Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008177.1 Hibiscus syriacus cultivar Beakdansim tig00110773_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: 1003138
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:854948 original size:22 final size:22
Alignment explanation
Indices: 854920--854982 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
854910 AAAATATAGT
*
854920 ATGAACAGTACCGTGAACAATA
1 ATGAACAATACCGTGAACAATA
*
854942 ATGAACAATATCGTGAACAATA
1 ATGAACAATACCGTGAACAATA
*
854964 ATGAA-AATTACCATGAACA
1 ATGAACAA-TACCGTGAACA
854983 GTACTGTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 2 0.06
22 34 0.94
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.21
Consensus pattern (22 bp):
ATGAACAATACCGTGAACAATA
Found at i:855039 original size:21 final size:22
Alignment explanation
Indices: 855015--855061 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
855005 CAGATTGTAA
855015 ACAGGGAACCGATT-CCCTGCT
1 ACAGGGAACCGATTCCCCTGCT
* *
855036 ACAGTGTACCGATTCCCCTGCT
1 ACAGGGAACCGATTCCCCTGCT
855058 ACAG
1 ACAG
855062 TACTGCTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.21
Consensus pattern (22 bp):
ACAGGGAACCGATTCCCCTGCT
Found at i:855057 original size:22 final size:21
Alignment explanation
Indices: 855022--855062 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
855012 TAAACAGGGA
855022 ACCGATTCCCTGCTACAGTGT
1 ACCGATTCCCTGCTACAGTGT
855043 ACCGATTCCCCTGCTACAGT
1 ACCGATT-CCCTGCTACAGT
855063 ACTGCTACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.20, C:0.37, G:0.17, T:0.27
Consensus pattern (21 bp):
ACCGATTCCCTGCTACAGTGT
Found at i:855961 original size:31 final size:31
Alignment explanation
Indices: 855905--855991 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
855895 ACATAGTTTA
*
855905 TATCATGTAGACATATCA-TTTCCATACCTT
1 TATCATATAGACATATCATTTTCCATACCTT
*
855935 TTTCATATAGACATATCATTTTCCATACCTT
1 TATCATATAGACATATCATTTTCCATACCTT
* *
855966 TATCACATAGATCATATAACTTTTCC
1 TATCATATAGA-CATATCA-TTTTCC
855992 TGCATATTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
30 16 0.33
31 21 0.43
32 6 0.12
33 6 0.12
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (31 bp):
TATCATATAGACATATCATTTTCCATACCTT
Found at i:862033 original size:22 final size:22
Alignment explanation
Indices: 862005--862057 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
861995 ATATAAATAG
862005 TACCGTGAACAATAATGAACAA
1 TACCGTGAACAATAATGAACAA
* *
862027 TATCGTGAACAATGATGAACAA
1 TACCGTGAACAATAATGAACAA
862049 TACCGTGAA
1 TACCGTGAA
862058 ATCAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (22 bp):
TACCGTGAACAATAATGAACAA
Found at i:862995 original size:30 final size:32
Alignment explanation
Indices: 862952--863023 Score: 121
Period size: 30 Copynumber: 2.3 Consensus size: 32
862942 ACATAGTTTA
*
862952 TATCACGTAGACATATCA-TTTCCATACCTTT
1 TATCACATAGACATATCATTTTCCATACCTTT
862983 T-TCACATAGACATATCATTTTCCATACCTTT
1 TATCACATAGACATATCATTTTCCATACCTTT
863014 TATCACATAG
1 TATCACATAG
863024 CTCATATAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 15 0.39
31 15 0.39
32 8 0.21
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.39
Consensus pattern (32 bp):
TATCACATAGACATATCATTTTCCATACCTTT
Found at i:866881 original size:21 final size:21
Alignment explanation
Indices: 866855--866918 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
866845 TTGAGGGTTC
866855 TATGTGGTCCTTCGGGACAAA
1 TATGTGGTCCTTCGGGACAAA
* *
866876 TATGTGGTCCTCCGAGACAAA
1 TATGTGGTCCTTCGGGACAAA
866897 TATGTGGTCCTTCGGGACAAA
1 TATGTGGTCCTTCGGGACAAA
866918 T
1 T
866919 TCTATGTACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACAAA
Found at i:867690 original size:16 final size:17
Alignment explanation
Indices: 867661--867696 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
867651 AAATTTTAAT
867661 TGTTTTGTAAAAGTAAA
1 TGTTTTGTAAAAGTAAA
*
867678 TGTTTTG-AAAAGTCAA
1 TGTTTTGTAAAAGTAAA
867694 TGT
1 TGT
867697 GACACCTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (17 bp):
TGTTTTGTAAAAGTAAA
Found at i:868030 original size:20 final size:20
Alignment explanation
Indices: 868001--868052 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
867991 AGGTAAGAGA
*
868001 AGTATTGATACTCTCTAGGT
1 AGTATCGATACTCTCTAGGT
868021 AGTATCGATACTCTCTAGGT
1 AGTATCGATACTCTCTAGGT
868041 AGTATCGATACT
1 AGTATCGATACT
868053 ACCAGTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (20 bp):
AGTATCGATACTCTCTAGGT
Found at i:883810 original size:70 final size:71
Alignment explanation
Indices: 883673--883811 Score: 192
Period size: 70 Copynumber: 2.0 Consensus size: 71
883663 GAGTGACTGA
* * *
883673 CATAATCCTGTTGCAGGCACCCAAGGACAGACAAGATCTGCAGGGTCATGCGGCGTCATCAATAG
1 CATAATCCCGTTGCAGGCACCCAAGGACAGACAAGATCTGCAGGGTCAGGCGGCGTCATCAACAG
883738 AACCAG
66 AACCAG
* * * *
883744 CATAATCCCGTTGCAGG-AGCCCAATGACAGA-AAGATCTGTAGGGTCAGGCGGCGTCATTAGCA
1 CATAATCCCGTTGCAGGCA-CCCAAGGACAGACAAGATCTGCAGGGTCAGGCGGCGTCATCAACA
883807 GAACC
65 GAACC
883812 GCGGTTGCAG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
70 33 0.55
71 27 0.45
ACGTcount: A:0.30, C:0.26, G:0.27, T:0.17
Consensus pattern (71 bp):
CATAATCCCGTTGCAGGCACCCAAGGACAGACAAGATCTGCAGGGTCAGGCGGCGTCATCAACAG
AACCAG
Found at i:887605 original size:54 final size:51
Alignment explanation
Indices: 887506--887610 Score: 174
Period size: 54 Copynumber: 2.0 Consensus size: 51
887496 CATAGATGAA
*
887506 GGGCTTTCACATCTGAGAAGAACTACATGAAGTGGCATCAACATTATGTTT
1 GGGCTTTCACATCTGAGAAGAACCACATGAAGTGGCATCAACATTATGTTT
887557 GGGCTTTCACATCTGAGAAGAATAACCACATGAAGTGGCATCAACATTATGTTT
1 GGGCTTTCACATCTGAGAAG---AACCACATGAAGTGGCATCAACATTATGTTT
887611 AATGATTTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
51 20 0.40
54 30 0.60
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (51 bp):
GGGCTTTCACATCTGAGAAGAACCACATGAAGTGGCATCAACATTATGTTT
Found at i:887898 original size:31 final size:31
Alignment explanation
Indices: 887862--887920 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
887852 AACTTAAAAG
*
887862 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
887893 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
887921 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:887968 original size:22 final size:22
Alignment explanation
Indices: 887944--888505 Score: 758
Period size: 22 Copynumber: 25.5 Consensus size: 22
887934 ATAATACATT
887944 TTTTAAAATAAATCAAT-CATA
1 TTTTAAAATAAATCAATCCATA
887965 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* **
887987 TTTTAAAATAAAGCAATCTGTA
1 TTTTAAAATAAATCAATCCATA
***
888009 TTTTAAAATAAAATTTTTCC-TA
1 TTTTAAAAT-AAATCAATCCATA
888031 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
** *
888053 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATCCATA
888075 TTTTTAAAATAAATCAATCCATA
1 -TTTTAAAATAAATCAATCCATA
888098 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
888120 TTTTAAAATAAATTAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
888142 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
888164 TTTTATAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
888186 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
** *
888208 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATCCATA
888230 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
888252 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
888274 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
888296 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
888318 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
**
888340 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
*
888362 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
***
888384 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
888406 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
**
888428 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
888450 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
888472 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
888494 TTTTAAAATAAA
1 TTTTAAAATAAA
888506 ATTTTAAAAT
Statistics
Matches: 472, Mismatches: 57, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
21 36 0.08
22 401 0.85
23 35 0.07
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:894162 original size:2 final size:2
Alignment explanation
Indices: 894157--894189 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
894147 TGAATTTTGC
894157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
894190 GAGAGAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:894194 original size:2 final size:2
Alignment explanation
Indices: 894189--894222 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
894179 ATATATATAT
894189 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
894223 TGTTTGGAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:896961 original size:158 final size:157
Alignment explanation
Indices: 896714--897028 Score: 513
Period size: 158 Copynumber: 2.0 Consensus size: 157
896704 TGGGGTAGGT
* * *
896714 CGCTTGATCAATAATAGGGTAAAGTACATGTGTAGTACCCAACTATGACTCTTATTTCGTTTTGG
1 CGCTTGATCAACAATAAGGTAAAGTACATGTGTAGTACCCAACTATGACTCTTATTTCGTTTTAG
896779 ACATCCAACTATTTTTTGTTTTAAAATCATATTTAACATTATATTTTAATTTTATTTTGGTCACC
66 ACATCCAACTATTTTTTGTTTTAAAATCATATTTAACATTATATTTTAATTTTATTTTGGTCACC
*
896844 CACAATTAAAAAAAATTAACATAACTTC
131 CACAATT-AAAAAAATTAACAGAACTTC
* * *
896872 CGCTTGATCAACAATAAGGTAAAGTACATGTGTAGTACCCAATTATGACTGTTATTTTGTTTTAG
1 CGCTTGATCAACAATAAGGTAAAGTACATGTGTAGTACCCAACTATGACTCTTATTTCGTTTTAG
* * * *
896937 ATATCTAACTATTTTTTGTTTTAAAATCATATTTAACATTATGTTTTAGTTTTATTTTGGTCACC
66 ACATCCAACTATTTTTTGTTTTAAAATCATATTTAACATTATATTTTAATTTTATTTTGGTCACC
*
897002 CACAATTAAAAAAATTAATAGAACTTC
131 CACAATTAAAAAAATTAACAGAACTTC
897029 TGACATTGTA
Statistics
Matches: 145, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
157 18 0.12
158 127 0.88
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (157 bp):
CGCTTGATCAACAATAAGGTAAAGTACATGTGTAGTACCCAACTATGACTCTTATTTCGTTTTAG
ACATCCAACTATTTTTTGTTTTAAAATCATATTTAACATTATATTTTAATTTTATTTTGGTCACC
CACAATTAAAAAAATTAACAGAACTTC
Found at i:899186 original size:46 final size:47
Alignment explanation
Indices: 899133--899225 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
899123 TAAGAAGTTA
899133 GAAGTATTAGAAA-TATTAAGAACATGTTTGAATATTTGGTGTGATT
1 GAAGTATTAGAAAGTATTAAGAACATGTTTGAATATTTGGTGTGATT
*
899179 GAAGTATTAGAAAGTATTAATAACATGTTTGAATATTTGGTGTGATT
1 GAAGTATTAGAAAGTATTAAGAACATGTTTGAATATTTGGTGTGATT
899226 TTTAGTTTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 13 0.29
47 32 0.71
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.40
Consensus pattern (47 bp):
GAAGTATTAGAAAGTATTAAGAACATGTTTGAATATTTGGTGTGATT
Found at i:900039 original size:15 final size:15
Alignment explanation
Indices: 900021--900070 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
900011 ATGTTTGTTA
*
900021 TGAAAATGTTCTATG
1 TGAAAATGTTCTAAG
*
900036 TGAAAATGTGCTAAG
1 TGAAAATGTTCTAAG
*
900051 TGAAAATGTTCTACG
1 TGAAAATGTTCTAAG
900066 TGAAA
1 TGAAA
900071 TACCTAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (15 bp):
TGAAAATGTTCTAAG
Found at i:900238 original size:25 final size:25
Alignment explanation
Indices: 900202--900274 Score: 105
Period size: 23 Copynumber: 3.0 Consensus size: 25
900192 GAGTTGAGGG
* *
900202 TTCTACGCGGTCCTTCGGGATAAAT
1 TTCTACGTGGTCCTTCGGGACAAAT
900227 TTCTACGTGGTCCTTC-GGACAAA-
1 TTCTACGTGGTCCTTCGGGACAAAT
*
900250 TTCTACGTTGTCCTTCGGGACAAAT
1 TTCTACGTGGTCCTTCGGGACAAAT
900275 CTATATGATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 15 0.35
24 13 0.30
25 15 0.35
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.33
Consensus pattern (25 bp):
TTCTACGTGGTCCTTCGGGACAAAT
Found at i:900327 original size:24 final size:23
Alignment explanation
Indices: 900262--900331 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
900252 CTACGTTGTC
*
900262 CTTCGG-GACAAATCTATATGA-TA
1 CTTCGGTG-CAAAT-TATATGAGCA
* * *
900285 CTTCGGTGTATATTTTATGCAGCA
1 CTTCGGTGCAAATTATATG-AGCA
900309 CTTCGGTGCAAATTATATGAGCA
1 CTTCGGTGCAAATTATATGAGCA
900332 GTGGTGACTG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
22 5 0.14
23 14 0.38
24 18 0.49
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (23 bp):
CTTCGGTGCAAATTATATGAGCA
Found at i:909753 original size:31 final size:30
Alignment explanation
Indices: 909675--909754 Score: 76
Period size: 31 Copynumber: 2.7 Consensus size: 30
909665 TATTATTATT
909675 TTTTTAA-ATAATTAAATAAAACATTAAGA
1 TTTTTAATATAATTAAATAAAACATTAAGA
* * * *
909704 TTTTAAATCTACTCAAATAAGAA-ATT-AGCAA
1 TTTTTAATATAATTAAATAA-AACATTAAG--A
909735 TTTTTAATATAATTAAATAA
1 TTTTTAATATAATTAAATAA
909755 TGAATAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
29 8 0.21
30 12 0.31
31 19 0.49
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (30 bp):
TTTTTAATATAATTAAATAAAACATTAAGA
Found at i:918028 original size:55 final size:55
Alignment explanation
Indices: 917963--918335 Score: 316
Period size: 55 Copynumber: 6.9 Consensus size: 55
917953 CTTCGAATGC
* * * *
917963 CGGGTTCGCTCCCTATTCATAT-AGACAGTATAAGACTCGAACAATCTACAACAAA
1 CGGGTCCGCTCCCTATTCCT-TCAGAGAGTATAAGACTCGAACAATCTTCAACAAA
* * * * *
918018 CGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAAACTCGAGCAATTTTCAATAAA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAA
* * * * *
918073 CGGGTCCGCTCCATATTCCTTCAGGGAGTATAGGACTCGAACAATCTTTAGCAAA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAA
* * * *
918128 CGGGTCCGTTCCCTATTCCTTCAGGGAGTATAAGACTCAAATAATCTT---C-AA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAA
* * * *
918179 CGGGTTCGCTCCCTATTCTTTCAGGGAGTAT-AGAACTCGAACAATCTTCTGAC-AA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTC-AACAAA
* * * * * *
918234 TGGGTTCGCTCCCTATTCTTTCAGGGAGTAT-AGAACTCAAATAATCTTCTAA-AAA
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTC-AACAAA
* * * * * *
918289 TGGGTTCGCTCCCTATTCTTTTAGGGAATAT-AGAACTCGAACAATCT
1 CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCT
918336 CGTTTTGCTC
Statistics
Matches: 274, Mismatches: 37, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
50 2 0.01
51 42 0.15
52 1 0.00
54 1 0.00
55 228 0.83
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (55 bp):
CGGGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAA
Found at i:918157 original size:110 final size:107
Alignment explanation
Indices: 917963--918335 Score: 380
Period size: 110 Copynumber: 3.4 Consensus size: 107
917953 CTTCGAATGC
* ** ** * *
917963 CGGGTTCGCTCCCTATTCATAT-AGACAGTATA-AGACTCGAACAATCTACAACAAACGTGTCCG
1 CGGGTTCGCTCCCTATTC-TTTCAGGGAGTATAGA-ACTCGAACAATCTTTAGCAAACGGGTCCG
* *
918026 CTCCCTATTCCTTCAGAGAGTATAAAACTCGAGCAATTTTCAATAAA
64 CTCCCTATTCCTTCAGGGAGTATAAAACTC-A--AATATTCAATAAA
* * * * *
918073 CGGGTCCGCTCCATATTCCTTCAGGGAGTATAGGACTCGAACAATCTTTAGCAAACGGGTCCGTT
1 CGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTTAGCAAACGGGTCCGCT
* * * *
918138 CCCTATTCCTTCAGGGAGTATAAGACTCAAATAATC-TTCAA
66 CCCTATTCCTTCAGGGAGTATAAAACTCAAATATTCAATAAA
* *
918179 CGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT-G-ACAATGGGTTCG
1 CGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTT-TAGCA-AACGGGTCCG
* *
918242 CTCCCTATTCTTTCAGGGAGTATAGAACTCAAATAATCTTCTAA-AAA
64 CTCCCTATTCCTTCAGGGAGTATAAAACTCAAAT-A--TTC-AATAAA
* * *
918289 TGGGTTCGCTCCCTATTCTTTTAGGGAATATAGAACTCGAACAATCT
1 CGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCT
918336 CGTTTTGCTC
Statistics
Matches: 220, Mismatches: 34, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
105 1 0.00
106 86 0.39
107 7 0.03
109 4 0.02
110 122 0.55
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (107 bp):
CGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTTAGCAAACGGGTCCGCT
CCCTATTCCTTCAGGGAGTATAAAACTCAAATATTCAATAAA
Found at i:918304 original size:161 final size:160
Alignment explanation
Indices: 918024--918320 Score: 373
Period size: 161 Copynumber: 1.8 Consensus size: 160
918014 CAAACGTGTC
* *
918024 CGCTCCCTATTCCTTCAGAGAGTATAAAACTCGAGCAATTTTCAATAAACGGGTCCGCTCCATAT
1 CGCTCCCTATTCCTTCAGAGAGTATAAAACTCGAACAATCTTC-ATAAACGGGTCCGCTCCATAT
* * * *
918089 TCCTTCAGGGAGTATAGGACTCGAACAATCTTTAGCAAACGGGTCCGTTCCCTATTCCTTCAGGG
65 TCCTTCAGGGAGTATAGAACTCAAACAATCTTTAGAAAACGGGTCCGCTCCCTATTCCTTCAGGG
*
918154 AGTATAAGACTCAAATAATCTTCAACGGGTT
130 AATATAAGACTCAAATAATCTTCAACGGGTT
* * * * * *
918185 CGCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTC-TGACAATGGGTTCGCTCCCTA
1 CGCTCCCTATTCCTTCAGAGAGTATAAAACTCGAACAATCTTCAT-A-AACGGGTCCGCTCCATA
* * * * * *
918249 TTCTTTCAGGGAGTATAGAACTCAAATAATCTTCTA-AAAATGGGTTCGCTCCCTATTCTTTTAG
64 TTCCTTCAGGGAGTATAGAACTCAAACAATCTT-TAGAAAACGGGTCCGCTCCCTATTCCTTCAG
918313 GGAATATA
128 GGAATATA
918321 GAACTCGAAC
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
159 1 0.01
160 1 0.01
161 110 0.96
162 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (160 bp):
CGCTCCCTATTCCTTCAGAGAGTATAAAACTCGAACAATCTTCATAAACGGGTCCGCTCCATATT
CCTTCAGGGAGTATAGAACTCAAACAATCTTTAGAAAACGGGTCCGCTCCCTATTCCTTCAGGGA
ATATAAGACTCAAATAATCTTCAACGGGTT
Found at i:918389 original size:37 final size:37
Alignment explanation
Indices: 918339--918421 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
918329 ACAATCTCGT
* **
918339 TTTGCTCCACTACTCTTCTGTGAAGACTTATAG-ATGA
1 TTTGCTTCACTACTCTTCCATGAAGACTTA-AGTATGA
* *
918376 TTTGCTTCACTACTCTTCCATGAAGGCTTAAGTTTGA
1 TTTGCTTCACTACTCTTCCATGAAGACTTAAGTATGA
918413 TTTGCTTCA
1 TTTGCTTCA
918422 AAGGTCGAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 2 0.05
37 38 0.95
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (37 bp):
TTTGCTTCACTACTCTTCCATGAAGACTTAAGTATGA
Found at i:919660 original size:13 final size:13
Alignment explanation
Indices: 919638--919732 Score: 72
Period size: 13 Copynumber: 7.3 Consensus size: 13
919628 TGAGACCTCA
919638 TTTT-TATTTTCT
1 TTTTCTATTTTCT
919650 TTTTCTATTTTCT
1 TTTTCTATTTTCT
* *
919663 TTTTCCATTTTTT
1 TTTTCTATTTTCT
*
919676 TCTTTCTCTTTCTCT
1 T-TTTCTATTT-TCT
*
919691 TTTTCCT-TTTCCT
1 TTTT-CTATTTTCT
*
919704 TTTTC-CTTTTCT
1 TTTTCTATTTTCT
*
919716 TTTT-TTTTTTCCT
1 TTTTCTATTTT-CT
919729 TTTT
1 TTTT
919733 TCCTTTTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
12 18 0.26
13 32 0.47
14 13 0.19
15 5 0.07
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCTATTTTCT
Found at i:919672 original size:32 final size:31
Alignment explanation
Indices: 919636--919848 Score: 111
Period size: 34 Copynumber: 6.5 Consensus size: 31
919626 CTTGAGACCT
919636 CATTTTTATTTTCTTTTTCTATTTTCTTTTTC
1 CATTTTTATTTTCTTTTTCT-TTTTCTTTTTC
* *
919668 CATTTTTTTCTTTCTCTTTCTCTTTTTCCTTTTC
1 CATTTTTAT-TTTCT-TTT-TCTTTTTCTTTTTC
* *
919702 C-TTTTTCCTTTTCTTTTTTTTTTTCCTTTTTTC
1 CATTTTT-ATTTTCTTTTTCTTTTT-C-TTTTTC
*
919735 C-TTTTT-TTCTT-TTTTTCTTTTTTTCTCTTTTT
1 CATTTTTATT-TTCTTTTTC--TTTTTCT-TTTTC
919767 CATTTTTTCATTTT-TTCATTT-TTTTTCTTTTT-
1 CA-TTTTT-ATTTTCTT--TTTCTTTTTCTTTTTC
*
919799 CATTTTTTCATTTTTTCATTTTT-TTCTTTTTTTTTC
1 CA-TTTTT-A--TTTTC-TTTTTCTT-TTTCTTTTTC
*
919835 C-TTTTTTTTTTCTT
1 CATTTTTATTTTCTT
919849 ATTCAAGAAA
Statistics
Matches: 150, Mismatches: 9, Indels: 46
0.73 0.04 0.22
Matches are distributed among these distances:
30 2 0.01
31 19 0.13
32 30 0.20
33 35 0.23
34 41 0.27
35 15 0.10
36 5 0.03
37 3 0.02
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (31 bp):
CATTTTTATTTTCTTTTTCTTTTTCTTTTTC
Found at i:919675 original size:33 final size:30
Alignment explanation
Indices: 919638--919848 Score: 131
Period size: 33 Copynumber: 6.4 Consensus size: 30
919628 TGAGACCTCA
*
919638 TTTTTATTTTCTTTTTCTATTTTCTTTTTCC
1 TTTTTTTTTTCTTTTTCT-TTTTCTTTTTCC
*
919669 ATTTTTTTCTTTCTCTTTCTCTTTTTCCTTTTCC
1 -TTTTTTT-TTTCT-TTT-TCTTTTTCTTTTTCC
* *
919703 TTTTTCCTTTTCTTTTTTTTTTTCCTTTTTTCC
1 TTTTT-TTTTTCTTTTTCTTTTT-C-TTTTTCC
* * *
919736 TTTTTTTCTTTTTTTCTTTTTTTCTCTTTTTCA
1 TTTTTTT-TTTCTTT-TTCTTTT-TCTTTTTCC
*
919769 TTTTTTCATTTT-TTCATTT-TTTTTCTTTTTCATT
1 TTTTTT--TTTTCTT--TTTCTTTTTCTTTTTC--C
*
919803 TTTTCATTTTTTCATTTTT-TTCTTTTTTTTTCC
1 TTTT--TTTTTTC-TTTTTCTT-TTTCTTTTTCC
919836 TTTTTTTTTTCTT
1 TTTTTTTTTTCTT
919849 ATTCAAGAAA
Statistics
Matches: 148, Mismatches: 11, Indels: 42
0.74 0.05 0.21
Matches are distributed among these distances:
30 2 0.01
31 13 0.09
32 19 0.13
33 54 0.36
34 41 0.28
35 15 0.10
36 4 0.03
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (30 bp):
TTTTTTTTTTCTTTTTCTTTTTCTTTTTCC
Found at i:919693 original size:41 final size:37
Alignment explanation
Indices: 919638--919848 Score: 147
Period size: 41 Copynumber: 5.6 Consensus size: 37
919628 TGAGACCTCA
*
919638 TTTTTATTTTCTTTTTCTATTTTCTTTTTCCATTTTTTTC
1 TTTTT-TTCTCTTTTTCT-TTTTCTTTTTCC-TTTTTTTC
* *
919678 TTTCTCTTTCTCTTTTTCCTTTTCCTTTTTCCTTTTCTTTT
1 TTT-T-TTTCTCTTTTT-CTTTTTCTTTTTCCTTTT-TTTC
**
919719 TTTTTTTC-CTTTTT-TCCTT-TTTTT-CTTTTTTTC
1 TTTTTTTCTCTTTTTCTTTTTCTTTTTCCTTTTTTTC
* *
919752 TTTTTTTCTCTTTTTC---AT-TTTTT-CATTTTTTC
1 TTTTTTTCTCTTTTTCTTTTTCTTTTTCCTTTTTTTC
*
919784 ATTTTTTT-TCTTTTTCATTTTTTCATTTTTTCATTTTTTTC
1 -TTTTTTTCTCTTTTTC--TTTTTC--TTTTTCCTTTTTTTC
*
919825 TTTTTTTTTCCTTTTT-TTTTTCTT
1 TTTTTTTCT-CTTTTTCTTTTTCTT
919849 ATTCAAGAAA
Statistics
Matches: 141, Mismatches: 12, Indels: 39
0.73 0.06 0.20
Matches are distributed among these distances:
32 22 0.16
33 18 0.13
34 11 0.08
35 5 0.04
36 2 0.01
37 3 0.02
38 6 0.04
39 10 0.07
40 20 0.14
41 35 0.25
42 9 0.06
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (37 bp):
TTTTTTTCTCTTTTTCTTTTTCTTTTTCCTTTTTTTC
Found at i:919831 original size:8 final size:8
Alignment explanation
Indices: 919657--919848 Score: 144
Period size: 8 Copynumber: 23.9 Consensus size: 8
919647 TCTTTTTCTA
919657 TTTTC-TT
1 TTTTCTTT
*
919664 TTTCCATTT
1 TTTTC-TTT
919673 TTTTCTTT
1 TTTTCTTT
*
919681 CTCTTTCTCT
1 -T-TTTCTTT
*
919691 TTTTC--C
1 TTTTCTTT
*
919697 TTTTCCTT
1 TTTTCTTT
*
919705 TTTCCTTT
1 TTTTCTTT
*
919713 TCTTTTTTT
1 T-TTTCTTT
919722 TTTTCCTTT
1 TTTT-CTTT
*
919731 TTTCCTTT
1 TTTTCTTT
919739 TTTTCTTT
1 TTTTCTTT
919747 TTTTCTTT
1 TTTTCTTT
*
919755 TTTTCTCT
1 TTTTCTTT
*
919763 TTTTCATT
1 TTTTCTTT
*
919771 TTTTCATT
1 TTTTCTTT
919779 TTTTCATTT
1 TTTTC-TTT
*
919788 TTTT-TCT
1 TTTTCTTT
*
919795 TTTTCATT
1 TTTTCTTT
*
919803 TTTTCATT
1 TTTTCTTT
919811 TTTTCATTT
1 TTTTC-TTT
919820 TTTTCTTT
1 TTTTCTTT
*
919828 TTTT-TTC
1 TTTTCTTT
*
919835 CTTT-TTT
1 TTTTCTTT
919842 TTTTCTT
1 TTTTCTT
919849 ATTCAAGAAA
Statistics
Matches: 149, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
6 5 0.03
7 20 0.13
8 85 0.57
9 33 0.22
10 6 0.04
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTCTTT
Found at i:933534 original size:40 final size:40
Alignment explanation
Indices: 933502--933600 Score: 175
Period size: 40 Copynumber: 2.5 Consensus size: 40
933492 GTTTACACGT
*
933502 TAATA-TATATATATATATGTT-CCCTTTTTTGTTTTACC
1 TAATATTATATATATATATATTACCCTTTTTTGTTTTACC
933540 TAATATTATATATATATATATTACCCTTTTTTGTTTTACC
1 TAATATTATATATATATATATTACCCTTTTTTGTTTTACC
933580 TAATATTATATATATATATAT
1 TAATATTATATATATATATAT
933601 ATATATATAT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
38 5 0.09
39 15 0.26
40 38 0.66
ACGTcount: A:0.32, C:0.10, G:0.03, T:0.55
Consensus pattern (40 bp):
TAATATTATATATATATATATTACCCTTTTTTGTTTTACC
Found at i:933593 original size:2 final size:2
Alignment explanation
Indices: 933582--933612 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
933572 GTTTTACCTA
933582 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
933613 TGTCAACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:933724 original size:3 final size:3
Alignment explanation
Indices: 933718--933769 Score: 52
Period size: 3 Copynumber: 16.3 Consensus size: 3
933708 TTTTTTCCCT
*
933718 TTA TTA TAA TTA -TA GTTA TTA TATA TATA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA T-TA T-TA -TTA TTA TTA TTA TTA TTA
933766 TTA T
1 TTA T
933770 ATATATCCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 2 0.05
3 30 0.70
4 10 0.23
5 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:933752 original size:30 final size:30
Alignment explanation
Indices: 933717--933775 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
933707 TTTTTTTCCC
933717 TTTATTATAATTA-TAGTTATTATATATATA
1 TTTATTATAATTATTA-TTATTATATATATA
*
933747 TTTATTATTATTATTATTATTATATATAT
1 TTTATTATAATTATTATTATTATATATAT
933776 CCTATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTATTATAATTATTATTATTATATATATA
Found at i:934545 original size:3 final size:3
Alignment explanation
Indices: 934532--934574 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
934522 ATGTTATTTC
*
934532 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
934575 TTTTCAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:935623 original size:23 final size:23
Alignment explanation
Indices: 935596--935812 Score: 207
Period size: 23 Copynumber: 9.7 Consensus size: 23
935586 TTCTGACCCA
*
935596 TTCTTCTTCTTCTATAAACACAT
1 TTCTTCTTCTTCCATAAACACAT
*
935619 TTCTTCTTCTTCCATAAACA-TT
1 TTCTTCTTCTTCCATAAACACAT
* *
935641 TTCTTCTTATTCCATAAACTCA-
1 TTCTTCTTCTTCCATAAACACAT
*
935663 TT-GT-TTCTTCCATAAATC-CAT
1 TTCTTCTTCTTCCATAAA-CACAT
** *
935684 TT-TT-TTCTTATAGATAAACTCAT
1 TTCTTCTTC-T-TCCATAAACACAT
* * *
935707 TTTTTCTTCTTCCATAAACCCCT
1 TTCTTCTTCTTCCATAAACACAT
935730 TTCTTCTTCTTCCA-AAACACAT
1 TTCTTCTTCTTCCATAAACACAT
* *
935752 TTCTTTTTCTTCCATAAACTCAT
1 TTCTTCTTCTTCCATAAACACAT
* *
935775 TTCTTATTCTTCCATAAACCCAT
1 TTCTTCTTCTTCCATAAACACAT
*
935798 TTCTTATTCTTCCAT
1 TTCTTCTTCTTCCAT
935813 TAGTATGAGA
Statistics
Matches: 164, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
20 13 0.08
21 8 0.05
22 42 0.26
23 95 0.58
24 3 0.02
25 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.01, T:0.48
Consensus pattern (23 bp):
TTCTTCTTCTTCCATAAACACAT
Found at i:935671 original size:45 final size:46
Alignment explanation
Indices: 935596--935812 Score: 223
Period size: 45 Copynumber: 4.8 Consensus size: 46
935586 TTCTGACCCA
*
935596 TTCTTCTTCTTCTATAAACACATTTCTTCTTCTTCCATAAA-CATT
1 TTCTTCTTCTTCCATAAACACATTTCTTCTTCTTCCATAAACCATT
* * *
935641 TTCTTCTTATTCCATAAACTCA-TT-GT-TTCTTCCATAAATCCATT
1 TTCTTCTTCTTCCATAAACACATTTCTTCTTCTTCCATAAA-CCATT
* * ** * * **
935685 TTTTTCTT-ATAGATAAACTCATTTTTTCTTCTTCCATAAACCCCT
1 TTCTTCTTCTTCCATAAACACATTTCTTCTTCTTCCATAAACCATT
*
935730 TTCTTCTTCTTCCA-AAACACATTTCTTTTTCTTCCATAAACTCA-T
1 TTCTTCTTCTTCCATAAACACATTTCTTCTTCTTCCATAAAC-CATT
* * *
935775 TTCTTATTCTTCCATAAACCCATTTCTTATTCTTCCAT
1 TTCTTCTTCTTCCATAAACACATTTCTTCTTCTTCCAT
935813 TAGTATGAGA
Statistics
Matches: 142, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
42 12 0.08
43 11 0.08
44 15 0.11
45 68 0.48
46 36 0.25
ACGTcount: A:0.24, C:0.27, G:0.01, T:0.48
Consensus pattern (46 bp):
TTCTTCTTCTTCCATAAACACATTTCTTCTTCTTCCATAAACCATT
Found at i:935713 original size:43 final size:42
Alignment explanation
Indices: 935625--935715 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 42
935615 ACATTTCTTC
*
935625 TTCTTCCATAAACATTTTCTTCTTATTCCATAAACTCATTGT
1 TTCTTCCATAAACATTTTCTTCTTATTACATAAACTCATTGT
* * *
935667 TTCTTCCATAAATCCATTTTTTTCTTA-TAGATAAACTCATTTT
1 TTCTTCCATAAA--CATTTTCTTCTTATTACATAAACTCATTGT
935710 TTCTTC
1 TTCTTC
935716 TTCCATAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 12 0.28
43 19 0.44
44 12 0.28
ACGTcount: A:0.25, C:0.22, G:0.02, T:0.51
Consensus pattern (42 bp):
TTCTTCCATAAACATTTTCTTCTTATTACATAAACTCATTGT
Found at i:941449 original size:23 final size:23
Alignment explanation
Indices: 941419--941481 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
941409 CATTTTATAT
941419 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* *
941442 GGCACTTCGATGCATTTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
941465 GGCACTTCGGTGCATTT
1 GGCACTTCGGTGCATTT
941482 TATACGAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.14, C:0.27, G:0.25, T:0.33
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:942613 original size:23 final size:23
Alignment explanation
Indices: 942587--942654 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
942577 CAAATAGTAT
942587 TGTCCTGAATGACCGCGTAGAAA
1 TGTCCTGAATGACCGCGTAGAAA
*** *
942610 TGTCCTGAAAT-ACCATATAGAAT
1 TGTCCTG-AATGACCGCGTAGAAA
* *
942633 TGTCCCGAAGGACCGCGTAGAA
1 TGTCCTGAATGACCGCGTAGAA
942655 CCCTCGACTC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
22 2 0.06
23 29 0.85
24 3 0.09
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (23 bp):
TGTCCTGAATGACCGCGTAGAAA
Found at i:942635 original size:46 final size:46
Alignment explanation
Indices: 942558--942654 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
942548 AAGTGCCACA
* * * *
942558 TAGAAATGTCACGAAGGACCAAATAGTATTGTCCTGAATGACCGCG
1 TAGAAATGTCACGAAAGACCAAATAGAATTGTCCCGAAGGACCGCG
* *
942604 TAGAAATGTC-CTGAAATACCATATAGAATTGTCCCGAAGGACCGCG
1 TAGAAATGTCAC-GAAAGACCAAATAGAATTGTCCCGAAGGACCGCG
942650 TAGAA
1 TAGAA
942655 CCCTCGACTC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 43 0.98
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (46 bp):
TAGAAATGTCACGAAAGACCAAATAGAATTGTCCCGAAGGACCGCG
Found at i:942791 original size:44 final size:44
Alignment explanation
Indices: 942738--942833 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
942728 TTTATTGTAT
* * *
942738 CTTATATCACATAG-ACAAGTAATCACGTAGGTCATGTCACATGG
1 CTTATATCACAT-GTACAAGTAATCACGTAGATCATATCACATAG
* * *
942782 CTTATATCACATGTTCATGTAATCACGTAGATCATATCAGATAG
1 CTTATATCACATGTACAAGTAATCACGTAGATCATATCACATAG
942826 CTTATATC
1 CTTATATC
942834 TTTTTCTCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.02
44 44 0.98
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (44 bp):
CTTATATCACATGTACAAGTAATCACGTAGATCATATCACATAG
Found at i:948033 original size:23 final size:23
Alignment explanation
Indices: 948007--948055 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
947997 GAAAGATAGT
948007 GTATAAATGTCCCGAAGGACCAC
1 GTATAAATGTCCCGAAGGACCAC
* * *
948030 GTATAATTGTTCCGAAGGAGCAC
1 GTATAAATGTCCCGAAGGACCAC
948053 GTA
1 GTA
948056 GAACCCTCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (23 bp):
GTATAAATGTCCCGAAGGACCAC
Found at i:948191 original size:44 final size:44
Alignment explanation
Indices: 948142--948237 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
948132 TTTATTGTAT
* * * *
948142 CTTATATCAAATAGACAAGTAATAATGTAGGTCATGTCACATGG
1 CTTATATCAAATAGACAAGTAATAACGTAGATCATATCACATAG
* ** * *
948186 CTTATATCACATATTCATGTAATCACGTAGATCATATCACATAG
1 CTTATATCAAATAGACAAGTAATAACGTAGATCATATCACATAG
948230 CTTATATC
1 CTTATATC
948238 TTGTTCTCAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (44 bp):
CTTATATCAAATAGACAAGTAATAACGTAGATCATATCACATAG
Found at i:951383 original size:20 final size:19
Alignment explanation
Indices: 951337--951384 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
951327 ATGACCAACA
* *
951337 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCC
951356 AAATCGCAACGCGATCTCC
1 AAATCGCAACGCGATCTCC
951375 AATATCGCAA
1 AA-ATCGCAA
951385 ATCAGTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCC
Found at i:951422 original size:20 final size:20
Alignment explanation
Indices: 951423--951532 Score: 175
Period size: 20 Copynumber: 5.5 Consensus size: 20
951413 TGACTATCGC
951423 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
951443 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
951463 ATCGCAACTCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
951483 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
951503 ATCACAACGTGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
951523 GTCACAACGC
1 ATCGCAACGC
951533 TAAATTTGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 84 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:951429 original size:45 final size:45
Alignment explanation
Indices: 951399--951505 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 45
951389 GTTTCCAGAT
* * *
951399 TCGCAACGCGATTTTGACTATCGCATCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTATCGCATCGCAAAGCGATTCAGACTA
** *
951444 TCGCAACGCGATTCTGAC--T---ATCGCAACTCGATTCTGACTA
1 TCGCAACGCGATTCTGACTATCGCATCGCAAAGCGATTCAGACTA
951484 TCGCAACGCGATTCTGACTATC
1 TCGCAACGCGATTCTGACTATC
951506 ACAACGTGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
40 38 0.67
42 1 0.02
43 1 0.02
45 17 0.30
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
TCGCAACGCGATTCTGACTATCGCATCGCAAAGCGATTCAGACTA
Found at i:951433 original size:25 final size:25
Alignment explanation
Indices: 951399--951468 Score: 96
Period size: 20 Copynumber: 3.0 Consensus size: 25
951389 GTTTCCAGAT
*
951399 TCGCAACGCGATTTTGACTATCGCA
1 TCGCAACGCGATTCTGACTATCGCA
951424 TCGCAACGCGATTCTGAC--T---A
1 TCGCAACGCGATTCTGACTATCGCA
951444 TCGCAACGCGATTCTGACTATCGCA
1 TCGCAACGCGATTCTGACTATCGCA
951469 ACTCGATTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
20 19 0.49
22 1 0.03
23 1 0.03
25 18 0.46
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (25 bp):
TCGCAACGCGATTCTGACTATCGCA
Found at i:952275 original size:24 final size:24
Alignment explanation
Indices: 952248--952301 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
952238 GTATTCGAAA
952248 TTTGATCTTGGTCAATACTCAGAC
1 TTTGATCTTGGTCAATACTCAGAC
* *
952272 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCAGAC
952296 TTTGAT
1 TTTGAT
952302 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCAGAC
Found at i:952520 original size:14 final size:14
Alignment explanation
Indices: 952491--952527 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
952481 AGAAAAAGAA
952491 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
952506 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
952520 GAAGAAAA
1 GAAGAAAA
952528 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:954587 original size:18 final size:18
Alignment explanation
Indices: 954564--954598 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
954554 AGAAAAAGGC
*
954564 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
954582 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
954599 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:954908 original size:140 final size:140
Alignment explanation
Indices: 954656--954938 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 140
954646 GCAAACGTTG
*
954656 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAAATTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
*
954721 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
954786 CGAATTTGAC
131 CGAATTTGAC
*
954796 TATTATGTGTATTTTATGTGTAAAATTTTAACATTTTTAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAAATTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
954861 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
954926 CGAATTTGAC
131 CGAATTTGAC
954936 TAT
1 TAT
954939 CGCAACGCGA
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAAATTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:954934 original size:20 final size:20
Alignment explanation
Indices: 954909--955079 Score: 201
Period size: 20 Copynumber: 8.8 Consensus size: 20
954899 TTACACATTC
*
954909 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
954929 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
954949 ATTTCACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
*
954969 ATATGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* * *
954988 A----A-AATCACAACACGA
1 ATTTGACTATCGCAACGCGA
955003 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
955023 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* * *
955043 ATTTGATTATCGTAACGGGA
1 ATTTGACTATCGCAACGCGA
955063 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
955080 AGAAAATCGC
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
14 8 0.06
15 3 0.02
19 3 0.02
20 113 0.89
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:955054 original size:74 final size:74
Alignment explanation
Indices: 954921--955059 Score: 233
Period size: 74 Copynumber: 1.9 Consensus size: 74
954911 TTGAATATCG
*
954921 CAACGCGAATTTGACTATCGCAACGCGAATTTCACTATCGCAACGTGAATATGACTATCGCAACG
1 CAACACGAATTTGACTATCGCAACGCGAATTTCACTATCGCAACGTGAATATGACTATCGCAACG
954986 CAAAAATCA
66 CAAAAATCA
* * * *
954995 CAACACGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTGAATTTGATTATCGTAACG
1 CAACACGAATTTGACTATCGCAACGCGAATTTCACTATCGCAACGTGAATATGACTATCGCAACG
955060 GGAATTTGAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (74 bp):
CAACACGAATTTGACTATCGCAACGCGAATTTCACTATCGCAACGTGAATATGACTATCGCAACG
CAAAAATCA
Found at i:955070 original size:94 final size:94
Alignment explanation
Indices: 954909--955087 Score: 279
Period size: 94 Copynumber: 1.9 Consensus size: 94
954899 TTACACATTC
*
954909 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGAATTTCACTATCGCAACGTGAATATG
1 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGAATTTCACTATCGCAACGGGAATATG
954974 ACTATCGCAACGCA-AAAATCACAACACGA
66 ACTATCGCAACG-AGAAAATCACAACACGA
* * * * * *
955003 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTGAATTTGATTATCGTAACGGGAATTTG
1 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGAATTTCACTATCGCAACGGGAATATG
955068 ACTATCGCAACGAGAAAATC
66 ACTATCGCAACGAGAAAATC
955088 GCAAAGCGTA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
93 1 0.01
94 76 0.99
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (94 bp):
ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGAATTTCACTATCGCAACGGGAATATG
ACTATCGCAACGAGAAAATCACAACACGA
Found at i:955105 original size:94 final size:94
Alignment explanation
Indices: 954916--955128 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 94
954906 TTCATTTGAA
*
954916 TATCGCAACGCGAATTTGACTATCGCAACGCGAATTTCACTATCGCAACGTGAATATGACTATCG
1 TATCGCAACGCGAATTTGACTATCGCAACGCGAATTTCACTATCGCAACGGGAATATGACTATCG
*
954981 CAACGCAAAAATCACAACACGAATTTGAC
66 CAACGCAAAAATCACAACACGAATTAGAC
* * * * *
955010 TATCGCAACGCGAATTTGACTATCGCAACGTGAATTTGATTATCGTAACGGGAATTTGACTATCG
1 TATCGCAACGCGAATTTGACTATCGCAACGCGAATTTCACTATCGCAACGGGAATATGACTATCG
* *
955075 CAACG-AGAAAATCGCAA-AGCGTATTAGAC
66 CAACGCA-AAAATCACAACA-CGAATTAGAC
* * * *
955104 TAACGTAACACGAA-TTGACTTTCGC
1 TATCGCAACGCGAATTTGACTATCGC
955129 GTTGCGATTT
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
93 12 0.12
94 92 0.88
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (94 bp):
TATCGCAACGCGAATTTGACTATCGCAACGCGAATTTCACTATCGCAACGGGAATATGACTATCG
CAACGCAAAAATCACAACACGAATTAGAC
Found at i:955181 original size:20 final size:20
Alignment explanation
Indices: 955118--955195 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
955108 GTAACACGAA
*
955118 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTGCGATT
*
955138 TTGGCTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
955158 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
* * *
955178 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
955196 AAGTGTACCT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.44
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:955334 original size:14 final size:14
Alignment explanation
Indices: 955315--955351 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
955305 CATCAATTAA
955315 ACAAATCAACTTTT
1 ACAAATCAACTTTT
955329 ACAAATCAACTTTT
1 ACAAATCAACTTTT
955343 ACAAATCAA
1 ACAAATCAA
955352 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:956778 original size:21 final size:20
Alignment explanation
Indices: 956749--956829 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 20
956739 AATGGCGGGG
*
956749 AGGGACCTCTTCAACGATGAC
1 AGGGGCCTCTT-AACGATGAC
**
956770 AGGGGCCTCTTAAACGATGGG
1 AGGGGCCTCTT-AACGATGAC
* * *
956791 AGGGGACTCTTAAGGGATGAT
1 AGGGGCCTCTTAA-CGATGAC
956812 AGGGGCCTCTTGAACGAT
1 AGGGGCCTCTT-AACGAT
956830 AGGAGAAGAC
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (20 bp):
AGGGGCCTCTTAACGATGAC
Found at i:956793 original size:42 final size:40
Alignment explanation
Indices: 956746--956856 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 40
956736 TTGAATGGCG
956746 GGGAGGGACCTCTTCAACGATGACAGGGGCCTCTTAAACGAT
1 GGGAGGGA-CTCTT-AACGATGACAGGGGCCTCTTAAACGAT
* * *
956788 GGGAGGGGACTCTTAAGGGATGATAGGGGCCTCTTGAACGAT
1 GGGA-GGGACTCTTAA-CGATGACAGGGGCCTCTTAAACGAT
* * *
956830 AGGAGAAGACTCTTGAATGATGACAGG
1 GGGAG-GGACTCTT-AACGATGACAGG
956857 TGAGTCGGGC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
41 3 0.05
42 49 0.84
43 6 0.10
ACGTcount: A:0.28, C:0.17, G:0.35, T:0.20
Consensus pattern (40 bp):
GGGAGGGACTCTTAACGATGACAGGGGCCTCTTAAACGAT
Found at i:957355 original size:20 final size:20
Alignment explanation
Indices: 957332--957375 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
957322 AATAGTTTCT
957332 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
957352 GAAACTTAAAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
957372 GAAA
1 GAAA
957376 ATGACTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:957426 original size:19 final size:19
Alignment explanation
Indices: 957404--957452 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
957394 TAATCGTAAT
957404 GCGAAATAAAAATCGCAAC
1 GCGAAATAAAAATCGCAAC
**
957423 GCGAAACCAAAATCGCAAC
1 GCGAAATAAAAATCGCAAC
*
957442 GTGAAACTAAA
1 GCGAAA-TAAA
957453 TTCGCGTTGC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.51, C:0.22, G:0.16, T:0.10
Consensus pattern (19 bp):
GCGAAATAAAAATCGCAAC
Found at i:957457 original size:19 final size:19
Alignment explanation
Indices: 957412--957448 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
957402 ATGCGAAATA
957412 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
*
957431 AAAATCGCAACGTGAAAC
1 AAAATCGCAACGCGAAAC
957449 TAAATTCGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.08
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:957482 original size:20 final size:20
Alignment explanation
Indices: 957453--957490 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
957443 TGAAACTAAA
* *
957453 TTCGCGTTGCGGTTTTCATT
1 TTCGCATTGCGATTTTCATT
957473 TTCGCATTGCGATTTTCA
1 TTCGCATTGCGATTTTCA
957491 CGTTGCGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (20 bp):
TTCGCATTGCGATTTTCATT
Found at i:957511 original size:33 final size:34
Alignment explanation
Indices: 957457--957532 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 34
957447 ACTAAATTCG
* *
957457 CGTTGCGGTTTTCATTTTCGCATTGCGATTTTCA
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
* *
957491 CGTTGCGATTTTTA-TTTCGCATTGCGATTATCC
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
957524 CGTTGCGAT
1 CGTTGCGAT
957533 AGTCAAATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 26 0.68
34 12 0.32
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
Found at i:957585 original size:41 final size:40
Alignment explanation
Indices: 957524--957613 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 40
957514 GCGATTATCC
957524 CGTTGCGATAGTCAAATTCGCGTTACGATAGTCATTTTTCG
1 CGTTGCGATAGTCAAATTCGCGTTACGATAGTCA-TTTTCG
** *
957565 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCGCGTTACGATAGTCATTTTCG
957605 CGTTGCGAT
1 CGTTGCGAT
957614 TTTAAGTTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 15 0.33
41 31 0.67
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (40 bp):
CGTTGCGATAGTCAAATTCGCGTTACGATAGTCATTTTCG
Found at i:957624 original size:20 final size:20
Alignment explanation
Indices: 957524--957613 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
957514 GCGATTATCC
**
957524 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
957544 CGTTACGATAGTCATTTTTCG
1 CGTTGCGATAGTCA-TTTTCG
957565 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
957585 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
957605 CGTTGCGAT
1 CGTTGCGAT
957614 TTTAAGTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
20 48 0.74
21 17 0.26
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:957624 original size:40 final size:41
Alignment explanation
Indices: 957524--957632 Score: 132
Period size: 40 Copynumber: 2.7 Consensus size: 41
957514 GCGATTATCC
* *
957524 CGTTGCGATAGTCAA-ATTCGCGTTACGATAGTCATTTTTCG
1 CGTTGCGATAGT-AAGTTTCGCGTTGCGATAGTCATTTTTCG
* *
957565 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCA-TTTTCG
1 CGTTGCGATAGTAAGTTTCGCGTTGCGATAGTCATTTTTCG
** *
957605 CGTTGCGATTTTAAGTTTCGTGTTGCGA
1 CGTTGCGATAGTAAGTTTCGCGTTGCGA
957633 CTATTCTTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
40 30 0.51
41 29 0.49
ACGTcount: A:0.17, C:0.18, G:0.25, T:0.39
Consensus pattern (41 bp):
CGTTGCGATAGTAAGTTTCGCGTTGCGATAGTCATTTTTCG
Found at i:959591 original size:19 final size:19
Alignment explanation
Indices: 959567--959610 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
959557 GCAACGAGAT
*
959567 AATCGCAACTCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
959586 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
959605 AATCGC
1 AATCGC
959611 GTTGCGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.45, C:0.25, G:0.16, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:960000 original size:20 final size:21
Alignment explanation
Indices: 959975--960031 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
959965 TCTGAGAGAT
959975 GGAGATA-GACGGATTTCGCC
1 GGAGATAGGACGGATTTCGCC
* *
959995 GGAGATAGGGATGGATTTCGTC
1 GGAGATA-GGACGGATTTCGCC
*
960017 GGAGATGGGGACGGA
1 GGAGAT-AGGACGGA
960032 AGTCGCTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.23
22 23 0.77
ACGTcount: A:0.25, C:0.12, G:0.44, T:0.19
Consensus pattern (21 bp):
GGAGATAGGACGGATTTCGCC
Found at i:960013 original size:22 final size:22
Alignment explanation
Indices: 959985--960027 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
959975 GGAGATAGAC
959985 GGATTTCGCCGGAGATAGGGAT
1 GGATTTCGCCGGAGATAGGGAT
* *
960007 GGATTTCGTCGGAGATGGGGA
1 GGATTTCGCCGGAGATAGGGA
960028 CGGAAGTCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.44, T:0.23
Consensus pattern (22 bp):
GGATTTCGCCGGAGATAGGGAT
Found at i:960410 original size:19 final size:19
Alignment explanation
Indices: 960368--960415 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
960358 GGAAACTGAT
* * *
960368 TTGCGATATTGGATATCGCG
1 TTGCGAT-TTAGAGATCGCA
960388 TTGCGATTTAGAGATCGCA
1 TTGCGATTTAGAGATCGCA
960407 TTGCGATTT
1 TTGCGATTT
960416 TGTTGGTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.38
Consensus pattern (19 bp):
TTGCGATTTAGAGATCGCA
Found at i:961100 original size:79 final size:79
Alignment explanation
Indices: 961016--961172 Score: 206
Period size: 79 Copynumber: 2.0 Consensus size: 79
961006 AAAAAATAAC
* * * * *
961016 ATTTTAGGTAGTGCCCAATATTAATATTTACGGTAGAAAAAATAATGTTTTAGGTAACTTTTTAC
1 ATTTTAGGTAGCGCCCAATATTAACATTTACGGTAAAAAAAATAATATTTTAGGTAACGTTTTAC
961081 CGAAAATATTAAAT
66 CGAAAATATTAAAT
* * ** * *
961095 ATTTTAGGTAGCGCTCGATATTAACATTTTTGGTAAAAAAAATAATATTTTAGGTAGCGTTTTAT
1 ATTTTAGGTAGCGCCCAATATTAACATTTACGGTAAAAAAAATAATATTTTAGGTAACGTTTTAC
*
961160 CGAAAATGTTAAA
66 CGAAAATATTAAA
961173 AAAATATTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 66 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (79 bp):
ATTTTAGGTAGCGCCCAATATTAACATTTACGGTAAAAAAAATAATATTTTAGGTAACGTTTTAC
CGAAAATATTAAAT
Found at i:963369 original size:31 final size:31
Alignment explanation
Indices: 963331--963399 Score: 138
Period size: 31 Copynumber: 2.2 Consensus size: 31
963321 TAATCTGAAC
963331 CATCAAACCAGAACAACCCTTATATCATCAA
1 CATCAAACCAGAACAACCCTTATATCATCAA
963362 CATCAAACCAGAACAACCCTTATATCATCAA
1 CATCAAACCAGAACAACCCTTATATCATCAA
963393 CATCAAA
1 CATCAAA
963400 TCAGTAACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.19
Consensus pattern (31 bp):
CATCAAACCAGAACAACCCTTATATCATCAA
Found at i:967229 original size:21 final size:21
Alignment explanation
Indices: 967200--967252 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
967190 ATTCTGACTA
967200 TCGCATTGCGATTTTCC-ATAT
1 TCGCATTGCGATTTTCCTA-AT
*
967221 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
*
967242 TCGCAATGCGA
1 TCGCATTGCGA
967253 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCTAAT
Found at i:967267 original size:20 final size:20
Alignment explanation
Indices: 967242--967294 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
967232 TTTTCCTAAT
967242 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
967262 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
967282 TCGCAACGCGAAT
1 TCGCAATGCGAAT
967295 CTGACTATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:967304 original size:20 final size:20
Alignment explanation
Indices: 967281--967347 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
967271 GAATACGTAA
* *
967281 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
967301 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
967321 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
967341 ATCGCAA
1 ATCGCAA
967348 TACTGAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:968211 original size:24 final size:24
Alignment explanation
Indices: 968184--968230 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
968174 AGTCAGTATT
968184 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATCTTGGTCAATACC
*
968208 CGAACTTTGATCTTGGTCAATAC
1 CGAAATTTGATCTTGGTCAATAC
968231 TCAGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATCTTGGTCAATACC
Found at i:968242 original size:24 final size:24
Alignment explanation
Indices: 968189--968235 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
968179 GTATTCGAAA
*
968189 TTTGATCTTGGTCAATACCCGAAC
1 TTTGATCTTGGTCAATACCAGAAC
968213 TTTGATCTTGGTCAATACTCAGA
1 TTTGATCTTGGTCAATAC-CAGA
968236 TTTTGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCAGAAC
Found at i:971271 original size:18 final size:18
Alignment explanation
Indices: 971245--971279 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
971235 TCGAAAGGAC
*
971245 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
971263 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
971280 CGGATGGAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:976488 original size:18 final size:18
Alignment explanation
Indices: 976462--976496 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
976452 TCGAAAGGAC
*
976462 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
976480 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
976497 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:980547 original size:20 final size:21
Alignment explanation
Indices: 980522--980595 Score: 118
Period size: 20 Copynumber: 3.7 Consensus size: 21
980512 GACATTCATT
980522 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAATA
*
980542 TGACTATCGCAAAGCGGAAT-
1 TGACTATCGCAACGCGGAATA
980562 TGACTATCGCAACGCGGAA-A
1 TGACTATCGCAACGCGGAATA
980582 TGACTATCGCAACG
1 TGACTATCGCAACG
980596 AGAGAATCAC
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 46 0.92
21 4 0.08
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (21 bp):
TGACTATCGCAACGCGGAATA
Found at i:980637 original size:20 final size:20
Alignment explanation
Indices: 980612--980652 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
980602 TCACAATGCG
980612 AAATGAAAATCGCAACGCGA
1 AAATGAAAATCGCAACGCGA
980632 AAATGAAAATCGCAACGCGA
1 AAATGAAAATCGCAACGCGA
980652 A
1 A
980653 TTTAGTTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.10
Consensus pattern (20 bp):
AAATGAAAATCGCAACGCGA
Found at i:980720 original size:33 final size:34
Alignment explanation
Indices: 980663--980758 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
980653 TTTAGTTTCG
980663 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
*
980697 CGTTGCGCTTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
** * *
980730 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
980759 AGTCTGTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:980883 original size:14 final size:14
Alignment explanation
Indices: 980864--980900 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
980854 AATCAATTAA
980864 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
980878 ACAAATCATCTTTT
1 ACAAATCAACATTT
980892 ACAAATCAA
1 ACAAATCAA
980901 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:982381 original size:42 final size:42
Alignment explanation
Indices: 982302--982394 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
982292 CCTCTTCAAC
* * *
982302 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
982344 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
982386 GATGACAGG
1 GATGACAGG
982395 TGAGTCAGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:982896 original size:20 final size:20
Alignment explanation
Indices: 982873--982941 Score: 129
Period size: 20 Copynumber: 3.5 Consensus size: 20
982863 GAAACTTAAA
982873 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
982893 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
982913 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
982933 ATCGCAACG
1 ATCGCAACG
982942 TTTGTAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:983006 original size:20 final size:20
Alignment explanation
Indices: 982981--983134 Score: 111
Period size: 20 Copynumber: 8.3 Consensus size: 20
982971 TCTCTCGTTA
**
982981 CGATAGTCAAATTCGCATTG
1 CGATAGTCATTTTCGCATTG
983001 CGATAGTCATTTTCGCATTG
1 CGATAGTCATTTTCGCATTG
*
983021 CGATAGTCATTTTCGCGTTG
1 CGATAGTCATTTTCGCATTG
983041 CGAT--T--TTGTT-G--TTG
1 CGATAGTCATT-TTCGCATTG
**
983055 CGATTTTCA-TTTCGCATTG
1 CGATAGTCATTTTCGCATTG
* *
983074 C-A-ATTC--TCTCG--TTG
1 CGATAGTCATTTTCGCATTG
* *
983088 CGATAGCCATTTTCGCGTTG
1 CGATAGTCATTTTCGCATTG
*
983108 CGATAATCATTTTCGCATTG
1 CGATAGTCATTTTCGCATTG
983128 CGATAGT
1 CGATAGT
983135 AAACTATTCT
Statistics
Matches: 108, Mismatches: 12, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
14 11 0.10
15 1 0.01
16 12 0.11
17 7 0.06
18 6 0.06
19 4 0.04
20 67 0.62
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (20 bp):
CGATAGTCATTTTCGCATTG
Found at i:984107 original size:21 final size:21
Alignment explanation
Indices: 984065--984107 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
984055 TTTCTGGGCT
* *
984065 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
984086 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
984107 A
1 A
984108 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:984159 original size:20 final size:20
Alignment explanation
Indices: 984134--984171 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
984124 GAATGCTAGA
*
984134 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
984154 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
984172 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:984208 original size:16 final size:17
Alignment explanation
Indices: 984181--984212 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
984171 ATATAAAAAA
984181 AAGAAGAAAAGAAGAAG
1 AAGAAGAAAAGAAGAAG
984198 AAGAA-AAAAGAAGAA
1 AAGAAGAAAAGAAGAA
984213 AGACTAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAGAAGAAG
Found at i:984215 original size:14 final size:13
Alignment explanation
Indices: 984175--984212 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
984165 TCCCCCATAT
984175 AAAAAA-AAGAAG
1 AAAAAAGAAGAAG
984187 AAAAGAAGAAGAAG
1 AAAA-AAGAAGAAG
984201 AAAAAAGAAGAA
1 AAAAAAGAAGAA
984213 AGACTAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 4 0.17
13 10 0.42
14 10 0.42
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAGAAG
Found at i:990938 original size:21 final size:21
Alignment explanation
Indices: 990896--990938 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
990886 TTTCTGGGCT
* *
990896 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
990917 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
990938 A
1 A
990939 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:991029 original size:15 final size:15
Alignment explanation
Indices: 991007--991049 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
990997 CCCCATATAA
991007 AAAAAAAGAAGAAAG
1 AAAAAAAGAAGAAAG
*
991022 --AGAAA-AAGAAAG
1 AAAAAAAGAAGAAAG
991034 AAAAAAAGAAGAAAG
1 AAAAAAAGAAGAAAG
991049 A
1 A
991050 CTAAACTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 4 0.17
15 8 0.35
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAGAAAG
Found at i:991032 original size:12 final size:12
Alignment explanation
Indices: 991009--991047 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
990999 CCATATAAAA
991009 AAAAAGAAGAAAG
1 AAAAA-AAGAAAG
*
991022 AGAAAAAGAAAG
1 AAAAAAAGAAAG
991034 AAAAAAAG-AAG
1 AAAAAAAGAAAG
991045 AAA
1 AAA
991048 GACTAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 6 0.25
12 14 0.58
13 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:991033 original size:19 final size:18
Alignment explanation
Indices: 991005--991049 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
990995 TTCCCCATAT
* *
991005 AAAAAAAAAGAAGAAAGAG
1 AAAAAGAAAGAA-AAAAAG
991024 AAAAAGAAAGAAAAAAAG
1 AAAAAGAAAGAAAAAAAG
991042 AAGAAAGA
1 AA-AAAGA
991050 CTAAACTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAGAAAAAAAG
Found at i:993974 original size:19 final size:19
Alignment explanation
Indices: 993905--993973 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
993895 TCTGAAACTT
993905 AAAATCGCAACACGAAATG
1 AAAATCGCAACACGAAATG
993924 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACG-AAATG
** * *
993944 ACTATTGCAACGCGAAATG
1 AAAATCGCAACACGAAATG
*
993963 AAAATCACAAC
1 AAAATCGCAAC
993974 GACAGAATCG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 26 0.63
20 15 0.37
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACACGAAATG
Found at i:994347 original size:21 final size:22
Alignment explanation
Indices: 994311--994366 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
994301 AAGATTTCGC
994311 CGGAGATGGAGACTGATATCGT
1 CGGAGATGGAGACTGATATCGT
*
994333 CGGAGATGG-GACTGATTTCGT
1 CGGAGATGGAGACTGATATCGT
994354 CGGAGATGGAGAC
1 CGGAGATGGAGAC
994367 GGATGTCGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.25, C:0.14, G:0.39, T:0.21
Consensus pattern (22 bp):
CGGAGATGGAGACTGATATCGT
Found at i:994586 original size:20 final size:20
Alignment explanation
Indices: 994570--994653 Score: 132
Period size: 20 Copynumber: 4.2 Consensus size: 20
994560 CAGATTCACG
*
994570 TTGCGATTTACGTATTCGTA
1 TTGCGATTTACGTATTCGCA
994590 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
994610 TTACGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* *
994630 TTGCAATTTACGTATTCACA
1 TTGCGATTTACGTATTCGCA
994650 TTGC
1 TTGC
994654 TAATTAGGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:998808 original size:80 final size:80
Alignment explanation
Indices: 998724--998872 Score: 178
Period size: 80 Copynumber: 1.9 Consensus size: 80
998714 CTTAAACGCC
* * *
998724 GCAATAGTGATAATAAATAGT-GC-ATTTTTAGAC-AACGCCGCAATAGTGTTAATCACTAGTGG
1 GCAATAGT-ATAATAAACAGTGGCGATTTTTA-ACAAACGCCACAATAGTG-TAATCAATAGTGG
*
998786 CGTTTTTAGAAAATCGTT
63 CATTTTTAGAAAATCGTT
* * * *
998804 GCAATAGTTTAATCAACAGTGGCGTTTTTTAACAAACGCCATAATAGTGTAATCAATAGTGGCAT
1 GCAATAGTATAATAAACAGTGGCGATTTTTAACAAACGCCACAATAGTGTAATCAATAGTGGCAT
998869 TTTT
66 TTTT
998873 TTTATAAACG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
79 9 0.16
80 30 0.52
81 19 0.33
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (80 bp):
GCAATAGTATAATAAACAGTGGCGATTTTTAACAAACGCCACAATAGTGTAATCAATAGTGGCAT
TTTTAGAAAATCGTT
Found at i:998811 original size:41 final size:40
Alignment explanation
Indices: 998717--998872 Score: 142
Period size: 40 Copynumber: 3.9 Consensus size: 40
998707 CATTTATCTT
* * * *
998717 AAACGCCGCAATAGTGATAATAAATAGT-GCATTTTTAGA
1 AAACGCCGCAATAGTGTTAATCACTAGTGGCGTTTTTAGA
*
998756 CAACGCCGCAATAGTGTTAATCACTAGTGGCGTTTTTAGA
1 AAACGCCGCAATAGTGTTAATCACTAGTGGCGTTTTTAGA
**
998796 AAATCGTTGCAATAGT-TTAATCAAC-AGTGGCGTTTTTTA-A
1 AAA-CGCCGCAATAGTGTTAATC-ACTAGTGGCG-TTTTTAGA
** * *
998836 CAAACGCCATAATAGTG-TAATCAATAGTGGCATTTTT
1 -AAACGCCGCAATAGTGTTAATCACTAGTGGCGTTTTT
998873 TTTATAAACG
Statistics
Matches: 96, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
39 30 0.31
40 45 0.47
41 21 0.22
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (40 bp):
AAACGCCGCAATAGTGTTAATCACTAGTGGCGTTTTTAGA
Done.