Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5046466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 21
Found at i:849968 original size:21 final size:21
Alignment explanation
Indices: 849942--850022 Score: 96
Period size: 21 Copynumber: 3.9 Consensus size: 21
849932 TTTTTAATTT
849942 ACTGTAGACTATCGCAACGAC
1 ACTGTAGACTATCGCAACGAC
849963 ACTGTAGACTATCGCAACG-C
1 ACTGTAGACTATCGCAACGAC
* **
849983 GAAATG--GAAAATCGCAACGAC
1 --ACTGTAGACTATCGCAACGAC
850004 ACTGTAGACTATCGCAACG
1 ACTGTAGACTATCGCAACG
850023 CGAGATGGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
19 3 0.06
20 12 0.24
21 31 0.63
22 3 0.06
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (21 bp):
ACTGTAGACTATCGCAACGAC
Found at i:850009 original size:41 final size:41
Alignment explanation
Indices: 849952--850193 Score: 398
Period size: 41 Copynumber: 5.9 Consensus size: 41
849942 ACTGTAGACT
849952 ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
*
849993 ATCGCAACGACACTGTAGACTATCGCAACGCGAGATGGAAA
1 ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
* *
850034 ATCGCAACGACACTGTACACTATCACAACGCGAAATGGAAA
1 ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
* *
850075 ATCGCAACG-CGATTTTCA-ACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGAC-ACTGT-AGACTATCGCAACGCGAAATGGAAA
850116 ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
*
850157 ATAGCAACGACACTGTAGACTATCGCAACGCGAAATG
1 ATCGCAACGACACTGTAGACTATCGCAACGCGAAATG
850194 CAACGCGAAA
Statistics
Matches: 187, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
40 2 0.01
41 183 0.98
42 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (41 bp):
ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
Found at i:850142 original size:21 final size:21
Alignment explanation
Indices: 850116--850186 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
850106 GAAATGGAAA
850116 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
* **
850137 ATCGCAACG-CGAAATG--GAAA
1 ATCGCAACGAC--ACTGTAGACT
*
850157 ATAGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
850178 ATCGCAACG
1 ATCGCAACG
850187 CGAAATGCAA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
19 3 0.08
20 11 0.30
21 20 0.54
22 3 0.08
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.15
Consensus pattern (21 bp):
ATCGCAACGACACTGTAGACT
Found at i:853886 original size:30 final size:30
Alignment explanation
Indices: 853828--853888 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
853818 AGTTCAGGTA
* ***
853828 TCGAGTAATATCAAATTGGATTTCTTGATT
1 TCGAGTAAGATCAAATTGGATCGATTGATT
*
853858 TCGAGTTAGATCAAATTGGATCGATTGATT
1 TCGAGTAAGATCAAATTGGATCGATTGATT
853888 T
1 T
853889 TTTAGGTCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (30 bp):
TCGAGTAAGATCAAATTGGATCGATTGATT
Found at i:854437 original size:60 final size:60
Alignment explanation
Indices: 854325--854437 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
854315 TAGCTTGGGA
* * *
854325 ATGAAAATGAAATGTTCAAGAGTTTAAGGACTAATTTAGAATAATAGTCATAGTTTAATG
1 ATGAAAATGAAATGTTCAAAAGTTTAAGGACTAATTTAGAATAAGAGGCATAGTTTAATG
* * * * *
854385 ATGAAATTGAAATGTTTAAAAGTTTAGGGACTAGTTT-GAAATGAGAGGCATAG
1 ATGAAAATGAAATGTTCAAAAGTTTAAGGACTAATTTAG-AATAAGAGGCATAG
854438 ATTGGGGGCA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
59 1 0.02
60 43 0.98
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (60 bp):
ATGAAAATGAAATGTTCAAAAGTTTAAGGACTAATTTAGAATAAGAGGCATAGTTTAATG
Found at i:855289 original size:33 final size:33
Alignment explanation
Indices: 855251--855314 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
855241 TTCAATTACA
855251 TTATGTTTATTGCGATTGCAGATATAGTGGAGG
1 TTATGTTTATTGCGATTGCAGATATAGTGGAGG
* * *
855284 TTATGTTTATTGGGATTGTAGGTATAGTGGA
1 TTATGTTTATTGCGATTGCAGATATAGTGGA
855315 CGGTATTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.03, G:0.31, T:0.42
Consensus pattern (33 bp):
TTATGTTTATTGCGATTGCAGATATAGTGGAGG
Found at i:858943 original size:9 final size:9
Alignment explanation
Indices: 858929--858976 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
858919 AAGGGAAAAG
858929 TGACCGGTT
1 TGACCGGTT
858938 TGACCGGTTT
1 TGACCGG-TT
* *
858948 TAGAACTGTTT
1 T-G-ACCGGTT
858959 TGACCGGTT
1 TGACCGGTT
858968 TGACCGGTT
1 TGACCGGTT
858977 ACAACCCGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 21 0.66
10 4 0.12
11 4 0.12
12 3 0.09
ACGTcount: A:0.15, C:0.19, G:0.29, T:0.38
Consensus pattern (9 bp):
TGACCGGTT
Found at i:859002 original size:13 final size:13
Alignment explanation
Indices: 858984--859049 Score: 63
Period size: 13 Copynumber: 5.3 Consensus size: 13
858974 GTTACAACCC
858984 GACCCGACCCGTT
1 GACCCGACCCGTT
858997 GACCCGACCC---
1 GACCCGACCCGTT
859007 GACCCGTTGACCC---
1 GACCC---GACCCGTT
859020 GACCCGACCCGTT
1 GACCCGACCCGTT
859033 GACCCGACCCGTT
1 GACCCGACCCGTT
859046 GACC
1 GACC
859050 GTTGGCCGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
10 10 0.21
13 37 0.79
ACGTcount: A:0.17, C:0.48, G:0.23, T:0.12
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:859003 original size:18 final size:18
Alignment explanation
Indices: 858980--859043 Score: 128
Period size: 18 Copynumber: 3.6 Consensus size: 18
858970 ACCGGTTACA
858980 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
858998 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
859016 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
859034 ACCCGACCCG
1 ACCCGACCCG
859044 TTGACCGTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.17, C:0.52, G:0.22, T:0.09
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:859036 original size:8 final size:8
Alignment explanation
Indices: 859025--859078 Score: 57
Period size: 7 Copynumber: 7.5 Consensus size: 8
859015 GACCCGACCC
859025 GACCCGTT
1 GACCCGTT
859033 GACCC---
1 GACCCGTT
859038 GACCCGTT
1 GACCCGTT
859046 GA-CCGTT
1 GACCCGTT
*
859053 G-GCCGTT
1 GACCCGTT
859060 GACCCGTT
1 GACCCGTT
859068 GA-CCGTT
1 GACCCGTT
859075 GACC
1 GACC
859079 GGAGTTGACC
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
5 5 0.13
7 19 0.49
8 15 0.38
ACGTcount: A:0.13, C:0.37, G:0.28, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:859053 original size:7 final size:7
Alignment explanation
Indices: 859041--859079 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
859031 TTGACCCGAC
859041 CCGTTGA
1 CCGTTGA
*
859048 CCGTTGG
1 CCGTTGA
859055 CCGTTGA
1 CCGTTGA
859062 CCCGTTGA
1 -CCGTTGA
859070 CCGTTGA
1 CCGTTGA
859077 CCG
1 CCG
859080 GAGTTGACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:859068 original size:15 final size:15
Alignment explanation
Indices: 859041--859078 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
859031 TTGACCCGAC
*
859041 CCGTTGA-CCGTTGG
1 CCGTTGACCCGTTGA
859055 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
859070 CCGTTGACC
1 CCGTTGACC
859079 GGAGTTGACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.11, C:0.34, G:0.29, T:0.26
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:860400 original size:18 final size:18
Alignment explanation
Indices: 860374--860409 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
860364 TCGAAAGGAC
*
860374 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
860392 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
860410 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:861579 original size:24 final size:24
Alignment explanation
Indices: 861548--861625 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
861538 ATTTTCGATT
* *
861548 TGATTTCTGATTTGATACTTGACT
1 TGATTTCTGATATGATACTTGACC
* *
861572 TGGA-TTCTGATCTGTTACTTGACC
1 T-GATTTCTGATATGATACTTGACC
861596 TGATTTCTGATATGATACTTGACC
1 TGATTTCTGATATGATACTTGACC
861620 TGATTT
1 TGATTT
861626 ATGTTTGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 2 0.04
24 43 0.91
25 2 0.04
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (24 bp):
TGATTTCTGATATGATACTTGACC
Found at i:863815 original size:13 final size:13
Alignment explanation
Indices: 863797--863862 Score: 63
Period size: 13 Copynumber: 5.3 Consensus size: 13
863787 GTCACAACCC
863797 GACCCGACCCGTT
1 GACCCGACCCGTT
863810 GACCCGACCC---
1 GACCCGACCCGTT
863820 GACCCGTTGACCC---
1 GACCC---GACCCGTT
863833 GACCCGACCCGTT
1 GACCCGACCCGTT
863846 GACCCGACCCGTT
1 GACCCGACCCGTT
863859 GACC
1 GACC
863863 GTTGGCCGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
10 10 0.21
13 37 0.79
ACGTcount: A:0.17, C:0.48, G:0.23, T:0.12
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:863816 original size:18 final size:18
Alignment explanation
Indices: 863793--863856 Score: 128
Period size: 18 Copynumber: 3.6 Consensus size: 18
863783 ACCGGTCACA
863793 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
863811 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
863829 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
863847 ACCCGACCCG
1 ACCCGACCCG
863857 TTGACCGTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.17, C:0.52, G:0.22, T:0.09
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:863849 original size:8 final size:8
Alignment explanation
Indices: 863838--863891 Score: 57
Period size: 7 Copynumber: 7.5 Consensus size: 8
863828 GACCCGACCC
863838 GACCCGTT
1 GACCCGTT
863846 GACCC---
1 GACCCGTT
863851 GACCCGTT
1 GACCCGTT
863859 GA-CCGTT
1 GACCCGTT
*
863866 G-GCCGTT
1 GACCCGTT
863873 GACCCGTT
1 GACCCGTT
863881 GA-CCGTT
1 GACCCGTT
863888 GACC
1 GACC
863892 GGAGTTGACC
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
5 5 0.13
7 19 0.49
8 15 0.38
ACGTcount: A:0.13, C:0.37, G:0.28, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:863866 original size:7 final size:7
Alignment explanation
Indices: 863854--863892 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
863844 TTGACCCGAC
863854 CCGTTGA
1 CCGTTGA
*
863861 CCGTTGG
1 CCGTTGA
863868 CCGTTGA
1 CCGTTGA
863875 CCCGTTGA
1 -CCGTTGA
863883 CCGTTGA
1 CCGTTGA
863890 CCG
1 CCG
863893 GAGTTGACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:863881 original size:15 final size:15
Alignment explanation
Indices: 863854--863891 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
863844 TTGACCCGAC
*
863854 CCGTTGA-CCGTTGG
1 CCGTTGACCCGTTGA
863868 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
863883 CCGTTGACC
1 CCGTTGACC
863892 GGAGTTGACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.11, C:0.34, G:0.29, T:0.26
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:865215 original size:18 final size:18
Alignment explanation
Indices: 865189--865224 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
865179 TCGAAAGGAC
*
865189 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
865207 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
865225 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:866392 original size:24 final size:24
Alignment explanation
Indices: 866361--866438 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
866351 ATTTTCGATT
* *
866361 TGATTTCTGATTTGATACTTGACT
1 TGATTTCTGATATGATACTTGACC
* *
866385 TGGA-TTCTGATCTGTTACTTGACC
1 T-GATTTCTGATATGATACTTGACC
866409 TGATTTCTGATATGATACTTGACC
1 TGATTTCTGATATGATACTTGACC
866433 TGATTT
1 TGATTT
866439 ATGTTTTGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 2 0.04
24 43 0.91
25 2 0.04
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (24 bp):
TGATTTCTGATATGATACTTGACC
Found at i:868633 original size:18 final size:18
Alignment explanation
Indices: 868610--868684 Score: 106
Period size: 18 Copynumber: 4.4 Consensus size: 18
868600 ACCGGTCACA
868610 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
868628 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
868645 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
868659 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
868677 ACCCGACC
1 ACCCGACC
868685 TGTTGACCGT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.24
18 38 0.76
ACGTcount: A:0.17, C:0.51, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:868653 original size:31 final size:31
Alignment explanation
Indices: 868614--868692 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
868604 GTCACAACCC
868614 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
868645 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
868676 GACCCGACCTGTTGACC
1 GACCCGACCCGTTGACC
868693 GTTGGCCGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.15
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:868692 original size:13 final size:13
Alignment explanation
Indices: 868632--868668 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
868622 CCGTTGACCC
868632 GACCCGACCCGTT
1 GACCCGACCCGTT
*
868645 TACCCGACCCGTT
1 GACCCGACCCGTT
868658 GACCCGACCCG
1 GACCCGACCCG
868669 ACCCGTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.49, G:0.22, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:868701 original size:7 final size:7
Alignment explanation
Indices: 868681--868722 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
868671 CCGTTGACCC
868681 GACCTGTT
1 GACC-GTT
868689 GACCGTT
1 GACCGTT
*
868696 GGCCGTT
1 GACCGTT
868703 GACCCGTT
1 GA-CCGTT
868711 GACCGTT
1 GACCGTT
868718 GACCG
1 GACCG
868723 GAGTTGACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 20 0.65
8 11 0.35
ACGTcount: A:0.12, C:0.31, G:0.31, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:868711 original size:15 final size:15
Alignment explanation
Indices: 868681--868721 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
868671 CCGTTGACCC
868681 GACCTGTTGA-CCGTT
1 GACC-GTTGACCCGTT
*
868696 GGCCGTTGACCCGTT
1 GACCGTTGACCCGTT
868711 GACCGTTGACC
1 GACCGTTGACC
868722 GGAGTTGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.12, C:0.32, G:0.29, T:0.27
Consensus pattern (15 bp):
GACCGTTGACCCGTT
Found at i:870044 original size:18 final size:18
Alignment explanation
Indices: 870018--870053 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
870008 TCGAAAGGAC
*
870018 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
870036 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
870054 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:871223 original size:24 final size:24
Alignment explanation
Indices: 871192--871269 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
871182 ATTTTAGATT
* *
871192 TGATTTCTGATTTGATACTTGACT
1 TGATTTCTGATATGATACTTGACC
* *
871216 TGGA-TTCTGATCTGTTACTTGACC
1 T-GATTTCTGATATGATACTTGACC
871240 TGATTTCTGATATGATACTTGACC
1 TGATTTCTGATATGATACTTGACC
871264 TGATTT
1 TGATTT
871270 ATGTTTTGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 2 0.04
24 43 0.91
25 2 0.04
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (24 bp):
TGATTTCTGATATGATACTTGACC
Found at i:873465 original size:18 final size:18
Alignment explanation
Indices: 873442--873516 Score: 106
Period size: 18 Copynumber: 4.4 Consensus size: 18
873432 ACCGGTCACA
873442 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
873460 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
873477 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
873491 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
873509 ACCCGACC
1 ACCCGACC
873517 TGTTGACCGT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.24
18 38 0.76
ACGTcount: A:0.17, C:0.51, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:873485 original size:31 final size:31
Alignment explanation
Indices: 873446--873524 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
873436 GTCACAACCC
873446 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
873477 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
873508 GACCCGACCTGTTGACC
1 GACCCGACCCGTTGACC
873525 GTTGACCGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.15
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:873524 original size:13 final size:13
Alignment explanation
Indices: 873464--873500 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
873454 CCGTTGACCC
873464 GACCCGACCCGTT
1 GACCCGACCCGTT
*
873477 TACCCGACCCGTT
1 GACCCGACCCGTT
873490 GACCCGACCCG
1 GACCCGACCCG
873501 ACCCGTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.49, G:0.22, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:874853 original size:18 final size:18
Alignment explanation
Indices: 874827--874862 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
874817 TCGAAAGGAC
*
874827 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
874845 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
874863 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:876032 original size:24 final size:24
Alignment explanation
Indices: 876001--876078 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
875991 ATTTTCGATT
* *
876001 TGATTTCTGATTTGATACTTGACT
1 TGATTTCTGATATGATACTTGACC
* *
876025 TGGA-TTCTGATCTGTTACTTGACC
1 T-GATTTCTGATATGATACTTGACC
876049 TGATTTCTGATATGATACTTGACC
1 TGATTTCTGATATGATACTTGACC
876073 TGATTT
1 TGATTT
876079 ATGTTTTGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 2 0.04
24 43 0.91
25 2 0.04
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (24 bp):
TGATTTCTGATATGATACTTGACC
Found at i:877092 original size:28 final size:31
Alignment explanation
Indices: 877036--877097 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 31
877026 TGACAATCAT
877036 ATCAAATAAATAAAACTAAGTATAGATAATAA
1 ATCAAATAAATAAAACTAAG-ATAGATAATAA
*
877068 ATCAAATAAA-ATAACTAA-ATA-ATAATAA
1 ATCAAATAAATAAAACTAAGATAGATAATAA
877096 AT
1 AT
877098 AAGTAGACGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 9 0.31
29 3 0.10
31 7 0.24
32 10 0.34
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (31 bp):
ATCAAATAAATAAAACTAAGATAGATAATAA
Found at i:877184 original size:16 final size:18
Alignment explanation
Indices: 877158--877198 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
877148 AGTTAGGCGA
*
877158 AAATAATATATCTAAT-T
1 AAATAATATATATAATAT
877175 AAAT-ATATATATAATAT
1 AAATAATATATATAATAT
877192 AAA-AATA
1 AAATAATA
877199 ATACTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATAATATATATAATAT
Found at i:880974 original size:188 final size:188
Alignment explanation
Indices: 880619--880976 Score: 409
Period size: 188 Copynumber: 1.9 Consensus size: 188
880609 AATCTGGTGC
* *
880619 TGACATTGCTCCTTCATGTTGAGGAGGTCCAGTCAGTGAACGACATTGTTACTACTTGATAATGA
1 TGACATTGCTCCTTCATATTGAGGAGGTCCAGTCAGTGAACGACATTGTTACTACTTGATAAGGA
* * * * ** * *
880684 CGTCTGATCACATCTGAAGACAACATTATTTCTTCTTGGTAAGGAACTTTAATTGCCTGGAGATA
66 CGTCTAACCACATCTGAAGAAAACAATATCCCTTCTTGGTAAGGAAATTTAATTGCCTAGAGATA
**
880749 ATTTGATGTTGGAAAAGAAACTGCTCATATGCGATGAAGAGAATTTGATCGCTTATGA
131 ATTTGATGTTGGAAAAGAAACTGCTCATACACGATGAAGAGAATTTGATCGCTTATGA
* * * * *
880807 TGACATTGTTCCTTCATATTGAGGAGGTCTAGTCAGTGTACGACATT-TTCCTACTTGATGAGGA
1 TGACATTGCTCCTTCATATTGAGGAGGTCCAGTCAGTGAACGACATTGTTACTACTTGATAAGGA
* * * ** * *
880871 -GATCTAACCATATTTGAAGAAAACAATGTCCCTTCTTTTTTTAGGAAATCTT-ATTTCCTAGAG
66 CG-TCTAACCACATCTGAAGAAAACAATATCCCTTC-TTGGTAAGGAAAT-TTAATTGCCTAGAG
** *
880934 ATAATTTGATGTT-GAAAATGGCACTGCTCATCCACGATGAAGA
128 ATAATTTGATGTTGGAAAA-GAAACTGCTCATACACGATGAAGA
880977 ATTTAGCCGT
Statistics
Matches: 139, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
186 1 0.01
187 43 0.31
188 93 0.67
189 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (188 bp):
TGACATTGCTCCTTCATATTGAGGAGGTCCAGTCAGTGAACGACATTGTTACTACTTGATAAGGA
CGTCTAACCACATCTGAAGAAAACAATATCCCTTCTTGGTAAGGAAATTTAATTGCCTAGAGATA
ATTTGATGTTGGAAAAGAAACTGCTCATACACGATGAAGAGAATTTGATCGCTTATGA
Found at i:881731 original size:43 final size:42
Alignment explanation
Indices: 881660--881740 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
881650 TTGATGAAGA
*
881660 AGTTTTGAAAATGCTTTACGAAATAATTTT-AAATAATGAAAT
1 AGTTTTGAAAATGCTTTACGAAAGAATTTTGAAA-AATGAAAT
*
881702 AGTTTTGAAAAATG-TTTGATGAAAGAATTTTGAAAAATG
1 AGTTTTG-AAAATGCTTT-ACGAAAGAATTTTGAAAAATG
881741 TTTGACGAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 10 0.29
43 21 0.62
44 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (42 bp):
AGTTTTGAAAATGCTTTACGAAAGAATTTTGAAAAATGAAAT
Found at i:881757 original size:22 final size:22
Alignment explanation
Indices: 881702--881784 Score: 112
Period size: 22 Copynumber: 3.6 Consensus size: 22
881692 ATAATGAAAT
*
881702 AGTTTTGAAAAATGTTTGATGAA
1 AGTTTTGAAAAATGTTTGACG-A
881725 AGAATTTTGAAAAATGTTTGACGA
1 AG--TTTTGAAAAATGTTTGACGA
* *
881749 AGTTTTGAAAAATGCTTGACTA
1 AGTTTTGAAAAATGTTTGACGA
881771 AGTTTTGAAAAATG
1 AGTTTTGAAAAATG
881785 GTGCCTCTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
22 32 0.58
23 2 0.04
24 3 0.05
25 18 0.33
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (22 bp):
AGTTTTGAAAAATGTTTGACGA
Found at i:890456 original size:20 final size:20
Alignment explanation
Indices: 890427--890465 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
890417 TTTCCACCAC
*
890427 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
890447 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
890466 TATTAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:892925 original size:21 final size:21
Alignment explanation
Indices: 892901--892942 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
892891 TTTAAATATT
* *
892901 ATAAAGGTAATACCGTTACTC
1 ATAAAAGTAATACCGATACTC
*
892922 ATAAAAGTAGTACCGATACTC
1 ATAAAAGTAATACCGATACTC
892943 CCTGTTCTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (21 bp):
ATAAAAGTAATACCGATACTC
Found at i:896743 original size:46 final size:46
Alignment explanation
Indices: 896686--896775 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
896676 AAAATGACCA
* * *
896686 AAAAATGAATTAGTATAGGTAAATAAGTGATAAGGATAAAAGTGCT
1 AAAAATGAATTAGTACAGGTAAAAAAGTGATAAAGATAAAAGTGCT
* *
896732 AAAAATTAATTAGTACAGGTAAAAAATTGATAAAGATAAAAGTG
1 AAAAATGAATTAGTACAGGTAAAAAAGTGATAAAGATAAAAGTG
896776 TTATTCAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.26
Consensus pattern (46 bp):
AAAAATGAATTAGTACAGGTAAAAAAGTGATAAAGATAAAAGTGCT
Found at i:903590 original size:21 final size:21
Alignment explanation
Indices: 903566--903626 Score: 122
Period size: 21 Copynumber: 2.9 Consensus size: 21
903556 TAGATGGTTA
903566 ATAACATTTATTGATGACCTT
1 ATAACATTTATTGATGACCTT
903587 ATAACATTTATTGATGACCTT
1 ATAACATTTATTGATGACCTT
903608 ATAACATTTATTGATGACC
1 ATAACATTTATTGATGACC
903627 ATACTAGAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (21 bp):
ATAACATTTATTGATGACCTT
Found at i:905078 original size:21 final size:21
Alignment explanation
Indices: 905037--905078 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
905027 AAAGGGAGAG
* *
905037 TATACAGATTAAAGAAGTCCC
1 TATACAGATGAAACAAGTCCC
905058 TATACAGACTGAAACAA-TCCC
1 TATACAGA-TGAAACAAGTCCC
905079 CAAGAGCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.21
Consensus pattern (21 bp):
TATACAGATGAAACAAGTCCC
Found at i:914925 original size:20 final size:21
Alignment explanation
Indices: 914902--914942 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
914892 TATTATATGT
**
914902 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
914922 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
914943 TAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:915857 original size:18 final size:18
Alignment explanation
Indices: 915834--915869 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
915824 GTTTAGTTGT
915834 TGTTGTTTTTTTTTTCTC
1 TGTTGTTTTTTTTTTCTC
915852 TGTTGTTTTTTTTTTCTC
1 TGTTGTTTTTTTTTTCTC
915870 CGGTTCTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.78
Consensus pattern (18 bp):
TGTTGTTTTTTTTTTCTC
Found at i:916381 original size:3 final size:3
Alignment explanation
Indices: 916373--916440 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
916363 AATATATATT
*
916373 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
916421 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
916441 TGGATAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:917001 original size:116 final size:113
Alignment explanation
Indices: 916760--917400 Score: 880
Period size: 113 Copynumber: 5.7 Consensus size: 113
916750 GAATTATGCG
* **
916760 AAAAG-TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTTTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * **
916824 TATGAACTTCT-CC-AGAAATGTTGATCCATCAATTGATGAATTCTTGC
66 TATGAAC-TCTACCTGGAAATGTTGATCCATCAAATGATGAATTCAAGC
*
916871 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCT
1 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* *
916936 CATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGA
63 CATTATGAACTCTACCTGGAAATGTTGATCCATCAAATGATGAATTCAAGC
916987 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *** * * **
917052 TATGAACT-TTCTCTGGAAAAAATAATCCATCAAGTGAT-AGATTTGAGC
66 TATGAACTCTAC-CTGGAAATGTTGATCCATCAAATGATGA-ATTCAAGC
* *
917100 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
917165 TATGAACTCTACCTGGCAATGTTGATCCATCAGATGATGAATTCAAGC
66 TATGAACTCTACCTGGAAATGTTGATCCATCAAATGATGAATTCAAGC
917213 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *** * * * **
917278 TATGAACT-TTCTCTGGAAAAAATAATCCATCAAGTGATAAATTTGAGC
66 TATGAACTCTAC-CTGGAAATGTTGATCCATCAAATGATGAATTCAAGC
* *
917326 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
917391 TATGAACTCT
66 TATGAACTCT
917401 CTCTTCAAAA
Statistics
Matches: 472, Mismatches: 46, Indels: 21
0.88 0.09 0.04
Matches are distributed among these distances:
111 5 0.01
112 49 0.10
113 310 0.66
114 7 0.01
115 22 0.05
116 79 0.17
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTACCTGGAAATGTTGATCCATCAAATGATGAATTCAAGC
Found at i:917389 original size:339 final size:338
Alignment explanation
Indices: 916760--917436 Score: 1029
Period size: 339 Copynumber: 2.0 Consensus size: 338
916750 GAATTATGCG
* * **
916760 AAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
**
916825 ATGAACTTCTCCAGAAATGTTGATCCATCAATTGATGAATTCTTGCAAAAGATTGAACAAGTTCT
66 ATGAACTTCTCCAGAAATGTTGATCCATCAATTGATGAATTCAAGCAAAAGATTGAACAAGTTCT
*
916890 TCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGG
131 TCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTACCTGG
* *** * * *
916955 CAATGTTGATCCATCAAATGATGAATTCAAGAAAAAGATTGAACAAGTTCTTCTCATTATGAACT
194 AAAAAATAATCCATCAAATGATAAATTCAAGAAAAAGATTGAACAAATTCTTCTCATTATGAACT
* *
917020 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAAATAATCCATCAA
259 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGCAAAAAATAATCCATCAA
917085 GTGATAGATTTGAGC
324 GTGATAGATTTGAGC
917100 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAA-GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
917165 TATGAAC-TCTACCTGGCAATGTTGATCCATCAGA-TGATGAATTCAAGCAAAAGATTGAACAAG
65 TATGAACTTCT-CC-AGAAATGTTGATCCATCA-ATTGATGAATTCAAGCAAAAGATTGAACAAG
*
917228 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACT-TTCTC
127 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTAC-C
* ** * *
917291 TGGAAAAAATAATCCATCAAGTGATAAATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
191 TGGAAAAAATAATCCATCAAATGATAAATTCAAGAAAAAGATTGAACAAATTCTTCTCATTATGA
*
917356 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTTCAAAAAATAATCCAT
256 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGCAAAAAATAATCCAT
*
917421 CAATTGATAGATTTGA
321 CAAGTGATAGATTTGA
917437 ATCTTTGCTA
Statistics
Matches: 306, Mismatches: 26, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
338 2 0.01
339 152 0.50
340 7 0.02
341 65 0.21
342 79 0.26
343 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (338 bp):
AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTCTCCAGAAATGTTGATCCATCAATTGATGAATTCAAGCAAAAGATTGAACAAGTTCT
TCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTACCTGGAA
AAAATAATCCATCAAATGATAAATTCAAGAAAAAGATTGAACAAATTCTTCTCATTATGAACTTC
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGCAAAAAATAATCCATCAAGT
GATAGATTTGAGC
Found at i:917422 original size:226 final size:226
Alignment explanation
Indices: 916760--917400 Score: 1063
Period size: 226 Copynumber: 2.8 Consensus size: 226
916750 GAATTATGCG
* **
916760 AAAAG-TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTTTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
** *** * * * * * *
916824 TATGAAC-TTCTCCAGAAATGTTGATCCATCAATTGATGAATTCT-TGCAAAAGATTGAACAAGT
66 TATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAAATT-TGAGCAAAAGGTTGAACAAAT
*
916887 TCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACC
130 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACC
916952 TGGCAATGTTGATCCATCAAATGATGAATTCAAGA
192 TGGCAATGTTGATCCATCAAATGATGAATTCAAGA
916987 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
917052 TATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATT
66 TATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAAATTTGAGCAAAAGGTTGAACAAATT
917117 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGC
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGC
* *
917182 AATGTTGATCCATCAGATGATGAATTCAAGC
196 AATGTTGATCCATCAAATGATGAATTCAAGA
917213 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
917278 TATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAAATTTGAGCAAAAGGTTGAACAAATT
66 TATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAAATTTGAGCAAAAGGTTGAACAAATT
917343 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT
917401 CTCTTCAAAA
Statistics
Matches: 392, Mismatches: 19, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
226 246 0.63
227 5 0.01
228 64 0.16
229 77 0.20
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (226 bp):
AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAAATTTGAGCAAAAGGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGC
AATGTTGATCCATCAAATGATGAATTCAAGA
Found at i:918426 original size:84 final size:84
Alignment explanation
Indices: 918165--918742 Score: 1020
Period size: 84 Copynumber: 6.9 Consensus size: 84
918155 GTTTCTACTG
* * * * *
918165 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATGTTCCGAAT
1 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTCAAAT
918229 TCAATGATTGGTTCTGCCA
66 TCAATGATTGGTTCTGCCA
*
918248 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATC-TTCTAAA
1 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTC-AAA
918311 CTT-AATGATTGGTTCTGCCA
65 -TTCAATGATTGGTTCTGCCA
918331 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTCAAAT
1 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTCAAAT
918396 TCAATGATTGGTTCTGCCA
66 TCAATGATTGGTTCTGCCA
918415 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTCAAAT
1 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTCAAAT
918480 TCAATGATTGGTTCTGCCA
66 TCAATGATTGGTTCTGCCA
918499 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTCAAAT
1 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTCAAAT
918564 TCAATGATTGGTTCTGCCA
66 TCAATGATTGGTTCTGCCA
* *
918583 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGATCAAATTCATCTTCCAAAT
1 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTCAAAT
918648 TCAATGATTGGTTCTGCCA
66 TCAATGATTGGTTCTGCCA
* *
918667 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGATCAAATTCATCTTCCAAAT
1 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTCAAAT
918732 TCAATGATTGG
66 TCAATGATTGG
918743 ACTAAGATAT
Statistics
Matches: 480, Mismatches: 9, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
82 2 0.00
83 114 0.24
84 361 0.75
85 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (84 bp):
AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTCAAAT
TCAATGATTGGTTCTGCCA
Found at i:919514 original size:19 final size:20
Alignment explanation
Indices: 919492--919533 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
919482 AATAGAAAAG
*
919492 AATAAATTGAATTTCCAA-A
1 AATAAATTGAATCTCCAATA
919511 AATAAATTGAATCTCCAATA
1 AATAAATTGAATCTCCAATA
919531 AAT
1 AAT
919534 TGAACTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (20 bp):
AATAAATTGAATCTCCAATA
Found at i:930518 original size:18 final size:18
Alignment explanation
Indices: 930495--930539 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
930485 AAAATACTTG
930495 TAAATAAAATAAAACAT-A
1 TAAATAAAATAAAA-ATAA
**
930513 TAAATATTATAAAAATAA
1 TAAATAAAATAAAAATAA
930531 TAAATAAAA
1 TAAATAAAA
930540 AATTTGAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAATAAAATAAAAATAA
Found at i:931244 original size:20 final size:21
Alignment explanation
Indices: 931221--931261 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
931211 TATTATATGT
**
931221 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
931241 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
931262 TAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:932176 original size:18 final size:18
Alignment explanation
Indices: 932153--932188 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
932143 GTTTAGTTGT
932153 TGTTGTTTTTTTTTTCTC
1 TGTTGTTTTTTTTTTCTC
932171 TGTTGTTTTTTTTTTCTC
1 TGTTGTTTTTTTTTTCTC
932189 CGGTTCTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.78
Consensus pattern (18 bp):
TGTTGTTTTTTTTTTCTC
Found at i:932700 original size:3 final size:3
Alignment explanation
Indices: 932692--932753 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
932682 AATATATATT
*
932692 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
932740 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
932754 TGGATAAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:935913 original size:7 final size:7
Alignment explanation
Indices: 935895--935954 Score: 77
Period size: 7 Copynumber: 8.7 Consensus size: 7
935885 AATAATACCC
935895 TTCTTC-
1 TTCTTCT
935901 TTCTTCT
1 TTCTTCT
935908 TTCTTCT
1 TTCTTCT
935915 TTCTTCT
1 TTCTTCT
*
935922 TTCTGCT
1 TTCTTCT
*
935929 TTCTGCT
1 TTCTTCT
*
935936 TTCTGCT
1 TTCTTCT
*
935943 TTCTGCT
1 TTCTTCT
935950 TTCTT
1 TTCTT
935955 TAATTGAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 6 0.12
7 45 0.88
ACGTcount: A:0.00, C:0.28, G:0.07, T:0.65
Consensus pattern (7 bp):
TTCTTCT
Found at i:935930 original size:21 final size:21
Alignment explanation
Indices: 935895--935954 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
935885 AATAATACCC
*
935895 TTCTTC-TTCTTCTTTCTTCT
1 TTCTTCTTTCTGCTTTCTTCT
*
935915 TTCTTCTTTCTGCTTTCTGCT
1 TTCTTCTTTCTGCTTTCTTCT
*
935936 TTCTGCTTTCTGCTTTCTT
1 TTCTTCTTTCTGCTTTCTT
935955 TAATTGAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
20 6 0.17
21 29 0.83
ACGTcount: A:0.00, C:0.28, G:0.07, T:0.65
Consensus pattern (21 bp):
TTCTTCTTTCTGCTTTCTTCT
Found at i:952318 original size:20 final size:20
Alignment explanation
Indices: 952281--952319 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
952271 TGAAAATCAT
***
952281 TTTTTCAAAATTTTATTTTG
1 TTTTTCAAAATAAAATTTTG
952301 TTTTTCAAAATAAAATTTT
1 TTTTTCAAAATAAAATTTT
952320 CCTTTCAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTTCAAAATAAAATTTTG
Found at i:956217 original size:18 final size:18
Alignment explanation
Indices: 956194--956250 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 18
956184 GTCAAATTTG
*
956194 GTATCGATACGCAAGAAA
1 GTATCGATACACAAGAAA
956212 GTATCGATACTACAAGCCAGAA
1 GTATCGATAC-ACAAG--A-AA
*
956234 GTATCGATACTCAAGAA
1 GTATCGATACACAAGAA
956251 GGAGTACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 11 0.33
19 5 0.15
21 5 0.15
22 12 0.36
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (18 bp):
GTATCGATACACAAGAAA
Found at i:959730 original size:13 final size:13
Alignment explanation
Indices: 959712--959737 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
959702 GAGTTCTTGC
959712 TAATGTCGTTTGG
1 TAATGTCGTTTGG
959725 TAATGTCGTTTGG
1 TAATGTCGTTTGG
959738 ACTCATCAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (13 bp):
TAATGTCGTTTGG
Found at i:962952 original size:16 final size:16
Alignment explanation
Indices: 962931--962962 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
962921 TATTATGATC
962931 TCTTTTAACACACATA
1 TCTTTTAACACACATA
*
962947 TCTTTTAACATACATA
1 TCTTTTAACACACATA
962963 ACCTTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (16 bp):
TCTTTTAACACACATA
Found at i:962970 original size:17 final size:16
Alignment explanation
Indices: 962932--962971 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
962922 ATTATGATCT
*
962932 CTTTTAACACACATAT
1 CTTTTAACACACATAC
*
962948 CTTTTAACATACATAAC
1 CTTTTAACACACAT-AC
962965 CTTTTAA
1 CTTTTAA
962972 TATCATTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (16 bp):
CTTTTAACACACATAC
Found at i:963169 original size:20 final size:20
Alignment explanation
Indices: 963146--963195 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
963136 ATGTAGGTAA
963146 GGTATCGATACTCACAGGGT
1 GGTATCGATACTCACAGGGT
*
963166 GGTATCAATACTCACAGGGT
1 GGTATCGATACTCACAGGGT
963186 GGTATCGATA
1 GGTATCGATA
963196 TCGAGTTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (20 bp):
GGTATCGATACTCACAGGGT
Found at i:963397 original size:17 final size:17
Alignment explanation
Indices: 963375--963419 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
963365 ATATGCCAGA
963375 AGTATTGATACTCAAGG
1 AGTATTGATACTCAAGG
963392 AGTATTGATACTCAAGG
1 AGTATTGATACTCAAGG
963409 AGTATTGATAC
1 AGTATTGATAC
963420 CAACCCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (17 bp):
AGTATTGATACTCAAGG
Found at i:963498 original size:20 final size:20
Alignment explanation
Indices: 963456--963504 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
963446 AAGTCAGTAA
**
963456 TATCGATACCCAAAGGTTGG
1 TATCGATACCCAAAGGTCAG
* *
963476 TATCGATACCTAGAGGTCAG
1 TATCGATACCCAAAGGTCAG
*
963496 TATCAATAC
1 TATCGATAC
963505 TAGGGAGCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (20 bp):
TATCGATACCCAAAGGTCAG
Found at i:964654 original size:65 final size:63
Alignment explanation
Indices: 964555--964696 Score: 180
Period size: 65 Copynumber: 2.2 Consensus size: 63
964545 CAAATTGAAT
* *
964555 GTGCATCGATGCACTCTTTAAACAAGAAACATCGAATGCAATTGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCTTTAAACAAGAAACATCGAAGGCAATTGGTGCATCGATGCAT-AGGTA
* * * *
964618 GTGCATCGATGCATCCCTTTAAA-AATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGT
1 GTGCATCGATGCA-CCCTTTAAACAA-G-AAACATCGAAGGCAATTGGTGCATCGATGCATAGGT
964682 A
63 A
964683 GTGCATCGATGCAC
1 GTGCATCGATGCAC
964697 TATAGAATGC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
63 15 0.22
64 12 0.17
65 42 0.61
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAACAAGAAACATCGAAGGCAATTGGTGCATCGATGCATAGGTA
Found at i:965521 original size:18 final size:18
Alignment explanation
Indices: 965498--965549 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
965488 GGGTCTACAC
965498 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACATAGT
*
965516 GGTCCTTTGGGACATAGT
1 GGTCCTTCGGGACATAGT
*
965534 GGTCCTTCAGGACATA
1 GGTCCTTCGGGACATA
965550 TGTGTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (18 bp):
GGTCCTTCGGGACATAGT
Found at i:968668 original size:44 final size:46
Alignment explanation
Indices: 968615--968717 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 46
968605 ACATTCAATT
* *
968615 TGCATCGATGCA-CTCTTTAAAGAA-G-AAACATCGAATGCAATTGG
1 TGCATCGATGCATCCCTTTAAA-AATGAAAACATCGAAGGCAATTGG
* *
968659 TGCATCGATGCATCCCTTTAAAAATGAAAACATCGAAGGTAATTTG
1 TGCATCGATGCATCCCTTTAAAAATGAAAACATCGAAGGCAATTGG
*
968705 TGTATCGATGCAT
1 TGCATCGATGCAT
968718 GGGTAGTGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 14 0.27
45 9 0.18
46 28 0.55
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (46 bp):
TGCATCGATGCATCCCTTTAAAAATGAAAACATCGAAGGCAATTGG
Found at i:968769 original size:20 final size:20
Alignment explanation
Indices: 968724--968801 Score: 111
Period size: 20 Copynumber: 3.7 Consensus size: 20
968714 GCATGGGTAG
968724 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
968748 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
968768 TGCATTGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
968788 TGCATCGATGCACT
1 TGCATCGATGCACT
968802 TCAAGGGGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
20 36 0.69
22 1 0.02
23 2 0.04
24 13 0.25
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:969596 original size:18 final size:18
Alignment explanation
Indices: 969573--969608 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
969563 GAGGGTCTAC
969573 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
*
969591 GTGGTCCTTTGGGACATA
1 GTGGTCCTTCGGGACATA
969609 TGTGTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:975870 original size:17 final size:18
Alignment explanation
Indices: 975833--975873 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
975823 ATGTTATGTA
*
975833 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
975851 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
975868 TTTACT
1 TTTACT
975874 AATATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:977005 original size:51 final size:51
Alignment explanation
Indices: 976926--977038 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
976916 AGATACACAG
* ** * *
976926 ATATAGCGTGGTTTAGGGGGCGCACTATACCCCACGTAG-TTCCAAATCAGC
1 ATATAGCGCGGTACAGGGGACGCACTATACCCCACGTAGCAT-CAAATCAGC
* *
976977 ATATAGCGCGGTACAGGGGACGCGCTATACCCCACGTGGCATCAAATCAGC
1 ATATAGCGCGGTACAGGGGACGCACTATACCCCACGTAGCATCAAATCAGC
*
977028 GTATAGCGCGG
1 ATATAGCGCGG
977039 GTCAAGGGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 52 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.28, T:0.19
Consensus pattern (51 bp):
ATATAGCGCGGTACAGGGGACGCACTATACCCCACGTAGCATCAAATCAGC
Found at i:977052 original size:51 final size:50
Alignment explanation
Indices: 976942--977053 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 50
976932 CGTGGTTTAG
* *
976942 GGGGCGCACTATACCCCACGTAGTTCCAAATCAGCATATAGCGCGGTACA
1 GGGGCGCGCTATACCCCACGTAGATCCAAATCAGCATATAGCGCGGTACA
* *
976992 GGGGACGCGCTATACCCCACGTGGCAT-CAAATCAGCGTATAGCGCGGGT-CAA
1 GGGG-CGCGCTATACCCCACGTAG-ATCCAAATCAGCATATAGCGC-GGTAC-A
977044 GGGGCGCGCT
1 GGGGCGCGCT
977054 TTACTGCTAC
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
50 4 0.07
51 41 0.76
52 9 0.17
ACGTcount: A:0.24, C:0.29, G:0.30, T:0.16
Consensus pattern (50 bp):
GGGGCGCGCTATACCCCACGTAGATCCAAATCAGCATATAGCGCGGTACA
Found at i:980231 original size:21 final size:21
Alignment explanation
Indices: 980206--980249 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
980196 CCCCTTATGC
980206 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
980227 CTCTCAAGTTTTTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
980248 CT
1 CT
980250 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.30, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:983002 original size:21 final size:20
Alignment explanation
Indices: 982929--983003 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 20
982919 CAGTTTCCAG
* *
982929 ATTCGCAATGCGATTATGACT
1 ATTCGCAATGCGATT-TTACA
982950 A-TCGCAATGCGATTTTACA
1 ATTCGCAATGCGATTTTACA
**
982969 ATTTCGCGTTGCGATTTTACCA
1 A-TTCGCAATGCGATTTTA-CA
982991 ATTCGCAATGCGA
1 ATTCGCAATGCGA
983004 ATAAGTAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.09
20 13 0.29
21 25 0.56
22 3 0.07
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (20 bp):
ATTCGCAATGCGATTTTACA
Found at i:983064 original size:20 final size:20
Alignment explanation
Indices: 983036--983162 Score: 157
Period size: 20 Copynumber: 6.3 Consensus size: 20
983026 TTGGAAAATA
* *
983036 GCAATGCGATACTGACTATC
1 GCAACGCGATACTGACTTTC
* **
983056 GCAACGCGATAAT-ACAAAATC
1 GCAACGCGATACTGAC--TTTC
*
983077 ACAACGCGATACTGACTTTC
1 GCAACGCGATACTGACTTTC
983097 GCAACGCGATACTGACTTTC
1 GCAACGCGATACTGACTTTC
*
983117 GCAACGCGATTCTGACTTTC
1 GCAACGCGATACTGACTTTC
*
983137 GCAACGCGATTCTGACTTTC
1 GCAACGCGATACTGACTTTC
983157 GCAACG
1 GCAACG
983163 AGATTCTGAA
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
19 2 0.02
20 77 0.81
21 14 0.15
22 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (20 bp):
GCAACGCGATACTGACTTTC
Found at i:983179 original size:40 final size:40
Alignment explanation
Indices: 983095--983180 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
983085 ATACTGACTT
* ***
983095 TCGCAACGCGATACTGACTTTCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTTTCGCAACGAGATTCTGAAAA
*
983135 TCGCAACGCGATTCTGACTTTCGCAACGAGATTCTGAAAA
1 TCGCAACGCGATACTGACTTTCGCAACGAGATTCTGAAAA
983175 TCGCAA
1 TCGCAA
983181 TCATCTTCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TCGCAACGCGATACTGACTTTCGCAACGAGATTCTGAAAA
Found at i:983180 original size:20 final size:20
Alignment explanation
Indices: 983078--983171 Score: 161
Period size: 20 Copynumber: 4.7 Consensus size: 20
983068 TACAAAATCA
*
983078 CAACGCGATACTGACTTTCG
1 CAACGCGATTCTGACTTTCG
*
983098 CAACGCGATACTGACTTTCG
1 CAACGCGATTCTGACTTTCG
983118 CAACGCGATTCTGACTTTCG
1 CAACGCGATTCTGACTTTCG
983138 CAACGCGATTCTGACTTTCG
1 CAACGCGATTCTGACTTTCG
*
983158 CAACGAGATTCTGA
1 CAACGCGATTCTGA
983172 AAATCGCAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (20 bp):
CAACGCGATTCTGACTTTCG
Found at i:983418 original size:34 final size:34
Alignment explanation
Indices: 983375--983481 Score: 97
Period size: 40 Copynumber: 3.0 Consensus size: 34
983365 GACATTCATT
983375 TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
1 TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
** *
983409 TGACTATCGCAACGCGAAAATGGCTATCGCAACACGAAAA
1 TGACTATCGCAACG-G-----GGAAATCGCAACGCGAAAA
* * * *
983449 TGGCTATCGCAACGAGAAAATCGCAATGCGAAA
1 TGACTATCGCAACGGGGAAATCGCAACGCGAAA
983482 TGAAAATCGC
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
34 27 0.47
35 1 0.02
40 29 0.51
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.14
Consensus pattern (34 bp):
TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
Found at i:983419 original size:20 final size:20
Alignment explanation
Indices: 983394--983469 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
983384 CAACGGGGAA
*
983394 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGGCT
983414 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
983434 ATCGCAACACGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
983454 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
983470 CGCAATGCGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:983531 original size:34 final size:34
Alignment explanation
Indices: 983488--983567 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 34
983478 GAAATGAAAA
* * *
983488 TCGCATTGCGATTTTCTCGTTGCGATAGCCATTT
1 TCGCGTTGCGATTCTCTCGTTGCGATAGCCAGTT
*
983522 TCGCGTTGCGATTCTCTCGTTGCGATAGTCAGTT
1 TCGCGTTGCGATTCTCTCGTTGCGATAGCCAGTT
*
983556 TCGTGTTGCGAT
1 TCGCGTTGCGAT
983568 AGTCTGTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.12, C:0.23, G:0.25, T:0.40
Consensus pattern (34 bp):
TCGCGTTGCGATTCTCTCGTTGCGATAGCCAGTT
Found at i:985169 original size:41 final size:42
Alignment explanation
Indices: 985124--985215 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
985114 TCTCTTCAAC
* *
985124 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
985165 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
985207 GATGACAGG
1 GATGACAGG
985216 TGAGTCGGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 20 0.44
42 25 0.56
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:985180 original size:21 final size:21
Alignment explanation
Indices: 985151--985211 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
985141 GAACGGTGGG
*
985151 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
985172 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
985193 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
985212 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:985580 original size:20 final size:20
Alignment explanation
Indices: 985555--985607 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
985545 GAAGAATAGT
*
985555 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
985575 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* *
985595 TGACTATCGCAAC
1 TTACTTTCGCAAC
985608 GCGGAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:985605 original size:40 final size:39
Alignment explanation
Indices: 985561--985673 Score: 104
Period size: 39 Copynumber: 2.9 Consensus size: 39
985551 TAGTTTACTT
* *
985561 TCGCAACAC-GAAACTTACTTTCGCAACGCGAAAATGACTA
1 TCGCAACACGGAAA-TGACTATCGCAACGC-AAAATGACTA
* * *
985601 TCGCAACGCGGAAATGGCTATCGCAACGCAAAATGGCTA
1 TCGCAACACGGAAATGACTATCGCAACGCAAAATGACTA
** **
985640 TCGCAATGC-GAAATGAAAATCGCAACGACAAAAT
1 TCGCAACACGGAAATGACTATCGCAACG-CAAAAT
985674 CGCAATGCGA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
38 15 0.24
39 23 0.37
40 20 0.32
41 4 0.06
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (39 bp):
TCGCAACACGGAAATGACTATCGCAACGCAAAATGACTA
Found at i:985608 original size:20 final size:20
Alignment explanation
Indices: 985561--985666 Score: 108
Period size: 20 Copynumber: 5.4 Consensus size: 20
985551 TAGTTTACTT
* * * *
985561 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
985581 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
985601 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
*
985621 TCGCAACGC-AAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
985640 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
985659 TCGCAACG
1 TCGCAACG
985667 ACAAAATCGC
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
19 30 0.41
20 43 0.59
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:985645 original size:39 final size:38
Alignment explanation
Indices: 985581--985673 Score: 114
Period size: 39 Copynumber: 2.4 Consensus size: 38
985571 AAACTTACTT
***
985581 TCGCAACGCGAAAATGACTATCGCAACGCGGAAATGGCTA
1 TCGCAACGC-AAAATGACTATCGCAACGC-GAAATGAAAA
* *
985621 TCGCAACGCAAAATGGCTATCGCAATGCGAAATGAAAA
1 TCGCAACGCAAAATGACTATCGCAACGCGAAATGAAAA
985659 TCGCAACGACAAAAT
1 TCGCAACG-CAAAAT
985674 CGCAATGCGA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
38 15 0.32
39 23 0.49
40 9 0.19
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (38 bp):
TCGCAACGCAAAATGACTATCGCAACGCGAAATGAAAA
Found at i:985674 original size:14 final size:14
Alignment explanation
Indices: 985655--985713 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
985645 ATGCGAAATG
985655 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
985669 AAAATCGCAATGCGAAATA
1 AAAATCGCAA--CG--A-C
*
985688 AAAATTGCAACGAC
1 AAAATCGCAACGAC
985702 AAAATCGCAACG
1 AAAATCGCAACG
985714 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 21 0.58
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.25
ACGTcount: A:0.51, C:0.22, G:0.15, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:985676 original size:33 final size:33
Alignment explanation
Indices: 985639--985729 Score: 137
Period size: 33 Copynumber: 2.8 Consensus size: 33
985629 CAAAATGGCT
*
985639 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
*
985672 ATCGCAATGCGAAATAAAAATTGCAACGACAAA
1 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
* * *
985705 ATCGCAACGCGAAACACAAATCGCA
1 ATCGCAATGCGAAATAAAAATCGCA
985730 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.48, C:0.23, G:0.16, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATAAAAATCGCAACGACAAA
Found at i:985771 original size:14 final size:14
Alignment explanation
Indices: 985752--985805 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
985742 TTTCGTGTTA
985752 CGATTTTGTCGTTG
1 CGATTTTGTCGTTG
*
985766 CGATTTTCATTTCGCATTG
1 CGA-TTT--TGTCG--TTG
985785 CGATTTTGTCGTTG
1 CGATTTTGTCGTTG
985799 CGATTTT
1 CGATTTT
985806 CATTTCGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
15 3 0.09
16 4 0.12
17 4 0.12
18 3 0.09
19 6 0.18
ACGTcount: A:0.11, C:0.17, G:0.22, T:0.50
Consensus pattern (14 bp):
CGATTTTGTCGTTG
Found at i:985787 original size:19 final size:19
Alignment explanation
Indices: 985725--985841 Score: 83
Period size: 19 Copynumber: 6.6 Consensus size: 19
985715 GAAACACAAA
985725 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
** * *
985744 TCGTGTTACGA-TTT--TG
1 TCGCATTGCGATTTTCATT
985760 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
985777 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
985793 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* **
985810 TCGCATTGTGATAGTCATT
1 TCGCATTGCGATTTTCATT
985829 TCCGCATTGCGAT
1 T-CGCATTGCGAT
985842 AGTCATTTTC
Statistics
Matches: 75, Mismatches: 12, Indels: 21
0.69 0.11 0.19
Matches are distributed among these distances:
14 11 0.15
15 6 0.08
16 8 0.11
17 8 0.11
18 6 0.08
19 26 0.35
20 10 0.13
ACGTcount: A:0.15, C:0.19, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:985817 original size:33 final size:33
Alignment explanation
Indices: 985730--985817 Score: 149
Period size: 33 Copynumber: 2.7 Consensus size: 33
985720 ACAAATCGCA
** *
985730 TTGCGATTTTCATTTCGTGTTACGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
985763 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
985796 TTGCGATTTTCATTTCGCATTG
1 TTGCGATTTTCATTTCGCATTG
985818 TGATAGTCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.12, C:0.17, G:0.20, T:0.50
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:985860 original size:20 final size:20
Alignment explanation
Indices: 985805--985849 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
985795 GTTGCGATTT
*
985805 TCATTT-CGCATTGTGATAG
1 TCATTTCCGCATTGCGATAG
985824 TCATTTCCGCATTGCGATAG
1 TCATTTCCGCATTGCGATAG
985844 TCATTT
1 TCATTT
985850 TCGTGTTGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (20 bp):
TCATTTCCGCATTGCGATAG
Found at i:986395 original size:18 final size:18
Alignment explanation
Indices: 986372--986419 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
986362 CGGGTCGATC
986372 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
986390 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
986408 AGGTGATGGCTC
1 AGGTGATGGCTC
986420 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:987764 original size:20 final size:20
Alignment explanation
Indices: 987739--987781 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
987729 AATAGTTTCT
*
987739 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCACAACAC
* *
987759 GAAAATGACAATCACAACGC
1 GAAAATGAAAATCACAACAC
987779 GAA
1 GAA
987782 TTTGACTATC
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:0.53, C:0.21, G:0.16, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCACAACAC
Found at i:988347 original size:20 final size:20
Alignment explanation
Indices: 988213--988346 Score: 189
Period size: 20 Copynumber: 6.7 Consensus size: 20
988203 GATTATGTAT
*
988213 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
988233 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
988253 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
988273 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
988293 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
988314 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
988334 TATCGCGTTGCGA
1 TATCGCGTTGCGA
988347 TTTTCCAAAT
Statistics
Matches: 103, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
19 3 0.03
20 84 0.82
21 14 0.14
22 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:988365 original size:21 final size:20
Alignment explanation
Indices: 988336--988387 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
988326 ATAGTCAGTA
* *
988336 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACAAAT
**
988357 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACAAAT
988377 TCGCATTGCGA
1 TCGCATTGCGA
988388 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACAAAT
Found at i:988366 original size:41 final size:41
Alignment explanation
Indices: 988233--988368 Score: 150
Period size: 41 Copynumber: 3.3 Consensus size: 41
988223 CGAAAGTCAG
* * *** *
988233 TATCGCGTTGCGAAAGTAAGTATCGCGTTGCGAAAGTC-AG
1 TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCAAA
* ** *
988273 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCAAA
988314 TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAA
1 TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTT-CAAA
*
988356 T-TCGCATTGCGAT
1 TATCGCGTTGCGAT
988369 TTACTTATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
40 33 0.40
41 48 0.58
42 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.32
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCAAA
Found at i:988429 original size:21 final size:22
Alignment explanation
Indices: 988377--988429 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
988367 ATTTACTTAT
988377 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
988398 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
988419 TCGCATTGCGA
1 TCGCATTGCGA
988430 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:999443 original size:20 final size:20
Alignment explanation
Indices: 999416--999467 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
999406 CAAAACCACC
*
999416 GGTATCGATACTGGCTAGGG
1 GGTATCGATACTGGCCAGGG
*
999436 GTTATCGATACTGGCCAGGG
1 GGTATCGATACTGGCCAGGG
999456 GGTATCGATACT
1 GGTATCGATACT
999468 AGTATGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (20 bp):
GGTATCGATACTGGCCAGGG
Found at i:1009657 original size:13 final size:13
Alignment explanation
Indices: 1009639--1009671 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
1009629 TCAAAAAAAC
1009639 AAAAAAAGGCAAA
1 AAAAAAAGGCAAA
1009652 AAAAAAAGGCAAA
1 AAAAAAAGGCAAA
1009665 AAAAAAA
1 AAAAAAA
1009672 AAAAAGAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAGGCAAA
Found at i:1009657 original size:15 final size:15
Alignment explanation
Indices: 1009633--1009673 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
1009623 TTTTTTTCAA
1009633 AAAAACAAAAAAAGGC
1 AAAAA-AAAAAAAGGC
1009649 --AAAAAAAAAAGGC
1 AAAAAAAAAAAAGGC
1009662 AAAAAAAAAAAA
1 AAAAAAAAAAAA
1009674 AAAGAGCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 10 0.43
14 3 0.13
15 10 0.43
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGGC
Found at i:1009658 original size:14 final size:14
Alignment explanation
Indices: 1009634--1009672 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
1009624 TTTTTTCAAA
1009634 AAAACAAAAAAAGGC
1 AAAA-AAAAAAAGGC
1009649 -AAAAAAAAAAGGC
1 AAAAAAAAAAAGGC
1009662 AAAAAAAAAAA
1 AAAAAAAAAAA
1009673 AAAAGAGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGGC
Found at i:1009684 original size:20 final size:18
Alignment explanation
Indices: 1009649--1009687 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
1009639 AAAAAAAGGC
1009649 AAAAAAAAAAGGCAAAAA
1 AAAAAAAAAAGGCAAAAA
1009667 AAAAAAAAAAGAGCCAAAAA
1 AAAAAAAAAAG-G-CAAAAA
1009687 A
1 A
1009688 GCCAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.58
19 1 0.05
20 7 0.37
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAGGCAAAAA
Found at i:1017241 original size:20 final size:21
Alignment explanation
Indices: 1017217--1017286 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
1017207 ATATCTAGAG
1017217 TTAATTAAATATATGTTTTAA
1 TTAATTAAATATATGTTTTAA
* * *
1017238 -TAATCCTGAATATTTAATTTTAA
1 TTAAT--TAAATATAT-GTTTTAA
*
1017261 TTAATTAAATATA-GATTTAA
1 TTAATTAAATATATGTTTTAA
1017281 TTAATT
1 TTAATT
1017287 TGAAATAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 15 0.39
22 13 0.34
23 6 0.16
24 4 0.11
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (21 bp):
TTAATTAAATATATGTTTTAA
Found at i:1017356 original size:90 final size:89
Alignment explanation
Indices: 1017248--1017420 Score: 301
Period size: 90 Copynumber: 1.9 Consensus size: 89
1017238 TAATCCTGAA
* *
1017248 TATTTAATTTTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
1017313 TAGGGTAACTTGGATATAAGAGGAT
65 TAGGGTAACTTGGATATAAGAGGAT
*
1017338 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAATTAATAAAACCCTAATATGATT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
*
1017403 AGGGTAACTTGGCTATAA
66 AGGGTAACTTGGATATAA
1017421 AAGGGTGTGT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 30 0.38
90 49 0.62
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (89 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAGAGGAT
Found at i:1018711 original size:20 final size:21
Alignment explanation
Indices: 1018673--1018711 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1018663 TTGTTTTTCA
* *
1018673 AAATCTTTTATTTTGACTTGC
1 AAATCTTTAATCTTGACTTGC
1018694 AAATCTTTAATCTT-ACTT
1 AAATCTTTAATCTTGACTT
1018712 TCGAGTTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.51
Consensus pattern (21 bp):
AAATCTTTAATCTTGACTTGC
Found at i:1020926 original size:20 final size:20
Alignment explanation
Indices: 1020901--1020942 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1020891 TTCGATGTTT
*
1020901 GGGGGTATTGATACTGTAGA
1 GGGGGTATCGATACTGTAGA
1020921 GGGGGTATCGATACTGTAGA
1 GGGGGTATCGATACTGTAGA
1020941 GG
1 GG
1020943 CAATATCGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.43, T:0.26
Consensus pattern (20 bp):
GGGGGTATCGATACTGTAGA
Found at i:1020949 original size:20 final size:20
Alignment explanation
Indices: 1020910--1020955 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1020900 TGGGGGTATT
***
1020910 GATACTGTAGAGGGGGTATC
1 GATACTGTAGAGGCAATATC
1020930 GATACTGTAGAGGCAATATC
1 GATACTGTAGAGGCAATATC
*
1020950 GGTACT
1 GATACT
1020956 ATCCTTATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (20 bp):
GATACTGTAGAGGCAATATC
Found at i:1032617 original size:7 final size:8
Alignment explanation
Indices: 1032590--1032627 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
1032580 CTGAAGGAAG
*
1032590 AAAAAATG
1 AAAAAATT
*
1032598 AAAAAACT
1 AAAAAATT
1032606 AAAAAATT
1 AAAAAATT
1032614 AAAAAATT
1 AAAAAATT
1032622 AAAAAA
1 AAAAAA
1032628 AGAGTAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (8 bp):
AAAAAATT
Found at i:1032644 original size:32 final size:32
Alignment explanation
Indices: 1032608--1032673 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
1032598 AAAAAACTAA
* *
1032608 AAAATTAAA-AAATTAAA-AAAAGAGTAAAAGAG
1 AAAATGAAATAAA-TAAAGAAAAAAG-AAAAGAG
1032640 AAAATGAAATAAATAAAGAAAAAAGAAAAGAG
1 AAAATGAAATAAATAAAGAAAAAAGAAAAGAG
1032672 AA
1 AA
1032674 TAAACAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 21 0.70
33 9 0.30
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (32 bp):
AAAATGAAATAAATAAAGAAAAAAGAAAAGAG
Found at i:1034965 original size:81 final size:81
Alignment explanation
Indices: 1034852--1035020 Score: 266
Period size: 81 Copynumber: 2.1 Consensus size: 81
1034842 ATTCCTTTAG
* * * *
1034852 TCTTTTACCCAAAGGCATTTAGCCCTTCATCTAACTTGCATGATTGACACTTTTCTGCCAAATGC
1 TCTTTTACCCAAAGGCATTTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
*
1034917 ACAGCTAGGTCATTAA
66 ACAGCTAGGCCATTAA
* * *
1034933 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACCCAAAGGCATTTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1034998 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
1035014 TCTTTTA
1 TCTTTTA
1035021 TTTTAGAACT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (81 bp):
TCTTTTACCCAAAGGCATTTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
ACAGCTAGGCCATTAA
Found at i:1035334 original size:14 final size:15
Alignment explanation
Indices: 1035306--1035334 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1035296 TATGTCCAAC
1035306 ATACCTTTCTTTCTT
1 ATACCTTTCTTTCTT
1035321 ATACCTTT-TTTCTT
1 ATACCTTTCTTTCTT
1035335 TTTATTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (15 bp):
ATACCTTTCTTTCTT
Found at i:1035435 original size:46 final size:46
Alignment explanation
Indices: 1035363--1035575 Score: 320
Period size: 46 Copynumber: 4.6 Consensus size: 46
1035353 TTATTCACTA
*
1035363 ATTTCATTTATGGCATCCTTTCATGCCTTAATACATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * * *
1035409 ATTTCATTCATGGCATCCTTTTATGCCTTAATGCATCCTTTAATGT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1035455 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
**
1035501 ATTTCATTTATGGTGTCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1035547 ATTTCATGCTTTAAT-GCATCCTTTCATGC
1 ATTTCA---TTT-ATGGCATCCTTTCATGC
1035576 ATTTCATTTA
Statistics
Matches: 150, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
46 133 0.89
49 15 0.10
50 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.45
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:1035446 original size:20 final size:20
Alignment explanation
Indices: 1035375--1035667 Score: 118
Period size: 20 Copynumber: 12.7 Consensus size: 20
1035365 TTCATTTATG
1035375 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
1035395 ACATCCTTTCATGCATTTCATTCAT
1 GCATCCTTTCATGC----C-TTAAT
*
1035420 GGCATCCTTTTATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* * *
1035441 GCATCCTTTAATGTATTTCATTTAT
1 GCATCCTTTCATG-----CCTTAAT
1035466 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
1035487 GCATCCTTTCATGCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
**
1035512 GGTGTCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
1035533 GCATCCTTTCATGCATTTCATGCTTTAAT
1 GCATCCTTTCATG-----C---C-TTAAT
*
1035562 GCATCCTTTCATGCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
*
1035587 GGCATCCTTTCTTGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
1035608 GCATTCTTTCATGCATTTCATTAAT
1 GCATCCTTTCATGC----C-TTAAT
1035633 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
1035654 GCATCATTTCATGC
1 GCATCCTTTCATGC
1035668 ATTTTATTTA
Statistics
Matches: 211, Mismatches: 27, Indels: 70
0.69 0.09 0.23
Matches are distributed among these distances:
20 75 0.36
21 22 0.10
22 4 0.02
24 4 0.02
25 25 0.12
26 62 0.29
28 1 0.00
29 18 0.09
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:1035561 original size:29 final size:29
Alignment explanation
Indices: 1035519--1035582 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
1035509 TATGGTGTCC
1035519 TTTCATGCCTTAATGCATCCTTTCATGCA
1 TTTCATGCCTTAATGCATCCTTTCATGCA
*
1035548 TTTCATGCTTTAATGCATCCTTTCATGCA
1 TTTCATGCCTTAATGCATCCTTTCATGCA
1035577 TTTCAT
1 TTTCAT
1035583 TTATGGCATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.45
Consensus pattern (29 bp):
TTTCATGCCTTAATGCATCCTTTCATGCA
Found at i:1035561 original size:75 final size:74
Alignment explanation
Indices: 1035473--1035647 Score: 266
Period size: 75 Copynumber: 2.4 Consensus size: 74
1035463 TATGGCATCC
**
1035473 TTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGTGTCCTTTCATGCCTTAATGCATC
1 TTTCATG-CTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATC
1035538 CTTTCATGCA
65 CTTTCATGCA
* *
1035548 TTTCATGCTTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCTTGCCTTAATGCATT
1 TTTCATGC-TTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATC
1035613 CTTTCATGCA
65 CTTTCATGCA
1035623 TTTCA---TTAATGGCATCCTTTCATGC
1 TTTCATGCTTAAT-GCATCCTTTCATGC
1035648 CTTAATGCAT
Statistics
Matches: 94, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
71 5 0.05
72 14 0.15
74 1 0.01
75 74 0.79
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.45
Consensus pattern (74 bp):
TTTCATGCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCC
TTTCATGCA
Found at i:1035565 original size:121 final size:121
Alignment explanation
Indices: 1035431--1035671 Score: 401
Period size: 121 Copynumber: 2.0 Consensus size: 121
1035421 GCATCCTTTT
*
1035431 ATGCCTTAATGCATCCTTTAATGTATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTT
1 ATGCCTTAATGCATCCTTTAATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTT
* ** *
1035496 CATGCATTTCATTTATGGTGTCCTTTCATGCCTTAATGCATCCTTTCATGCATTTC
66 CATGCATTTCATTAATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTC
* * * *
1035552 ATGCTTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCTTGCCTTAATGCATTCTTT
1 ATGCCTTAATGCATCCTTTAATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTT
1035617 CATGCATTTCATTAATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTT
66 CATGCATTTCATTAATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTT
1035672 TATTTATGGA
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
121 111 1.00
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.45
Consensus pattern (121 bp):
ATGCCTTAATGCATCCTTTAATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTT
CATGCATTTCATTAATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTC
Found at i:1035617 original size:46 final size:46
Alignment explanation
Indices: 1035548--1035680 Score: 205
Period size: 46 Copynumber: 2.9 Consensus size: 46
1035538 CTTTCATGCA
* *
1035548 TTTCATGCTTTAATGCATCCTTTCATGCATTTCATTTATGGCATCC
1 TTTCATGCCTTAATGCATTCTTTCATGCATTTCATTTATGGCATCC
* *
1035594 TTTCTTGCCTTAATGCATTCTTTCATGCATTTCATTAATGGCATCC
1 TTTCATGCCTTAATGCATTCTTTCATGCATTTCATTTATGGCATCC
*
1035640 TTTCATGCCTTAATGCA-TCATTTCATGCATTTTATTTATGG
1 TTTCATGCCTTAATGCATTC-TTTCATGCATTTCATTTATGG
1035681 ATTCGTTTTA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (46 bp):
TTTCATGCCTTAATGCATTCTTTCATGCATTTCATTTATGGCATCC
Found at i:1036315 original size:17 final size:18
Alignment explanation
Indices: 1036283--1036321 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1036273 TATCGATATT
*
1036283 TACCCTTATTAGTATCCA
1 TACCCTTATCAGTATCCA
*
1036301 TACCC-TATCAGTATCGA
1 TACCCTTATCAGTATCCA
1036318 TACC
1 TACC
1036322 ACTTGCATCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (18 bp):
TACCCTTATCAGTATCCA
Done.