 GTAAAATGACTGTAATGCCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
23824328 GTAAAATGACCGTAATTCCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* * *
23824355 GTAAAATGATCGTGATGCCCTTGTA-G
1 GTAAAATGACCGTAATGCCCCTGTAGG
23824381 GTAAAATGA
1 GTAAAATGA
23824390 TTGTAATACC
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 10 0.18
27 45 0.82
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (27 bp):
GTAAAATGACCGTAATGCCCCTGTAGG
Found at i:23824528 original size:24 final size:24
Alignment explanation
Indices: 23824462--23824533 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
23824452 CCCCTCGAGG
* * *
23824462 TTAAATGATTGATTTGTCCGAGAT
1 TTAAATGACTGATTTGTCTGTGAT
*
23824486 GTAAATGACTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
23824510 TTAAATGACTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
23824534 AGGTATGACT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.43
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAT
Found at i:23824541 original size:24 final size:24
Alignment explanation
Indices: 23824490--23824571 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
23824480 CGAGATGTAA
* **
23824490 ATGACTGATTTGTCTGTGATTTAA
1 ATGACTGATTTGTCTGTGATATGT
*
23824514 ATGACTGATTTGTCTGTGATAGGT
1 ATGACTGATTTGTCTGTGATATGT
* *
23824538 ATGACTAATTTTTCTGTGA-ATTGT
1 ATGACTGATTTGTCTGTGATA-TGT
23824562 ATGACTGATT
1 ATGACTGATT
23824572 CTGAGCATGG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 1 0.02
24 48 0.98
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.45
Consensus pattern (24 bp):
ATGACTGATTTGTCTGTGATATGT
Found at i:23824732 original size:26 final size:26
Alignment explanation
Indices: 23824688--23824738 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
23824678 TAGCTACATA
* * *
23824688 TACTGTTACTGGTAGCTTTGTTGCGG
1 TACTGTTACTGGAAACTTTGCTGCGG
*
23824714 TACTGTTGCTGGAAACTTTGCTGCG
1 TACTGTTACTGGAAACTTTGCTGCG
23824739 ATGCTGCTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.14, C:0.18, G:0.29, T:0.39
Consensus pattern (26 bp):
TACTGTTACTGGAAACTTTGCTGCGG
Found at i:23824796 original size:32 final size:32
Alignment explanation
Indices: 23824745--23824835 Score: 94
Period size: 32 Copynumber: 2.8 Consensus size: 32
23824735 TGCGATGCTG
* * *
23824745 CTGATGGCTTTGTGTCGATCATATTACCGTTA
1 CTGATGGCTGTGTGCCGATCATATTACCGCTA
* * *
23824777 CTG-TAGGGTGTGTGCCGATCATATCACTGCTA
1 CTGAT-GGCTGTGTGCCGATCATATTACCGCTA
* *
23824809 CTGATGGCTTTGTGCCAATCATATTAC
1 CTGATGGCTGTGTGCCGATCATATTAC
23824836 TATACTTATG
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
31 1 0.02
32 45 0.96
33 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (32 bp):
CTGATGGCTGTGTGCCGATCATATTACCGCTA
Found at i:23831455 original size:15 final size:14
Alignment explanation
Indices: 23831435--23831464 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
23831425 CAGTCATACA
23831435 TCTACTATAATAGGT
1 TCTACTATAA-AGGT
23831450 TCTACTATAAAGGT
1 TCTACTATAAAGGT
23831464 T
1 T
23831465 GTTGTCGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (14 bp):
TCTACTATAAAGGT
Found at i:23834548 original size:19 final size:19
Alignment explanation
Indices: 23834524--23834568 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
23834514 ACTTGGATTT
23834524 CCACTGAGCCAAGAGTTAG
1 CCACTGAGCCAAGAGTTAG
*
23834543 CCACTGAGCCAAGAGTTGG
1 CCACTGAGCCAAGAGTTAG
23834562 CCACTGA
1 CCACTGA
23834569 TGTTATTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.16
Consensus pattern (19 bp):
CCACTGAGCCAAGAGTTAG
Found at i:23838972 original size:23 final size:22
Alignment explanation
Indices: 23838930--23838975 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23838920 ATTCATACTA
*
23838930 AAAAATGTGCATAAAAAGAAAT
1 AAAAATGTGCAAAAAAAGAAAT
*
23838952 AAAAATGTG-AAAGAAAGAGAAT
1 AAAAATGTGCAAAAAAAGA-AAT
23838974 AA
1 AA
23838976 GTGAGGATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.65, C:0.02, G:0.17, T:0.15
Consensus pattern (22 bp):
AAAAATGTGCAAAAAAAGAAAT
Found at i:23840266 original size:22 final size:23
Alignment explanation
Indices: 23840222--23840267 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
23840212 TAAAGTTCTC
*
23840222 ATCTTTAGTGTTCTTATTTATTT
1 ATCTTTAGTGTTCTTATTCATTT
23840245 ATCTTT-GTGTTGCTT-TTCATTT
1 ATCTTTAGTGTT-CTTATTCATTT
23840267 A
1 A
23840268 ATTTTATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.15, C:0.11, G:0.11, T:0.63
Consensus pattern (23 bp):
ATCTTTAGTGTTCTTATTCATTT
Found at i:23843721 original size:18 final size:18
Alignment explanation
Indices: 23843695--23843735 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
23843685 TTATTCTAAG
23843695 ATTTATCTACCTAAATAA
1 ATTTATCTACCTAAATAA
*
23843713 ATTTCTCTACCTAAATAA
1 ATTTATCTACCTAAATAA
*
23843731 CTTTA
1 ATTTA
23843736 AAAAATATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTATCTACCTAAATAA
Found at i:23853198 original size:40 final size:40
Alignment explanation
Indices: 23853154--23853270 Score: 191
Period size: 40 Copynumber: 2.9 Consensus size: 40
23853144 GCTCCTCGTT
* * *
23853154 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
23853194 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
23853234 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
23853271 CCGGATTTAG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
40 71 0.97
41 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:23853275 original size:16 final size:16
Alignment explanation
Indices: 23853254--23853286 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23853244 CGGGACTTAA
23853254 CCCGGATTTAGTAACT
1 CCCGGATTTAGTAACT
23853270 CCCGGATTTAGTAACT
1 CCCGGATTTAGTAACT
23853286 C
1 C
23853287 GCACAAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (16 bp):
CCCGGATTTAGTAACT
Found at i:23861212 original size:39 final size:40
Alignment explanation
Indices: 23861054--23861316 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
23861044 GCTCCTCGTT
* * *
23861054 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
23861094 CAAATGACTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
23861134 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
23861174 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
23861213 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
23861252 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTTACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCA
*
23861293 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
23861317 CAGCATTCAA
Statistics
Matches: 207, Mismatches: 10, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
38 11 0.05
39 73 0.35
40 114 0.55
41 9 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:23863207 original size:27 final size:27
Alignment explanation
Indices: 23863162--23863227 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
23863152 AGATAAAGCA
*
23863162 CGCCACTAAGGCGATCCATTCAAAATT
1 CGCCACAAAGGCGATCCATTCAAAATT
* *
23863189 TGCCACAAAGGC-ATCCCATTCAAAGTT
1 CGCCACAAAGGCGAT-CCATTCAAAATT
*
23863216 CACCACAAAGGC
1 CGCCACAAAGGC
23863228 TATTCATAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.35, C:0.32, G:0.15, T:0.18
Consensus pattern (27 bp):
CGCCACAAAGGCGATCCATTCAAAATT
Found at i:23866276 original size:35 final size:35
Alignment explanation
Indices: 23866229--23866297 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
23866219 TTAATTAATC
* *
23866229 AGCTTTGACAATTGGAGTTCCCGAATAGTCATTGG
1 AGCTTTGACAATTGGAGTTCCCGAACAGCCATTGG
*
23866264 AGCTTTGTCAATTGGAGTTCCCGAACAGCCATTG
1 AGCTTTGACAATTGGAGTTCCCGAACAGCCATTG
23866298 AGGTAGACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (35 bp):
AGCTTTGACAATTGGAGTTCCCGAACAGCCATTGG
Found at i:23869990 original size:16 final size:16
Alignment explanation
Indices: 23869969--23870012 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
23869959 TTCTAAATTA
*
23869969 TTTTTTCCTTTCTTTT
1 TTTTTTCATTTCTTTT
*
23869985 TTTTTTGATTTCTTTT
1 TTTTTTCATTTCTTTT
* *
23870001 CTTTTTCTTTTC
1 TTTTTTCATTTC
23870013 CATTTTTTCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTTCATTTCTTTT
Found at i:23870001 original size:21 final size:21
Alignment explanation
Indices: 23869972--23870011 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23869962 TAAATTATTT
*
23869972 TTTCCTTTCTTTTTTTTTTGA
1 TTTCCTTTCTTTTTCTTTTGA
*
23869993 TTTCTTTTCTTTTTCTTTT
1 TTTCCTTTCTTTTTCTTTT
23870012 CCATTTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTCCTTTCTTTTTCTTTTGA
Found at i:23879029 original size:500 final size:501
Alignment explanation
Indices: 23878083--23879087 Score: 2003
Period size: 500 Copynumber: 2.0 Consensus size: 501
23878073 TTCGAAAACA
23878083 AAGGAAAACCAATTGATAAAGGGCAATACTAGAGATTAGTTGGTAAGTTAATCTACTTATCACAT
1 AAGGAAAACCAATTGATAAAGGGCAATACTAGAGATTAGTTGGTAAGTTAATCTACTTATCACAT
23878148 ATAAGGCCAGACATAGCTTTTGTAGTAAGCTTATCAAGTCAATTTATGCACTCCCCAAGGGAGGA
66 ATAAGGCCAGACATAGCTTTTGTAGTAAGCTTATCAAGTCAATTTATGCACTCCCCAAGGGAGGA
23878213 ACATGAAGAAGCAATGTTTTAGATTCACAACCCAGTCTAGCATGACAAAACTAAACATGTTGAGA
131 ACATGAAGAAGCAATGTTTTAGATTCACAACCCAGTCTAGCATGACAAAACTAAACATGTTGAGA
23878278 TTGATAGACACTTTATCAAGGAGAAGAATGAAGAAAGACCATGTGTGCACACCGTTTGCTCCTTC
196 TTGATAGACACTTTATCAAGGAGAAGAATGAAGAAAGACCATGTGTGCACACCGTTTGCTCCTTC
23878343 AGAACAACAGATTGTTGATGTACTCACCAAAGGGCTCTCTAAGAGAAGTTTCGATTTTCTCGTAA
261 AGAACAACAGATTGTTGATGTACTCACCAAAGGGCTCTCTAAGAGAAGTTTCGATTTTCTCGTAA
23878408 GCAAGTTGGGTATGATTGATATATATGCACCAACTTGAGGGAGGTATTGAAATAAATGTTGAAGC
326 GCAAGTTGGGTATGATTGATATATATGCACCAACTTGAGGGAGGTATTGAAATAAATGTTGAAGC
23878473 CCCATATATTTTGAGATATTTTTAAAAATTATTTAGGTAGATAAATCCTAGAATAATCAATTAAG
391 CCCATATATTTTGAGATATTTTTAAAAATTATTTAGGTAGATAAATCCTAGAATAATCAATTAAG
23878538 ATTTTTTAGTAATATTTTATTTTATCTTTTAACAGTTTACTTGAAT
456 ATTTTTTAGTAATATTTTATTTTATCTTTTAACAGTTTACTTGAAT
23878584 AAGG-AAACCAATTGATAAAGGGCAATACTAGAGATTAGTTGGTAAGTTAATCTACTTATCACAT
1 AAGGAAAACCAATTGATAAAGGGCAATACTAGAGATTAGTTGGTAAGTTAATCTACTTATCACAT
23878648 ATAAGGCCAGACATAGCTTTTGTAGTAAGCTTATCAAGTCAATTTATGCACTCCCCAAGGGAGGA
66 ATAAGGCCAGACATAGCTTTTGTAGTAAGCTTATCAAGTCAATTTATGCACTCCCCAAGGGAGGA
23878713 ACATGAAGAAGCAATGTTTTAGATTCACAACCCAGTCTAGCATGACAAAACTAAACATGTTGAGA
131 ACATGAAGAAGCAATGTTTTAGATTCACAACCCAGTCTAGCATGACAAAACTAAACATGTTGAGA
23878778 TTGATAGACACTTTATCAAGGAGAAGAATGAAGAAAGACCATGTGTGCACACCGTTTGCTCCTTC
196 TTGATAGACACTTTATCAAGGAGAAGAATGAAGAAAGACCATGTGTGCACACCGTTTGCTCCTTC
23878843 AGAACAACAGATTGTTGATGTACTCACCAAAGGGCTCTCTAAGAGAAGTTTCGATTTTCTCGTAA
261 AGAACAACAGATTGTTGATGTACTCACCAAAGGGCTCTCTAAGAGAAGTTTCGATTTTCTCGTAA
23878908 GCAAGTTGGGTATGATTGATATATATGCACCAACTTGAGGGAGGTATTGAAATAAATGTTGAAGC
326 GCAAGTTGGGTATGATTGATATATATGCACCAACTTGAGGGAGGTATTGAAATAAATGTTGAAGC
23878973 CCCATATATTTTGAGATATTTTTAAAAATTATTTAGGTAGATAAATCCTAGAATAATCAATTAAG
391 CCCATATATTTTGAGATATTTTTAAAAATTATTTAGGTAGATAAATCCTAGAATAATCAATTAAG
23879038 ATTTTTTAGTAATATTTTATTTTATCTTTTAACAGTTTACTTGAAT
456 ATTTTTTAGTAATATTTTATTTTATCTTTTAACAGTTTACTTGAAT
23879084 AAGG
1 AAGG
23879088 GAATTACTTT
Statistics
Matches: 504, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
500 500 0.99
501 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (501 bp):
AAGGAAAACCAATTGATAAAGGGCAATACTAGAGATTAGTTGGTAAGTTAATCTACTTATCACAT
ATAAGGCCAGACATAGCTTTTGTAGTAAGCTTATCAAGTCAATTTATGCACTCCCCAAGGGAGGA
ACATGAAGAAGCAATGTTTTAGATTCACAACCCAGTCTAGCATGACAAAACTAAACATGTTGAGA
TTGATAGACACTTTATCAAGGAGAAGAATGAAGAAAGACCATGTGTGCACACCGTTTGCTCCTTC
AGAACAACAGATTGTTGATGTACTCACCAAAGGGCTCTCTAAGAGAAGTTTCGATTTTCTCGTAA
GCAAGTTGGGTATGATTGATATATATGCACCAACTTGAGGGAGGTATTGAAATAAATGTTGAAGC
CCCATATATTTTGAGATATTTTTAAAAATTATTTAGGTAGATAAATCCTAGAATAATCAATTAAG
ATTTTTTAGTAATATTTTATTTTATCTTTTAACAGTTTACTTGAAT
Found at i:23897231 original size:30 final size:30
Alignment explanation
Indices: 23897174--23897243 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
23897164 TCACATATGA
* ***
23897174 CACACGGCCGTGTCGCCCAGTTGTGTGCCT
1 CACACGGCCATGTCGCCCAGCCATGTGCCT
* *
23897204 CACACGGCCATGTCGCCTAGCCATGTGCTT
1 CACACGGCCATGTCGCCCAGCCATGTGCCT
23897234 CACACGGCCA
1 CACACGGCCA
23897244 AGTCACACGC
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:0.16, C:0.39, G:0.26, T:0.20
Consensus pattern (30 bp):
CACACGGCCATGTCGCCCAGCCATGTGCCT
Found at i:23900136 original size:22 final size:21
Alignment explanation
Indices: 23900108--23900158 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
23900098 AAGGTGGAAG
* *
23900108 TTATGTGGCAGTTTATTTGCAA
1 TTATGTGGCAG-GTATTAGCAA
*
23900130 TTATGTGGCCGGTATTAGCAA
1 TTATGTGGCAGGTATTAGCAA
23900151 TTATGTGG
1 TTATGTGG
23900159 TGGCTTGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.41
Consensus pattern (21 bp):
TTATGTGGCAGGTATTAGCAA
Found at i:23910031 original size:22 final size:24
Alignment explanation
Indices: 23909981--23910031 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
23909971 TTACAATGCT
23909981 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
23910006 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
23910027 TTTAT
1 TTTAT
23910032 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:23910225 original size:20 final size:20
Alignment explanation
Indices: 23910200--23910239 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23910190 AATATTTTCT
*
23910200 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
23910220 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
23910240 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:23910247 original size:34 final size:35
Alignment explanation
Indices: 23910188--23910254 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
23910178 CAAACACCAG
* *
23910188 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
23910223 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
23910255 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:23913995 original size:9 final size:10
Alignment explanation
Indices: 23913975--23913999 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23913965 AACAAACTTG
23913975 AAAACATAAA
1 AAAACATAAA
23913985 AAAACATAAA
1 AAAACATAAA
23913995 AAAAC
1 AAAAC
23914000 GAGACTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAACATAAA
Found at i:23918313 original size:40 final size:40
Alignment explanation
Indices: 23918269--23918453 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
23918259 GCTCCTCGTT
*
23918269 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
23918309 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
23918349 CAAATGCCTTCGGG-CTTAGCCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTTAGTAACTCGCA
* * *
23918388 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
23918429 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23918454 CATCATTCAA
Statistics
Matches: 127, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 82 0.65
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23918371 original size:79 final size:80
Alignment explanation
Indices: 23918269--23918453 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 80
23918259 GCTCCTCGTT
*
23918269 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-T-GTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
23918332 GGAT-TTAATAAC-TCGCA
63 GGATATT-ATAACTTAGCA
* **
23918349 CAAATGCCTTCGGG-CTTAGCCCGGAATTTGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTTGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
23918413 ATATTGTCACTTAGCA
65 ATATTATAACTTAGCA
23918429 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23918454 CATCATTCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 3 0.03
79 52 0.57
80 35 0.38
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATTATAACTTAGCA
Found at i:23933681 original size:22 final size:21
Alignment explanation
Indices: 23933656--23933698 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
23933646 ATTAAGTTAG
* *
23933656 AGGGATATTTTTATGTTTAAAA
1 AGGG-TATTTTTAGGGTTAAAA
*
23933678 AGGGTGTTTTTAGGGTTAAAA
1 AGGGTATTTTTAGGGTTAAAA
23933699 TTTGGGTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.42
Consensus pattern (21 bp):
AGGGTATTTTTAGGGTTAAAA
Found at i:23940259 original size:27 final size:26
Alignment explanation
Indices: 23940220--23940295 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 26
23940210 AATGGGCCTC
23940220 TAAAATTATTGAAATACCCTCGATGGG
1 TAAAATTA-TGAAATACCCTCGATGGG
23940247 TAAAATTACTGAAATACCCTCGATGGG
1 TAAAATTA-TGAAATACCCTCGATGGG
23940274 TAAAATTATCGAAATACCCTCG
1 TAAAATTAT-GAAATACCCTCG
23940296 TGTAACACCC
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (26 bp):
TAAAATTATGAAATACCCTCGATGGG
Found at i:23941899 original size:28 final size:28
Alignment explanation
Indices: 23941836--23942022 Score: 286
Period size: 28 Copynumber: 6.5 Consensus size: 28
23941826 ATATTAAGTC
* *
23941836 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
23941863 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
23941891 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
23941919 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
23941947 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
23941975 CGCACACTTAGTGCTACATAACATAGTCAAACT
1 CGCACACTTAGTGCTACAT---A-A-TCAAACT
23942008 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23942023 GTACAATTTA
Statistics
Matches: 150, Mismatches: 4, Indels: 6
0.94 0.03 0.04
Matches are distributed among these distances:
27 21 0.14
28 105 0.70
31 1 0.01
32 1 0.01
33 22 0.15
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:23955755 original size:21 final size:21
Alignment explanation
Indices: 23955729--23955770 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23955719 GATTAAAGAA
*
23955729 TGATTTTTATGAATAGCAATC
1 TGATTTCTATGAATAGCAATC
*
23955750 TGATTTCTATGAATAGTAATC
1 TGATTTCTATGAATAGCAATC
23955771 CCTTTATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (21 bp):
TGATTTCTATGAATAGCAATC
Found at i:23958924 original size:16 final size:16
Alignment explanation
Indices: 23958903--23958990 Score: 60
Period size: 16 Copynumber: 5.7 Consensus size: 16
23958893 TTAATCACTT
23958903 TAATATTAAATTAATA
1 TAATATTAAATTAATA
*
23958919 TAATATT-TATCT--T-
1 TAATATTAAAT-TAATA
23958932 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
23958948 TAATATT-TATCAAGA
1 TAATATTAAATTAATA
* * *
23958963 TAAATATTATACTAATT
1 T-AATATTAAATTAATA
23958980 TAATATTAAAT
1 TAATATTAAAT
23958991 CATATTAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
13 8 0.15
14 3 0.06
15 9 0.17
16 29 0.54
17 5 0.09
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:23958933 original size:29 final size:29
Alignment explanation
Indices: 23958900--23958958 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
23958890 AACTTAATCA
23958900 CTTTAATATTAAATTAATATAATATTTAT
1 CTTTAATATTAAATTAATATAATATTTAT
23958929 CTTTAATATTAAATTAATATAATATTTAT
1 CTTTAATATTAAATTAATATAATATTTAT
23958958 C
1 C
23958959 AAGATAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (29 bp):
CTTTAATATTAAATTAATATAATATTTAT
Found at i:23962272 original size:16 final size:17
Alignment explanation
Indices: 23962251--23962282 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
23962241 TATAAGTCCG
23962251 ACAAATAA-AATAAAAC
1 ACAAATAACAATAAAAC
23962267 ACAAATAACAATAAAA
1 ACAAATAACAATAAAA
23962283 AATAAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
ACAAATAACAATAAAAC
Found at i:23970601 original size:16 final size:16
Alignment explanation
Indices: 23970580--23970631 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
23970570 TATCATGATC
23970580 TTTACTTTCTTCTTTA
1 TTTACTTTCTTCTTTA
* * *
23970596 TTTACTCTCTTATTTG
1 TTTACTTTCTTCTTTA
*
23970612 TTTACTTACTTGC-TTA
1 TTTACTTTCTT-CTTTA
23970628 TTTA
1 TTTA
23970632 AATAACTCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.15, C:0.17, G:0.04, T:0.63
Consensus pattern (16 bp):
TTTACTTTCTTCTTTA
Found at i:23972718 original size:15 final size:16
Alignment explanation
Indices: 23972689--23972718 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23972679 AAACATGCTT
23972689 TTAACACATTATCAAA
1 TTAACACATTATCAAA
23972705 TTAACACA-TATCAA
1 TTAACACATTATCAA
23972719 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:23978928 original size:15 final size:16
Alignment explanation
Indices: 23978899--23978928 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23978889 AAACATGCTT
23978899 TTAACACATTATCAAA
1 TTAACACATTATCAAA
23978915 TTAACACA-TATCAA
1 TTAACACATTATCAA
23978929 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:23985905 original size:42 final size:42
Alignment explanation
Indices: 23985678--23985930 Score: 135
Period size: 44 Copynumber: 5.9 Consensus size: 42
23985668 TATCTCGTAA
* *
23985678 TTTAATTCGCTCCACTACAACTTCAGGGAGATAGGATTAT-C
1 TTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATTATGC
* *
23985719 AAATTCAATCTGCTCCACTGTA-AAC-TCAGGGAGATAAGATT-TGC
1 ---TTTAATCCGCTCCAC--TACAACTTCAGGGAGATAAGATTATGC
* * * * * * *
23985763 TTCTTCAGTCTGC-CCTACTGCAACCTCAAGAAGATAAGACCTGATGC
1 -T-TT-AATCCGCTCC-ACTACAACTTCAGGGAGATAAGA--TTATGC
* * * * * * * *
23985810 ---GATCCACTCTACTGCAACTTCAGAGAAATCAGATCTATTAC
1 TTTAATCCGCTCCACTACAACTTCAGGGAGATAAGAT-TA-TGC
*
23985851 TTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATGC
1 TTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATTATGC
* *
23985893 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATT
23985931 TGCCATCTTC
Statistics
Matches: 156, Mismatches: 36, Indels: 36
0.68 0.16 0.16
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 22 0.14
42 40 0.26
43 9 0.06
44 74 0.47
45 3 0.02
46 3 0.02
47 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (42 bp):
TTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATTATGC
Found at i:23986212 original size:88 final size:88
Alignment explanation
Indices: 23986063--23986497 Score: 690
Period size: 88 Copynumber: 4.9 Consensus size: 88
23986053 AAGATTCGCC
* * * * * *
23986063 GTCTTCGATCTGCTTCACAGTCGATACAGAAAGGCAAAATCTGCTATCCTCAACCAGCTCCATTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
*
23986128 CAACTGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* *
23986151 GTCTTCGATCTACTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACTAGCTCCACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
23986216 CAACCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
*
23986239 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
* *
23986304 CAACCAAGGGAGGCAAGGTTTAT
66 CAACCGAGGGAGGCAAGGTTTGT
* * * *
23986327 GTCTTCGATCTACTTCACTGTCGATACAGGAAGGCAAGATTTGCTATCTTCAACCAGTTCCACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
* *
23986392 CAACTGAGGGAGGTAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* *
23986415 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCCACCAGCTCCACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
23986480 CAACCGAGGGAGGCAAGG
66 CAACCGAGGGAGGCAAGG
23986498 ATCTTCACTG
Statistics
Matches: 316, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 316 1.00
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (88 bp):
GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
CAACCGAGGGAGGCAAGGTTTGT
Found at i:23987675 original size:6 final size:7
Alignment explanation
Indices: 23987659--23987692 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
23987649 TCGTCATTAC
23987659 TTTTCAT
1 TTTTCAT
23987666 TTTTCA-
1 TTTTCAT
23987672 TTTTCAT
1 TTTTCAT
23987679 TTTTCAT
1 TTTTCAT
23987686 TTTTCAT
1 TTTTCAT
23987693 CCTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:23987677 original size:13 final size:13
Alignment explanation
Indices: 23987659--23987688 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
23987649 TCGTCATTAC
23987659 TTTTCATTTTTCA
1 TTTTCATTTTTCA
23987672 TTTTCATTTTTCA
1 TTTTCATTTTTCA
23987685 TTTT
1 TTTT
23987689 TCATCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:23988693 original size:25 final size:25
Alignment explanation
Indices: 23988638--23988690 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
23988628 TTGATTTTGA
23988638 TTTTGATTTTTCTTCTTTTTTGTAT
1 TTTTGATTTTTCTTCTTTTTTGTAT
* *
23988663 TTTTGATTTTTGTT-TTTTTTTTAT
1 TTTTGATTTTTCTTCTTTTTTGTAT
23988687 TTTT
1 TTTT
23988691 TGAATTGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.08, C:0.04, G:0.08, T:0.81
Consensus pattern (25 bp):
TTTTGATTTTTCTTCTTTTTTGTAT
Found at i:23992101 original size:992 final size:992
Alignment explanation
Indices: 23990169--23992155 Score: 3650
Period size: 992 Copynumber: 2.0 Consensus size: 992
23990159 TCTTTCCGCT
23990169 TCTCACGGCACTTTCAATCATTTCACCGCTCATGACTATGTCAGAAAAGCTTTTTGTAGCACTTC
1 TCTCACGGCACTTTCAATCATTTCACCGCTCATGACTATGTCAGAAAAGCTTTTTGTAGCACTTC
23990234 CTAACATGTGTGTGATGAAAGGGGCTTTAAGTGTGTTGATAAAGAGCATCATCATTTCTTTCTCT
66 CTAACATGTGTGTGATGAAAGGGGCTTTAAGTGTGTTGATAAAGAGCATCATCATTTCTTTCTCT
* *
23990299 AGGACTGGGGGCTGAACTTGAACCGCGATCTCTCTCCACCTCTGCGCATACTGTCTAAAACTTTC
131 AGGACTGGAGGCTGAACCTGAACCGCGATCTCTCTCCACCTCTGCGCATACTGTCTAAAACTTTC
23990364 ATTTGATTTCTTTTCCAAATTTTGCAAGGTGATTCTGTCAGGCATTATCTCTGATACATGACTGT
196 ATTTGATTTCTTTTCCAAATTTTGCAAGGTGATTCTGTCAGGCATTATCTCTGATACATGACTGT
23990429 ATTGCTTCATAAAAGCCTGCGCCAAATCCCTCCAAGAACTAATTTGGCTACGGCTCAAATGATTA
261 ATTGCTTCATAAAAGCCTGCGCCAAATCCCTCCAAGAACTAATTTGGCTACGGCTCAAATGATTA
23990494 TACCACCTAGATGCCGCTCCAATGAGGCTATCCTGAAAACAATGTATTAATAGCTGATCGTTGTT
326 TACCACCTAGATGCCGCTCCAATGAGGCTATCCTGAAAACAATGTATTAATAGCTGATCGTTGTT
*
23990559 AATGTACCCCGTCATTCTCCTACAGAACATGGTGATATGGGCTTCTGGGCAACTAGTCCCACTAT
391 AATGTACCCCGTCATTCTCCTACAAAACATGGTGATATGGGCTTCTGGGCAACTAGTCCCACTAT
* * *
23990624 ATTTTTCAAATTTAGGCATCTTAAACTTGTGAGGGAGTACTAAGTTTGGAACCAAGCTCAAATCT
456 ATTTCTAAAATTTAGGCATCTTAAACTTGTGAGGGAGTACTAAGTCTGGAACCAAGCTCAAATCT
*
23990689 TTTGTATCGATTCCATGATGACTATCAACGCTTTCCACGGCTTTGAATTTTTCCTCCAACCATTT
521 TTTGCATCGATTCCATGATGACTATCAACGCTTTCCACGGCTTTGAATTTTTCCTCCAACCATTT
* ** * *
23990754 ACACCTATCCTCCTATTGTTTTGGTAGTTCGACGTTTGCCTTCTCTTTTTTAGTCATTTCATCGA
586 ACACCTATCCTCCCATTGTTTTGACAGTTCGACGTTTGCCTTCTCTTTTTCAGCCATTTCATCGA
*
23990819 AATCAGGAATAACAAGATTCACTAGGTTATCTCTAGGATTAGAACCTAATCCAGCCTGAAAGTTT
651 AATCAGGAATAACAAGATTCACTAGGTTATCTCTAGGATTAGAACCTAATCCAGCCTGAAAGTTC
23990884 GTCGGTATTGAAACATCAGTTTGAAACTGTTGAGGCCCAATTGAAACAAAGGATCTATGCGGAGG
716 GTCGGTATTGAAACATCAGTTTGAAACTGTTGAGGCCCAATTGAAACAAAGGATCTATGCGGAGG
* *
23990949 TACCTCAGTCTAAATCTACGCATGCAGAGGCGTAAAACCTAGAGGATTGATAGGTCTATCGTTGT
781 TACCTCAGTCTAAATCTACGCATGCAGAGGCGTAAAACCTAGAGGATAGATAGGTCTATCCTTGT
23991014 CTTCTCCTTCATCATTTACCAGAGGGCCTTTCCCCATATTTATTCCTTTTAGTAATTGCATCAGC
846 CTTCTCCTTCATCATTTACCAGAGGGCCTTTCCCCATATTTATTCCTTTTAGTAATTGCATCAGC
23991079 TCAGTCATCATGTCCTTTTGAAACTTCAGCATCCTTTCTGTCATGTCCTGTTAAATTTTTTCCAA
911 TCAGTCATCATGTCCTTTTGAAACTTCAGCATCCTTTCTGTCATGTCCTGTTAAATTTTTTCCAA
23991144 TTGCTCCTTCATTTGAA
976 TTGCTCCTTCATTTGAA
23991161 TCTCACGGCACTTTCAATCATTTCACCGCTCATGACTATGTCAGAAAAGCTTTTTGTAGCACTTC
1 TCTCACGGCACTTTCAATCATTTCACCGCTCATGACTATGTCAGAAAAGCTTTTTGTAGCACTTC
*
23991226 CTAACATGTGTGTGATGAAAGGGGCTTTAAGTGTGTTGATAAAGAGCATCGTCATTTCTTTCTCT
66 CTAACATGTGTGTGATGAAAGGGGCTTTAAGTGTGTTGATAAAGAGCATCATCATTTCTTTCTCT
* *
23991291 AGGAGTGGAGGCTGAACCTGAACTGCGATCTCTCTCCACCTCTGCGCATACTGTCTAAAACTTTC
131 AGGACTGGAGGCTGAACCTGAACCGCGATCTCTCTCCACCTCTGCGCATACTGTCTAAAACTTTC
23991356 ATTTGATTTCTTTTCCAAATTTTGCAAGGTGATTCTGTCAGGCATTATCTCTGATACATGACTGT
196 ATTTGATTTCTTTTCCAAATTTTGCAAGGTGATTCTGTCAGGCATTATCTCTGATACATGACTGT
* *
23991421 ATTGCTTCATAAAAGTCTGCGCTAAATCCCTCCAAGAACTAATTTGGCTACGGCTCAAATGATTA
261 ATTGCTTCATAAAAGCCTGCGCCAAATCCCTCCAAGAACTAATTTGGCTACGGCTCAAATGATTA
23991486 TACCACCTAGATGCCGCTCCAATGAGGCTATCCTGAAAACAATGTATTAATAGCTGATCGTTGTT
326 TACCACCTAGATGCCGCTCCAATGAGGCTATCCTGAAAACAATGTATTAATAGCTGATCGTTGTT
*
23991551 AATGTACCCCGTCATTCTCCTACAAAACATGGTTATATGGGCTTCTGGGCAACTAGTCCCACTAT
391 AATGTACCCCGTCATTCTCCTACAAAACATGGTGATATGGGCTTCTGGGCAACTAGTCCCACTAT
* *
23991616 ATTTCTAAAATTTAGGCATCTTAAACTTGTGAGGGAGTACTAAGTCTGGAATCAAGCTCAGATCT
456 ATTTCTAAAATTTAGGCATCTTAAACTTGTGAGGGAGTACTAAGTCTGGAACCAAGCTCAAATCT
* *
23991681 TTTGCATCGATTCCATGGTGACTATCAACGCTTTCCAGGGCTTTGAATTTTTCCTCCAACCATTT
521 TTTGCATCGATTCCATGATGACTATCAACGCTTTCCACGGCTTTGAATTTTTCCTCCAACCATTT
23991746 ACACCTATCCTCCCATTGTTTTGACAGTTCGACGTTTGCCTTCTCTTTTTCAGCCATTTCATCGA
586 ACACCTATCCTCCCATTGTTTTGACAGTTCGACGTTTGCCTTCTCTTTTTCAGCCATTTCATCGA
* *
23991811 AATCAGGAATAACAAGATTCACTGGGTTATCTTTAGGATTAGAACCTAATCCAGCCTGAAAGTTC
651 AATCAGGAATAACAAGATTCACTAGGTTATCTCTAGGATTAGAACCTAATCCAGCCTGAAAGTTC
*
23991876 GTCGGTATTGAAACATCAGTTTGAAACTGTTGAGGCCCAATTGAAACAGAGGATCTATGCGGAGG
716 GTCGGTATTGAAACATCAGTTTGAAACTGTTGAGGCCCAATTGAAACAAAGGATCTATGCGGAGG
* * *
23991941 TACCTCGGTCTAAATCTGCGCATGCAGAGGCGTAAAGCCTAGAGGATAGATAGGTCTATCCTTGT
781 TACCTCAGTCTAAATCTACGCATGCAGAGGCGTAAAACCTAGAGGATAGATAGGTCTATCCTTGT
* *
23992006 CTTCTCCTTCATCATTTACCATAGGGCCTTTCCCCTTATTTATTCCTTTTAGTAATTGCATCAGC
846 CTTCTCCTTCATCATTTACCAGAGGGCCTTTCCCCATATTTATTCCTTTTAGTAATTGCATCAGC
* *
23992071 TCAGTCATCATGTCCTTTTGAGAGTTCAGCATCCTTTCTGTCATGTCCTGTTAAATTTTTTCCAA
911 TCAGTCATCATGTCCTTTTGAAACTTCAGCATCCTTTCTGTCATGTCCTGTTAAATTTTTTCCAA
*
23992136 TTGCTCCTTCATTTGCA
976 TTGCTCCTTCATTTGAA
23992153 TCT
1 TCT
23992156 GTAACTGATC
Statistics
Matches: 959, Mismatches: 36, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
992 959 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (992 bp):
TCTCACGGCACTTTCAATCATTTCACCGCTCATGACTATGTCAGAAAAGCTTTTTGTAGCACTTC
CTAACATGTGTGTGATGAAAGGGGCTTTAAGTGTGTTGATAAAGAGCATCATCATTTCTTTCTCT
AGGACTGGAGGCTGAACCTGAACCGCGATCTCTCTCCACCTCTGCGCATACTGTCTAAAACTTTC
ATTTGATTTCTTTTCCAAATTTTGCAAGGTGATTCTGTCAGGCATTATCTCTGATACATGACTGT
ATTGCTTCATAAAAGCCTGCGCCAAATCCCTCCAAGAACTAATTTGGCTACGGCTCAAATGATTA
TACCACCTAGATGCCGCTCCAATGAGGCTATCCTGAAAACAATGTATTAATAGCTGATCGTTGTT
AATGTACCCCGTCATTCTCCTACAAAACATGGTGATATGGGCTTCTGGGCAACTAGTCCCACTAT
ATTTCTAAAATTTAGGCATCTTAAACTTGTGAGGGAGTACTAAGTCTGGAACCAAGCTCAAATCT
TTTGCATCGATTCCATGATGACTATCAACGCTTTCCACGGCTTTGAATTTTTCCTCCAACCATTT
ACACCTATCCTCCCATTGTTTTGACAGTTCGACGTTTGCCTTCTCTTTTTCAGCCATTTCATCGA
AATCAGGAATAACAAGATTCACTAGGTTATCTCTAGGATTAGAACCTAATCCAGCCTGAAAGTTC
GTCGGTATTGAAACATCAGTTTGAAACTGTTGAGGCCCAATTGAAACAAAGGATCTATGCGGAGG
TACCTCAGTCTAAATCTACGCATGCAGAGGCGTAAAACCTAGAGGATAGATAGGTCTATCCTTGT
CTTCTCCTTCATCATTTACCAGAGGGCCTTTCCCCATATTTATTCCTTTTAGTAATTGCATCAGC
TCAGTCATCATGTCCTTTTGAAACTTCAGCATCCTTTCTGTCATGTCCTGTTAAATTTTTTCCAA
TTGCTCCTTCATTTGAA
Found at i:23995426 original size:47 final size:47
Alignment explanation
Indices: 23995345--23995738 Score: 583
Period size: 47 Copynumber: 8.4 Consensus size: 47
23995335 AATGTGAAAG
*
23995345 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
23995393 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
23995440 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
23995487 TGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
23995534 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTAAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
23995581 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
23995628 TGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
23995675 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
23995721 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
23995739 TCCCGAAGGG
Statistics
Matches: 321, Mismatches: 24, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 308 0.96
48 12 0.04
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:23997753 original size:40 final size:40
Alignment explanation
Indices: 23997696--23998118 Score: 665
Period size: 40 Copynumber: 10.6 Consensus size: 40
23997686 TCGAATGATG
* *
23997696 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
23997736 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
23997776 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
23997816 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
23997856 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
23997896 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
23997936 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
23997976 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
23998016 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
23998056 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
23998096 TCCGTGCTAAATCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
23998119 ATCATGCTGG
Statistics
Matches: 358, Mismatches: 21, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.00
40 337 0.94
41 20 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:24002434 original size:22 final size:21
Alignment explanation
Indices: 24002366--24002477 Score: 72
Period size: 21 Copynumber: 5.3 Consensus size: 21
24002356 CATGTATATG
24002366 TGTGATAAGGCGAATGGCCAA
1 TGTGATAAGGCGAATGGCCAA
* * *
24002387 TGTGATGAA-GTGAATGTG-TATG
1 TGTGAT-AAGGCGAATG-GCCA-A
24002409 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGG-CGAATGGCCAA
* * **
24002431 TGTGATGAAAGTGAAT-G-TTA
1 TGTGAT-AAGGCGAATGGCCAA
24002451 TGGTGATAA-GCGAATGGCCAA
1 T-GTGATAAGGCGAATGGCCAA
24002472 TGTGAT
1 TGTGAT
24002478 GAAAGTGAAC
Statistics
Matches: 68, Mismatches: 13, Indels: 21
0.67 0.13 0.21
Matches are distributed among these distances:
19 5 0.07
20 10 0.15
21 23 0.34
22 21 0.31
23 9 0.13
ACGTcount: A:0.31, C:0.09, G:0.33, T:0.27
Consensus pattern (21 bp):
TGTGATAAGGCGAATGGCCAA
Found at i:24002475 original size:85 final size:91
Alignment explanation
Indices: 24002300--24002676 Score: 511
Period size: 85 Copynumber: 4.2 Consensus size: 91
24002290 TAATTGAATA
* *
24002300 AATGTGAAAGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATAT
1 AATGTG-AA-TGTGTATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTG-ACATGTATAT
24002365 GTGTGATAAGG-CGAATGGCCAATGTGATG
62 GTGTGATAAGGCCGAATGGCCAATGTGATG
24002394 AA-GTGAATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGA-ATGT-TATG-GT
1 AATGTGAATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGACATGTATATGTGT
24002455 GATAA-G-CGAATGGCCAATGTGATG
66 GATAAGGCCGAATGGCCAATGTGATG
* * * *
24002479 AAAGTGAA-CTGTATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTAACATGTATATGT-T
1 AATGTGAATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGACATGTATATGTGT
24002542 GATAAGGCCGAATGGCCAATGTGATG
66 GATAAGGCCGAATGGCCAATGTGATG
* * *
24002568 AATGTGAACATGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCATGTGTATG
1 AATGTG-A-ATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGA-CATGTATATG
* * *
24002633 TGAGATAAGGCCTAATGGCCGATGTGATG
63 TGTGATAAGGCCGAATGGCCAATGTGATG
*
24002662 AATGTGAAAGTGTAT
1 AATGTGAATGTGTAT
24002677 AAATGTGATA
Statistics
Matches: 256, Mismatches: 16, Indels: 24
0.86 0.05 0.08
Matches are distributed among these distances:
85 61 0.24
86 16 0.06
87 14 0.05
88 5 0.02
89 24 0.09
90 31 0.12
91 12 0.05
92 47 0.18
93 14 0.05
94 32 0.12
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (91 bp):
AATGTGAATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGACATGTATATGTGT
GATAAGGCCGAATGGCCAATGTGATG
Found at i:24002610 original size:47 final size:47
Alignment explanation
Indices: 24002314--24002676 Score: 490
Period size: 47 Copynumber: 8.1 Consensus size: 47
24002304 TGAAAGTGTA
* *
24002314 TATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACATGTA
1 TATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
24002362 TATGTGTGATAAGG-CGAATGGCCAATGTGATG-AAGTG-A-ATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
24002405 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTG-A-ATGT-
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
24002449 TATG-GTGATAA-G-CGAATGGCCAATGTGATGAAAGTGAAC---TG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
* *
24002490 TATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGT-AACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
*
24002536 TATGT-TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
* * *
24002582 TATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
* * * *
24002629 TATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A-GTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
24002674 TAT
1 TAT
24002677 AAATGTGATA
Statistics
Matches: 289, Mismatches: 13, Indels: 29
0.87 0.04 0.09
Matches are distributed among these distances:
40 1 0.00
41 28 0.10
42 9 0.03
43 29 0.10
44 46 0.16
45 51 0.18
46 37 0.13
47 80 0.28
48 8 0.03
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
Found at i:24012403 original size:40 final size:42
Alignment explanation
Indices: 24012314--24012406 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
24012304 CAGAGCACGT
* **
24012314 GCGTGTGTCCTAGCCGTGTGTGCTACACAGGTAGAGACATGG
1 GCGTGTGTCTTAGCCGTGTGTGCTACACAGGTAGAGACATCA
* *
24012356 GCATGTGTCTTAGCCGTGTGTGCTACAC-GGCTTGA-ACA-CA
1 GCGTGTGTCTTAGCCGTGTGTGCTACACAGG-TAGAGACATCA
24012396 GCGTGTGTCTT
1 GCGTGTGTCTT
24012407 GGTCGAGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
40 10 0.23
41 5 0.11
42 29 0.66
ACGTcount: A:0.17, C:0.23, G:0.32, T:0.28
Consensus pattern (42 bp):
GCGTGTGTCTTAGCCGTGTGTGCTACACAGGTAGAGACATCA
Found at i:24014264 original size:21 final size:21
Alignment explanation
Indices: 24014240--24014301 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
24014230 TTGTAAATTA
24014240 TAAACTATAAACCTTAAACCC
1 TAAACTATAAACCTTAAACCC
* *
24014261 TAAA-TATTAAACCTTGAATCC
1 TAAACTA-TAAACCTTAAACCC
* *
24014282 TAAACCATAAAACCCTAAAC
1 TAAACTAT-AAACCTTAAAC
24014302 TATAAACAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 21 0.66
22 9 0.28
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAACTATAAACCTTAAACCC
Found at i:24024958 original size:40 final size:40
Alignment explanation
Indices: 24024898--24025206 Score: 546
Period size: 40 Copynumber: 7.7 Consensus size: 40
24024888 TGAGCATTGG
24024898 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
24024938 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
24024978 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
24025018 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
24025058 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
24025098 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
24025138 GATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
24025178 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
24025207 ATGTGTTTGC
Statistics
Matches: 264, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:24033052 original size:48 final size:47
Alignment explanation
Indices: 24032978--24033085 Score: 180
Period size: 48 Copynumber: 2.3 Consensus size: 47
24032968 TTGAGGCCTG
* *
24032978 GGACATGGTTGGAGAGATAAGGAAATGTGAGCTAAGCTCCATTCAAC
1 GGACATGTTTGGAGAGATAAGAAAATGTGAGCTAAGCTCCATTCAAC
24033025 AGGACATGTTTGGAGAGATAAGAAAATGTGAGCTAAGCTCCATTCAAC
1 -GGACATGTTTGGAGAGATAAGAAAATGTGAGCTAAGCTCCATTCAAC
24033073 GAGACATGTTTGG
1 G-GACATGTTTGG
24033086 TGTGCTAGAG
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
47 1 0.02
48 56 0.98
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (47 bp):
GGACATGTTTGGAGAGATAAGAAAATGTGAGCTAAGCTCCATTCAAC
Found at i:24041041 original size:42 final size:42
Alignment explanation
Indices: 24040985--24041068 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
24040975 ATATTTTATT
* **
24040985 TTATCTTTTGGTAGTTTATTAGAATAAGGGAATTGTTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATAATTTTCCC
*
24041027 TTATGTTTTAGTAGTTTATTAGAATAAGGGAATAATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATAATTTTCCC
24041069 AATTAGGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.46
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGGGAATAATTTTCCC
Found at i:24046510 original size:23 final size:24
Alignment explanation
Indices: 24046483--24046540 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 24
24046473 ATAGTACTAC
24046483 ACATGT-GACCATCACTATTTGAT
1 ACATGTAGACCATCACTATTTGAT
24046506 ACATGTAGTAGACCATCACTATTTGAT
1 ACA--T-GTAGACCATCACTATTTGAT
24046533 ACATGTAG
1 ACATGTAG
24046541 TAGCCTGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 3 0.10
24 4 0.13
25 2 0.06
26 2 0.06
27 20 0.65
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (24 bp):
ACATGTAGACCATCACTATTTGAT
Found at i:24046519 original size:27 final size:27
Alignment explanation
Indices: 24046489--24046543 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
24046479 CTACACATGT
24046489 GACCATCACTATTTGATACATGTAGTA
1 GACCATCACTATTTGATACATGTAGTA
24046516 GACCATCACTATTTGATACATGTAGTA
1 GACCATCACTATTTGATACATGTAGTA
24046543 G
1 G
24046544 CCTGCACATA
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:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (27 bp):
GACCATCACTATTTGATACATGTAGTA
Found at i:24046614 original size:51 final size:51
Alignment explanation
Indices: 24046538--24046720 Score: 271
Period size: 51 Copynumber: 3.6 Consensus size: 51
24046528 TTGATACATG
24046538 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTGTCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTGTCTGGTACGCA
24046589 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTGTCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTGTCTGGTACGCA
* * ** * * *
24046640 TAGTAGCCTGCACATAGTACTACACATGCGA-CCTATCAT-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TGTCTGGTACGCA
*
24046690 TAGTAACCTGCACATAGTACTACACACGTGA
1 TAGTAGCCTGCACATAGTACTACACACGTGA
24046721 CCATCACTTT
Statistics
Matches: 121, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
50 40 0.33
51 81 0.67
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTGTCTGGTACGCA
Found at i:24046714 original size:101 final size:102
Alignment explanation
Indices: 24046538--24046720 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 102
24046528 TTGATACATG
* * * *
24046538 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTGTCTGGTACGCATAGTAGCCTGCACA
1 TAGTAGCCTGCACATAGTACTACACACGCGATCCAAGCTGTCTGGTACACATAGTAACCTGCACA
24046603 TAGTACTACACACGTGATCGAAGCTGTCTGGTACGCA
66 TAGTACTACACACGTGATCGAAGCTGTCTGGTACGCA
* * * *
24046640 TAGTAGCCTGCACATAGTACTACACATGCGA-CCTATCAT-TCTGGTACACGTAGTAACCTGCAC
1 TAGTAGCCTGCACATAGTACTACACACGCGATCCAAGC-TGTCTGGTACACATAGTAACCTGCAC
24046703 ATAGTACTACACACGTGA
65 ATAGTACTACACACGTGA
24046721 CCATCACTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
101 42 0.58
102 30 0.42
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (102 bp):
TAGTAGCCTGCACATAGTACTACACACGCGATCCAAGCTGTCTGGTACACATAGTAACCTGCACA
TAGTACTACACACGTGATCGAAGCTGTCTGGTACGCA
Found at i:24048687 original size:16 final size:16
Alignment explanation
Indices: 24048653--24048686 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
24048643 TTTTTGTTAC
*
24048653 AAAGAGAGGAAGAGAA
1 AAAGAGAGGAAGAAAA
24048669 AAAGAGA-GAAGAAAA
1 AAAGAGAGGAAGAAAA
24048684 AAA
1 AAA
24048687 ACAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AAAGAGAGGAAGAAAA
Found at i:24049859 original size:157 final size:157
Alignment explanation
Indices: 24049573--24049890 Score: 503
Period size: 157 Copynumber: 2.0 Consensus size: 157
24049563 TTATGCATGT
* * *
24049573 TTTGGGTAGGTTTGATTTCTTGGTCATATAGGCAAATGTGGTAAGGTAAATGCTTGAGGTAGGTG
1 TTTGGGTAGGTTTGATTCCTTGGTCATATAGGCAAATGTGATAAGATAAATGCTTGAGGTAGGTG
* * * *
24049638 AAGGAAATGGCTTCATTTTGGCCAATTTCTTGTCCACACGGCTTAAGACATGGGCATGTGTCTTA
66 AAGGAAATGGCTTCATGTTGGCCAATTTCTTGTCCACACGACCTAAGACACGGGCATGTGTCTTA
**
24049703 GTTGTGTGTCCCTTGTAGATTTCAAAG
131 CCTGTGTGTCCCTTGTAGATTTCAAAG
* *
24049730 TTTGGGTAGGTTTGATTCCTTGGTCATAT-GTGCAAATGTGATTAGATAAATGCTTGAGGTGGGT
1 TTTGGGTAGGTTTGATTCCTTGGTCATATAG-GCAAATGTGATAAGATAAATGCTTGAGGTAGGT
* *
24049794 GAAGGAAATGGCTTCATGTTGGCCAATTTCTTGTCCACACGACCTAAGATACGGGCTTGTGTCTT
65 GAAGGAAATGGCTTCATGTTGGCCAATTTCTTGTCCACACGACCTAAGACACGGGCATGTGTCTT
24049859 ACCTGTGTGTCCCTTGTAGATTTCAAAG
130 ACCTGTGTGTCCCTTGTAGATTTCAAAG
24049887 TTTG
1 TTTG
24049891 CAAGTCTGAC
Statistics
Matches: 147, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
156 1 0.01
157 146 0.99
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.36
Consensus pattern (157 bp):
TTTGGGTAGGTTTGATTCCTTGGTCATATAGGCAAATGTGATAAGATAAATGCTTGAGGTAGGTG
AAGGAAATGGCTTCATGTTGGCCAATTTCTTGTCCACACGACCTAAGACACGGGCATGTGTCTTA
CCTGTGTGTCCCTTGTAGATTTCAAAG
Found at i:24050439 original size:20 final size:20
Alignment explanation
Indices: 24050389--24050431 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
24050379 TCTGTTTAGA
*
24050389 TCACATGAGTTTAATTCAGC
1 TCACATGAGCTTAATTCAGC
24050409 TCACATGAGCTTAATTCAGC
1 TCACATGAGCTTAATTCAGC
24050429 TCA
1 TCA
24050432 TTTGAGCTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (20 bp):
TCACATGAGCTTAATTCAGC
Found at i:24052010 original size:33 final size:34
Alignment explanation
Indices: 24051968--24052041 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
24051958 AATAAAATCC
* *
24051968 AAAAAGAAGAAAAAGAAAAGGCAAGTGA-AAAAG
1 AAAAAGAAGAAAAAGAAAAGGAAAATGAGAAAAG
* * *
24052001 AAAAAGAAGAAAATGAGAATGAAAATGAGAAAAG
1 AAAAAGAAGAAAAAGAAAAGGAAAATGAGAAAAG
24052035 AAAAAGA
1 AAAAAGA
24052042 GAAGTGAGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 23 0.66
34 12 0.34
ACGTcount: A:0.70, C:0.01, G:0.23, T:0.05
Consensus pattern (34 bp):
AAAAAGAAGAAAAAGAAAAGGAAAATGAGAAAAG
Found at i:24052068 original size:7 final size:6
Alignment explanation
Indices: 24051974--24052132 Score: 52
Period size: 6 Copynumber: 25.0 Consensus size: 6
24051964 ATCCAAAAAG
* * ** * *
24051974 AAGAAA AAGAAA AGGCAA GTGAAA AAGAAA AAGAAGAA AATGAGA ATGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG-A-AA AA-GAAA AAGAAA
* * ** * *
24052025 ATGAGAA AAGAAA AAG-AG AAGTGA GAGAAA AAGAAA ACGAAA AAGAGAA
1 AAGA-AA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA-AA
* ** * *
24052074 AATCGAAA AAGAAA TTA-AAA TTGAAA AAGGAA ATGAAA AAGAGAA AATCGAAA
1 AA--GAAA AAGAAA -AAGAAA AAGAAA AAGAAA AAGAAA AAGA-AA AA--GAAA
24052127 AAGAAA
1 AAGAAA
24052133 TTGAAGAAAC
Statistics
Matches: 112, Mismatches: 28, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
5 5 0.04
6 72 0.64
7 17 0.15
8 13 0.12
9 5 0.04
ACGTcount: A:0.68, C:0.03, G:0.22, T:0.08
Consensus pattern (6 bp):
AAGAAA
Found at i:24052073 original size:20 final size:20
Alignment explanation
Indices: 24051994--24052132 Score: 82
Period size: 21 Copynumber: 6.5 Consensus size: 20
24051984 AAAGGCAAGT
*
24051994 GAAAAAGAAAAAGAAGAAAAT
1 GAAAAAGAAAAAG-AGAAAAA
* * *
24052015 GAGAATGAAAATGAG-AAAA
1 GAAAAAGAAAAAGAGAAAAA
*
24052034 GAAAAAGAGAAGTGAGAGAAAAA
1 GAAAAAGA-AA--AAGAGAAAAA
* *
24052057 GAAAACGAAAAAGAGAAAATC
1 GAAAAAGAAAAAGAGAAAA-A
*
24052078 GAAAAAGAAATTAAAATTGAAAAA
1 GAAAAAGAAA--AAGA--GAAAAA
* * *
24052102 GGAAATGAAAAAGAGAAAATC
1 GAAAAAGAAAAAGAGAAAA-A
24052123 GAAAAAGAAA
1 GAAAAAGAAA
24052133 TTGAAGAAAC
Statistics
Matches: 88, Mismatches: 20, Indels: 20
0.69 0.16 0.16
Matches are distributed among these distances:
19 9 0.10
20 17 0.19
21 27 0.31
22 8 0.09
23 14 0.16
24 8 0.09
25 5 0.06
ACGTcount: A:0.68, C:0.02, G:0.22, T:0.08
Consensus pattern (20 bp):
GAAAAAGAAAAAGAGAAAAA
Found at i:24052099 original size:18 final size:19
Alignment explanation
Indices: 24052071--24052112 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
24052061 ACGAAAAAGA
24052071 GAAAATCGAAAAA-GAAAT
1 GAAAATCGAAAAAGGAAAT
* *
24052089 TAAAATTGAAAAAGGAAAT
1 GAAAATCGAAAAAGGAAAT
24052108 GAAAA
1 GAAAA
24052113 AGAGAAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.67, C:0.02, G:0.17, T:0.14
Consensus pattern (19 bp):
GAAAATCGAAAAAGGAAAT
Found at i:24054162 original size:19 final size:20
Alignment explanation
Indices: 24054138--24054178 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
24054128 ACCTAAATTC
24054138 CTATA-GCCATTTAAGTTGT
1 CTATAGGCCATTTAAGTTGT
*
24054157 CTATAGGCCATTTAATTTGT
1 CTATAGGCCATTTAAGTTGT
24054177 CT
1 CT
24054179 TAAGTCCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (20 bp):
CTATAGGCCATTTAAGTTGT
Found at i:24057278 original size:145 final size:145
Alignment explanation
Indices: 24057008--24057292 Score: 509
Period size: 145 Copynumber: 2.0 Consensus size: 145
24056998 TCCAAAGCTC
*
24057008 ATGTGAGCAGGATTGTATAGCTTACATTTCGACCCACAAATCGTGTAAAAAGGCCCATTTCATAG
1 ATGTAAGCAGGATTGTATAGCTTACATTTCGACCCACAAATCGTGTAAAAAGGCCCATTTCATAG
** *
24057073 CTTGTGTGAGCAATGACGTAAAGGAAATGTTAAGATTATGTAAAGGCACACTTCATGTGAGCTTT
66 CTCCTGTGAGCAATGACGTAAAGGAAAGGTTAAGATTATGTAAAGGCACACTTCATGTGAGCTTT
24057138 CCCAAGTATCTGATT
131 CCCAAGTATCTGATT
24057153 ATGTAAGCAGGATTGTATAGCTTACATTTCGACCCACAAATCGTGTAAAAAGGCCCATTTCATAG
1 ATGTAAGCAGGATTGTATAGCTTACATTTCGACCCACAAATCGTGTAAAAAGGCCCATTTCATAG
*
24057218 CTCCTGTGAGCAATGACGTAAAGGAAAGGTTACGATTATGTAAAGGCACACTTCGA-GTGAGCTT
66 CTCCTGTGAGCAATGACGTAAAGGAAAGGTTAAGATTATGTAAAGGCACACTTC-ATGTGAGCTT
24057282 TCCCAAGTATC
130 TCCCAAGTATC
24057293 CGATGAAATT
Statistics
Matches: 134, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
145 133 0.99
146 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (145 bp):
ATGTAAGCAGGATTGTATAGCTTACATTTCGACCCACAAATCGTGTAAAAAGGCCCATTTCATAG
CTCCTGTGAGCAATGACGTAAAGGAAAGGTTAAGATTATGTAAAGGCACACTTCATGTGAGCTTT
CCCAAGTATCTGATT
Found at i:24065368 original size:31 final size:31
Alignment explanation
Indices: 24065315--24065374 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
24065305 TAAGTTTAAG
* *
24065315 AAAATAAAAATAGCAACTAAAAGCAAAGATA
1 AAAATAAAAATAGAAACAAAAAGCAAAGATA
*
24065346 AAAATAAAAATA-AAACGAAAAAGGAAAGA
1 AAAATAAAAATAGAAAC-AAAAAGCAAAGA
24065375 AATAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.72, C:0.07, G:0.12, T:0.10
Consensus pattern (31 bp):
AAAATAAAAATAGAAACAAAAAGCAAAGATA
Found at i:24072816 original size:20 final size:20
Alignment explanation
Indices: 24072793--24072960 Score: 70
Period size: 20 Copynumber: 8.4 Consensus size: 20
24072783 TTCCATAACA
*
24072793 GTGCCCCTATTTGCACTTCG
1 GTGCCCCTATTTACACTTCG
** * *
24072813 GTGCCAATGTATACACTTCG
1 GTGCCCCTATTTACACTTCG
* * *
24072833 GTGTCTCTATTTCCAC--CAG
1 GTGCCCCTATTTACACTTC-G
* * *
24072852 TATGCCCCTATTCATACTTCG
1 -GTGCCCCTATTTACACTTCG
*
24072873 GTGCCCCTATATACACTTCG
1 GTGCCCCTATTTACACTTCG
* * * * *
24072893 GTGTCTCTATTTGCACGTCT
1 GTGCCCCTATTTACACTTCG
* * * * ** *
24072913 ATGCTCTTGTTCGCACTTCA
1 GTGCCCCTATTTACACTTCG
*
24072933 GTGCCCCTATATACACTTCG
1 GTGCCCCTATTTACACTTCG
*
24072953 GTGTCCCT
1 GTGCCCCT
24072961 GTTGCACATC
Statistics
Matches: 99, Mismatches: 45, Indels: 8
0.65 0.30 0.05
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 95 0.96
21 1 0.01
22 1 0.01
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.36
Consensus pattern (20 bp):
GTGCCCCTATTTACACTTCG
Found at i:24072916 original size:60 final size:60
Alignment explanation
Indices: 24072794--24072957 Score: 193
Period size: 60 Copynumber: 2.7 Consensus size: 60
24072784 TCCATAACAG
** ** * *
24072794 TGCCCCTATTTGCACTTCGGTGCCAATGTATACACTTCGGTGTCTCTATTTCCACCAGTA
1 TGCCCCTATTCACACTTCGGTGCCCCTATATACACTTCGGTGTCTCTATTTCCACCACTA
* * **
24072854 TGCCCCTATTCATACTTCGGTGCCCCTATATACACTTCGGTGTCTCTATTTGCACGTCTA
1 TGCCCCTATTCACACTTCGGTGCCCCTATATACACTTCGGTGTCTCTATTTCCACCACTA
* * * * *
24072914 TGCTCTTGTTCGCACTTCAGTGCCCCTATATACACTTCGGTGTC
1 TGCCCCTATTCACACTTCGGTGCCCCTATATACACTTCGGTGTC
24072958 CCTGTTGCAC
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 88 1.00
ACGTcount: A:0.16, C:0.31, G:0.16, T:0.36
Consensus pattern (60 bp):
TGCCCCTATTCACACTTCGGTGCCCCTATATACACTTCGGTGTCTCTATTTCCACCACTA
Found at i:24072996 original size:59 final size:60
Alignment explanation
Indices: 24072805--24072997 Score: 185
Period size: 60 Copynumber: 3.2 Consensus size: 60
24072795 GCCCCTATTT
** * * * * * * *
24072805 GCACTTCGGTGCCAATGTATACACTTCGGTGTCTCTATTTCCACCA-GTATGCCCCTATTC
1 GCACTTCGGTGCCCCTATATACACTTCGGTGTCCCTAGTTGCA-CATCTATGCTCCTGTTC
** * * * *
24072865 ATACTTCGGTGCCCCTATATACACTTCGGTGTCTCTATTTGCACGTCTATGCTCTTGTTC
1 GCACTTCGGTGCCCCTATATACACTTCGGTGTCCCTAGTTGCACATCTATGCTCCTGTTC
* *
24072925 GCACTTCAGTGCCCCTATATACACTTCGGTGTCCCT-GTTGCACATCTTTG-TCCCTGTTC
1 GCACTTCGGTGCCCCTATATACACTTCGGTGTCCCTAGTTGCACATCTATGCT-CCTGTTC
*
24072984 GCACTTTGGTGCCC
1 GCACTTCGGTGCCC
24072998 TTGACTACAC
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
58 1 0.01
59 30 0.27
60 79 0.72
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.36
Consensus pattern (60 bp):
GCACTTCGGTGCCCCTATATACACTTCGGTGTCCCTAGTTGCACATCTATGCTCCTGTTC
Found at i:24077280 original size:12 final size:12
Alignment explanation
Indices: 24077263--24077287 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24077253 ACTCTGATTG
24077263 GGGCTGAATCGA
1 GGGCTGAATCGA
24077275 GGGCTGAATCGA
1 GGGCTGAATCGA
24077287 G
1 G
24077288 TATTGTGAAC
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:0.24, C:0.16, G:0.44, T:0.16
Consensus pattern (12 bp):
GGGCTGAATCGA
Found at i:24078999 original size:17 final size:18
Alignment explanation
Indices: 24078974--24079007 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24078964 TTAATTTAGT
*
24078974 TCATCTTAG-TTAATAAC
1 TCATATTAGATTAATAAC
24078991 TCATATTAGATTAATAA
1 TCATATTAGATTAATAA
24079008 ATGAGTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (18 bp):
TCATATTAGATTAATAAC
Found at i:24081843 original size:45 final size:45
Alignment explanation
Indices: 24081782--24081886 Score: 149
Period size: 45 Copynumber: 2.4 Consensus size: 45
24081772 GTGTGCCCTG
* * *
24081782 CACGACCTTG-CACACGGGCATGGGAGAAGCGAAGGAATATCACA
1 CACGACCTGGACACACGGGCATGGGAGAAGCAAAGAAATATCACA
* * *
24081826 CACGGCCTGGACACACGGGTATGGGAGAAGCAAAGAAATATCATA
1 CACGACCTGGACACACGGGCATGGGAGAAGCAAAGAAATATCACA
24081871 CACGACCTGGACACAC
1 CACGACCTGGACACAC
24081887 TATCGTGTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 8 0.15
45 45 0.85
ACGTcount: A:0.35, C:0.26, G:0.28, T:0.11
Consensus pattern (45 bp):
CACGACCTGGACACACGGGCATGGGAGAAGCAAAGAAATATCACA
Found at i:24081972 original size:13 final size:13
Alignment explanation
Indices: 24081954--24081992 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
24081944 TGAAAACCCC
24081954 ACACGGTCGTGTG
1 ACACGGTCGTGTG
*
24081967 ACACGGTCGTGTA
1 ACACGGTCGTGTG
*
24081980 ACATGGTCGTGTG
1 ACACGGTCGTGTG
24081993 GCCCAACACG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.36, T:0.26
Consensus pattern (13 bp):
ACACGGTCGTGTG
Found at i:24082627 original size:25 final size:25
Alignment explanation
Indices: 24082576--24082649 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
24082566 TTTTCCATTT
*
24082576 TTATGTTCTATTATTTTATT-TTATTA
1 TTATTTTC-ATTATTTT-TTATTATTA
*
24082602 TTATTTTCATTATTTTTTATTGTTA
1 TTATTTTCATTATTTTTTATTATTA
*
24082627 TTATATTT-ATT-TGTTTTATTATT
1 TTAT-TTTCATTATTTTTTATTATT
24082650 CCTATTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
24 12 0.29
25 20 0.48
26 10 0.24
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.72
Consensus pattern (25 bp):
TTATTTTCATTATTTTTTATTATTA
Found at i:24084574 original size:16 final size:15
Alignment explanation
Indices: 24084553--24084582 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24084543 GTTCGGTTTA
24084553 GGATAGAAACAAGGTG
1 GGATAGAAA-AAGGTG
24084569 GGATAGAAAAAGGT
1 GGATAGAAAAAGGT
24084583 AATTGATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.03, G:0.37, T:0.13
Consensus pattern (15 bp):
GGATAGAAAAAGGTG
Found at i:24086080 original size:18 final size:18
Alignment explanation
Indices: 24086040--24086080 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
24086030 TGTCCAGATT
*
24086040 TTTAAACAAATTTATTAA
1 TTTAAACAAATTTACTAA
* *
24086058 GTTAAACTAATTTACTAA
1 TTTAAACAAATTTACTAA
24086076 TTTAA
1 TTTAA
24086081 CTAGCAGCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (18 bp):
TTTAAACAAATTTACTAA
Found at i:24087325 original size:15 final size:16
Alignment explanation
Indices: 24087302--24087348 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
24087292 TTTTTCACAC
24087302 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
*
24087318 TCAT-TTCTTTTTCTC
1 TCATCTTCTTTTTCTT
*
24087333 TCA-CTT-TTTTTATT
1 TCATCTTCTTTTTCTT
24087347 TC
1 TC
24087349 TTTTTCACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 8 0.30
15 15 0.56
16 4 0.15
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.68
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:24087325 original size:33 final size:34
Alignment explanation
Indices: 24087248--24087348 Score: 92
Period size: 36 Copynumber: 3.1 Consensus size: 34
24087238 TTTTGCACTC
24087248 TCATTTCTTTCTTCAATCTCACTCTCTTTTTCAGTTT
1 TCATTTCTTT-TTCAATCTCACTCTCTTTTTCA--TT
*
24087285 TCTTTTCTTTTTCACA-CTCA-TCTTCTTTTTC-TT
1 TCATTTCTTTTTCA-ATCTCACTC-TCTTTTTCATT
24087318 TCATTTCTTTTTC--TCTCACT-T-TTTTT-ATT
1 TCATTTCTTTTTCAATCTCACTCTCTTTTTCATT
24087347 TC
1 TC
24087349 TTTTTCACAT
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
29 9 0.16
30 1 0.02
31 4 0.07
32 1 0.02
33 14 0.25
35 2 0.04
36 16 0.28
37 10 0.18
ACGTcount: A:0.11, C:0.26, G:0.01, T:0.62
Consensus pattern (34 bp):
TCATTTCTTTTTCAATCTCACTCTCTTTTTCATT
Found at i:24093166 original size:14 final size:15
Alignment explanation
Indices: 24093149--24093179 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
24093139 TTCAGTCTTA
24093149 TTTTTATT-GTTGTT
1 TTTTTATTAGTTGTT
24093163 TTTTTATTAGTTGTT
1 TTTTTATTAGTTGTT
24093178 TT
1 TT
24093180 ATTTGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.10, C:0.00, G:0.13, T:0.77
Consensus pattern (15 bp):
TTTTTATTAGTTGTT
Found at i:24097502 original size:17 final size:17
Alignment explanation
Indices: 24097480--24097514 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24097470 GTAAAAAATC
24097480 ATAAAACATACAGTAAA
1 ATAAAACATACAGTAAA
* *
24097497 ATAAAACTTACATTAAA
1 ATAAAACATACAGTAAA
24097514 A
1 A
24097515 ACACTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.23
Consensus pattern (17 bp):
ATAAAACATACAGTAAA
Found at i:24102550 original size:24 final size:25
Alignment explanation
Indices: 24102521--24102589 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
24102511 CAAATAATAA
24102521 AATAATAATACAACATAACTTTTA-
1 AATAATAATACAACATAACTTTTAG
*
24102545 AGTAATAATACATA-ATAA-TTTTAG
1 AATAATAATACA-ACATAACTTTTAG
24102569 AATAATAATAC-ACGATAACTT
1 AATAATAATACAAC-ATAACTT
24102590 CCAAATTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 1 0.03
23 5 0.13
24 29 0.76
25 3 0.08
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (25 bp):
AATAATAATACAACATAACTTTTAG
Found at i:24103466 original size:13 final size:13
Alignment explanation
Indices: 24103448--24103472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24103438 AAAAGAATCC
24103448 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
24103461 AAAGAAGAAAAA
1 AAAGAAGAAAAA
24103473 TCTGCAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:24104339 original size:44 final size:44
Alignment explanation
Indices: 24104275--24104525 Score: 322
Period size: 44 Copynumber: 5.7 Consensus size: 44
24104265 GTAATTGTCA
* * * *
24104275 ACCTACTCCACAGCTAGTCAGGGAGCTAGGACTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
*
24104319 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * * *
24104363 ACCTATTCCAATGCTGTTCAGGGAGCTAGAATTTACAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * * * * ** *
24104407 GCCTATTCCACTACTGTTCAGGAATCTAGGACTTTTAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
*
24104451 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* *
24104495 ACCTATTCCACTGCTGTTCAGGGAGATAGGA
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGA
24104526 TATATAGTTT
Statistics
Matches: 176, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 176 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (44 bp):
ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
Found at i:24105879 original size:30 final size:29
Alignment explanation
Indices: 24105822--24105878 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
24105812 TCATTTTTTA
*
24105822 TTTTGACTTTGATTAATTTTTCTTTTTTGC
1 TTTTGACTTTGATT-ATTTTCCTTTTTTGC
24105852 TTTTGACTTTGATT-TTTCTCCTTTTTT
1 TTTTGACTTTGATTATTT-TCCTTTTTT
24105879 TAATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 3 0.12
29 8 0.32
30 14 0.56
ACGTcount: A:0.11, C:0.12, G:0.09, T:0.68
Consensus pattern (29 bp):
TTTTGACTTTGATTATTTTCCTTTTTTGC
Found at i:24107541 original size:11 final size:11
Alignment explanation
Indices: 24107525--24107553 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24107515 ACTTGGACTG
24107525 CAACCTCTCTC
1 CAACCTCTCTC
24107536 CAACCTCTCTC
1 CAACCTCTCTC
24107547 C-ACCTCT
1 CAACCTCT
24107554 GTGCATACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.17, C:0.55, G:0.00, T:0.28
Consensus pattern (11 bp):
CAACCTCTCTC
Found at i:24110316 original size:24 final size:25
Alignment explanation
Indices: 24110275--24110343 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 25
24110265 CAAATAATAA
* **
24110275 AATAATAATAAAGCATAACTTTTA-
1 AATAATAATACATAATAACTTTTAG
*
24110299 AGTAATAATACATAATAA-TTTTAG
1 AATAATAATACATAATAACTTTTAG
*
24110323 AATAATAATACATGATAACTT
1 AATAATAATACATAATAACTT
24110344 CAAAAATATG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 5 0.14
24 30 0.81
25 2 0.05
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (25 bp):
AATAATAATACATAATAACTTTTAG
Found at i:24111222 original size:13 final size:13
Alignment explanation
Indices: 24111204--24111228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24111194 AAAAGAATCC
24111204 AAAGAAGAAAAAG
1 AAAGAAGAAAAAG
24111217 AAAGAAGAAAAA
1 AAAGAAGAAAAA
24111229 TCTACAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:24121392 original size:17 final size:16
Alignment explanation
Indices: 24121370--24121404 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
24121360 ACCACCAAAT
*
24121370 TGACACTTGAAGATCAG
1 TGACACTAGAAGAT-AG
24121387 TGACACTAGAAGATAG
1 TGACACTAGAAGATAG
24121403 TG
1 TG
24121405 GCTTGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (16 bp):
TGACACTAGAAGATAG
Found at i:24123672 original size:20 final size:20
Alignment explanation
Indices: 24123638--24123679 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
24123628 AACTATTTAA
** *
24123638 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
24123658 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
24123678 AT
1 AT
24123680 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:24140591 original size:20 final size:20
Alignment explanation
Indices: 24140568--24140616 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
24140558 TTGCATGTTT
* *
24140568 GTGCTCCTGTTTGCACTTTA
1 GTGCCCCTGTTCGCACTTTA
*
24140588 GTGCCCCTGTTCGCACTTTG
1 GTGCCCCTGTTCGCACTTTA
24140608 GTGCCCCTG
1 GTGCCCCTG
24140617 ACTGCACGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.06, C:0.33, G:0.24, T:0.37
Consensus pattern (20 bp):
GTGCCCCTGTTCGCACTTTA
Found at i:24140623 original size:20 final size:19
Alignment explanation
Indices: 24140579--24140623 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
24140569 TGCTCCTGTT
*
24140579 TGCACTTTAGTGCCCCTGT
1 TGCACTTTAGTGCCCCTGC
*
24140598 TCGCACTTTGGTGCCCCTGAC
1 T-GCACTTTAGTGCCCCTG-C
24140619 TGCAC
1 TGCAC
24140624 GTATGTGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.11, C:0.36, G:0.22, T:0.31
Consensus pattern (19 bp):
TGCACTTTAGTGCCCCTGC
Done.