Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001840.1 Hibiscus syriacus cultivar Beakdansim tig00003725_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: 2412736
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 12
Found at i:803156 original size:21 final size:21
Alignment explanation
Indices: 803114--803156 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
803104 TTTTTGGGCT
* * *
803114 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
803135 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
803156 A
1 A
803157 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:803959 original size:150 final size:150
Alignment explanation
Indices: 803688--804004 Score: 582
Period size: 150 Copynumber: 2.1 Consensus size: 150
803678 GGGTAGAGGG
* *
803688 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
803753 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
803818 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
*
803838 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
*
803903 TACTTGATCCCTAGTATATGTGTATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
803968 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
803988 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
804005 TGCATTTATA
Statistics
Matches: 162, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
149 1 0.01
150 161 0.99
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAAT
Found at i:804016 original size:23 final size:23
Alignment explanation
Indices: 803972--804016 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
803962 ATCATTATAT
*
803972 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
803995 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
804017 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:809565 original size:7 final size:7
Alignment explanation
Indices: 809553--809595 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
809543 CCTCTCATTT
809553 CTTCTTC
1 CTTCTTC
809560 CTTCTTC
1 CTTCTTC
809567 CTTCTTC
1 CTTCTTC
809574 CTTATCTTC
1 C-T-TCTTC
*
809583 TTCTCTTC
1 CT-TCTTC
809591 CTTCT
1 CTTCT
809596 CCAAACGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 18 0.58
8 8 0.26
9 5 0.16
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.58
Consensus pattern (7 bp):
CTTCTTC
Found at i:810929 original size:145 final size:148
Alignment explanation
Indices: 810620--810922 Score: 515
Period size: 149 Copynumber: 2.1 Consensus size: 148
810610 GGGTAGAGGG
* * * *
810620 TCTACGCGGTCTTTCGGGACATATGTATTTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATAATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
810685 ACTTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCTTATGGACATCATTA
66 AC-TTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCTTATGGACATCATTA
810750 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
*
810769 TCTACGCGGTCCTTCGGGATATATATAATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATAATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
810834 AC-TGATCCCTAGTAT-TGTATATGA-TCTTAAGG-ATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGT-CTTATGGACATCATTA
810895 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
810914 TCTACGCGG
1 TCTACGCGG
810923 CACTTCGATG
Statistics
Matches: 148, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
144 12 0.08
145 52 0.35
146 9 0.06
147 13 0.09
149 62 0.42
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGACATATATAATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCTTATGGACATCATTAT
ATGGCACTACGGTGCAAT
Found at i:810942 original size:23 final size:23
Alignment explanation
Indices: 810898--810942 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
810888 ATCATTATAT
* *
810898 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGATGCAATTATACGC
* *
810921 GGCACTTCGATGCATTTATACG
1 GGCACTACGATGCAATTATACG
810943 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
GGCACTACGATGCAATTATACGC
Found at i:815861 original size:63 final size:62
Alignment explanation
Indices: 815701--815906 Score: 222
Period size: 63 Copynumber: 3.3 Consensus size: 62
815691 TTTTTCAGAG
* * **
815701 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGAATTAAATTG-AACATCGAATGCAT
1 TGATGCATCGATGCACCAA-CCATGCATCGATGCA-C-TGGATTTTA-TGAAACATCGAATGCAT
815765 T
62 T
* *
815766 TCATGCATCGATGCA-CATA-CATGCACCGATGCACTGGATTTTATGAAAACATCGAATGCATT
1 TGATGCATCGATGCACCA-ACCATGCATCGATGCACTGGATTTTATG-AAACATCGAATGCATT
* * *
815828 TGATGCATCGATGCACCAACCATGCATCGATGCACACTGGCTATT-TGAAACATCGAATGCACT
1 TGATGCATCGATGCACCAACCATGCATCGATG--CACTGGATTTTATGAAACATCGAATGCATT
*
815891 TGATGCATCGGTGCAC
1 TGATGCATCGATGCAC
815907 TCTTAGTGCA
Statistics
Matches: 122, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
60 2 0.02
61 6 0.05
62 31 0.25
63 56 0.46
64 4 0.03
65 23 0.19
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (62 bp):
TGATGCATCGATGCACCAACCATGCATCGATGCACTGGATTTTATGAAACATCGAATGCATT
Found at i:815922 original size:63 final size:62
Alignment explanation
Indices: 815751--815925 Score: 187
Period size: 63 Copynumber: 2.8 Consensus size: 62
815741 AATTAAATTG
* *
815751 AACATCGAATGCATTTCATGCATCGATGCACATACATGCACCGATG--CACTGGATTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCAC-T-CATGCACCGATGCACACTGGATATTATGAA
* * *
815813 AACATCGAATGCATTTGATGCATCGATGCACCAACCATGCATCGATGCACACTGGCTATT-TG-A
1 AACATCGAATGCATTTGATGCATCGATGCA-C--TCATGCACCGATGCACACTGGATATTATGAA
* *
815876 AACATCGAATGCACTTGATGCATCGGTGCACTCTTAGTGCACCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCACTC--A-TGCACCGATGCAC
815926 TAAGGGTCCA
Statistics
Matches: 97, Mismatches: 9, Indels: 13
0.82 0.08 0.11
Matches are distributed among these distances:
60 1 0.01
62 31 0.32
63 53 0.55
64 3 0.03
65 9 0.09
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (62 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCATGCACCGATGCACACTGGATATTATGAA
Found at i:820818 original size:16 final size:16
Alignment explanation
Indices: 820797--820831 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
820787 AAATTTCAGT
*
820797 GAGCTTAACGAGCATC
1 GAGCTTAACGAGCAAC
820813 GAGCTTAACGAGCAAC
1 GAGCTTAACGAGCAAC
820829 GAG
1 GAG
820832 TCGATCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.29, T:0.14
Consensus pattern (16 bp):
GAGCTTAACGAGCAAC
Found at i:823757 original size:38 final size:38
Alignment explanation
Indices: 823702--823781 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
823692 TATTTTGTTT
*
823702 GGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAG-TC
1 GGGTCGGGTTTTTTAAGTATGATATTCGGGTCGAGTTC
*
823739 GGGTCGGGGTTTTTTAAGTATGATATTCGGGTCGGGTTC
1 GGGTC-GGGTTTTTTAAGTATGATATTCGGGTCGAGTTC
823778 GGGT
1 GGGT
823782 TTAGGGTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 5 0.13
38 28 0.72
39 6 0.15
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (38 bp):
GGGTCGGGTTTTTTAAGTATGATATTCGGGTCGAGTTC
Found at i:826015 original size:37 final size:37
Alignment explanation
Indices: 825973--826047 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
825963 TATTAAACCT
*
825973 TTTTAT-ATTTTCAATTTTGTAAAAAAAAATATATAAA
1 TTTTATGATTTTAAATTTT-TAAAAAAAAATATATAAA
* *
826010 TTTTATGATTTTAAATTTTTTAAAGAAAATATATAAA
1 TTTTATGATTTTAAATTTTTAAAAAAAAATATATAAA
826047 T
1 T
826048 ATTTTCCAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 23 0.68
38 11 0.32
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTTATGATTTTAAATTTTTAAAAAAAAATATATAAA
Found at i:832164 original size:3 final size:3
Alignment explanation
Indices: 832156--832181 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
832146 GAATTGGGTT
832156 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
832182 TTATCAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:840958 original size:22 final size:22
Alignment explanation
Indices: 840916--840960 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
840906 AGCTTAGTTA
* *
840916 ATCAGTTAACAGATAATTAATT
1 ATCAGTTAACAAATAACTAATT
840938 ATCAGTTAA-AAACTAACTAATT
1 ATCAGTTAACAAA-TAACTAATT
840960 A
1 A
840961 ATTAATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (22 bp):
ATCAGTTAACAAATAACTAATT
Found at i:841679 original size:31 final size:29
Alignment explanation
Indices: 841636--841694 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
841626 AAACTACATG
841636 TTTAATACCTAAACTATCAGTCTTGTTTCAT
1 TTTAATACCTAAACTATC-GT-TTGTTTCAT
* *
841667 TTTAGTACCTAAACTTTCGTTTGTTTCA
1 TTTAATACCTAAACTATCGTTTGTTTCA
841695 AAAGCATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 2 0.08
31 16 0.62
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.47
Consensus pattern (29 bp):
TTTAATACCTAAACTATCGTTTGTTTCAT
Found at i:841888 original size:17 final size:17
Alignment explanation
Indices: 841866--841909 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
841856 TTAATCACTT
841866 AAATTTCAAATTACTCC
1 AAATTTCAAATTACTCC
*
841883 AAATTT--AATTACTCT
1 AAATTTCAAATTACTCC
*
841898 AACTTTCAAATT
1 AAATTTCAAATT
841910 TAATTTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 13 0.57
17 10 0.43
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTTCAAATTACTCC
Found at i:845240 original size:25 final size:24
Alignment explanation
Indices: 845186--845235 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
845176 TCACTAGGGG
845186 CTATGAAATTTATCCCGAAGGACCA
1 CTATGAAA-TTATCCCGAAGGACCA
*
845211 CTATGAAA-TATCCCGAAGGATCA
1 CTATGAAATTATCCCGAAGGACCA
845234 CT
1 CT
845236 GTATGTCCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 16 0.67
25 8 0.33
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (24 bp):
CTATGAAATTATCCCGAAGGACCA
Found at i:845990 original size:24 final size:24
Alignment explanation
Indices: 845931--846011 Score: 107
Period size: 24 Copynumber: 3.5 Consensus size: 24
845921 TCCCCTTGAA
*
845931 GTGCATCGATACATTC--T-ACA-
1 GTGCATCGATGCATTCTTTAACAT
* *
845951 GTGTATCGATGTATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
845975 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
845999 GTGCATCGATGCA
1 GTGCATCGATGCA
846012 CTACCCATGC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
20 13 0.25
22 1 0.02
23 3 0.06
24 35 0.67
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (24 bp):
GTGCATCGATGCATTCTTTAACAT
Found at i:849245 original size:25 final size:24
Alignment explanation
Indices: 849191--849240 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
849181 TCACTAGGGG
849191 CTATGAAATTTATCCCGAAGGACCA
1 CTATGAAA-TTATCCCGAAGGACCA
*
849216 CTATGAAA-TATCCCGAAGGATCA
1 CTATGAAATTATCCCGAAGGACCA
849239 CT
1 CT
849241 GTATGTCCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 16 0.67
25 8 0.33
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (24 bp):
CTATGAAATTATCCCGAAGGACCA
Found at i:854374 original size:23 final size:23
Alignment explanation
Indices: 854348--854408 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
854338 TATGGCACTA
*
854348 CGGTGCATTTCTAGGTAGCACAT
1 CGGTGCATTTCTACGTAGCACAT
* * *
854371 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCATTTCTACGTAGCACAT
* *
854394 CGGTGTATTTATACG
1 CGGTGCATTTCTACG
854409 AGCTGTAGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (23 bp):
CGGTGCATTTCTACGTAGCACAT
Found at i:855098 original size:21 final size:21
Alignment explanation
Indices: 855072--855113 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
855062 TTGTAGCAGT
*
855072 ACTGTAGTAGGGTATCAGTAC
1 ACTGTAGCAGGGTATCAGTAC
855093 ACTGTAGCAGGGTATCAGTAC
1 ACTGTAGCAGGGTATCAGTAC
855114 CCCTCTAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (21 bp):
ACTGTAGCAGGGTATCAGTAC
Found at i:855206 original size:19 final size:19
Alignment explanation
Indices: 855179--855229 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
855169 TACTGTTCAC
855179 AGTACTGTTCATACCATAT
1 AGTACTGTTCATACCATAT
*
855198 AGTATTGTTCATACCATAT
1 AGTACTGTTCATACCATAT
855217 AGTACTGTTCATA
1 AGTACTGTTCATA
855230 AATACGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (19 bp):
AGTACTGTTCATACCATAT
Found at i:857312 original size:14 final size:14
Alignment explanation
Indices: 857293--857330 Score: 67
Period size: 14 Copynumber: 2.6 Consensus size: 14
857283 TGAAAATAAG
857293 TAAATAAAATAAAC
1 TAAATAAAATAAAC
857307 TAAATAAAATAAAC
1 TAAATAAAATAAAC
857321 TAAATGAAAA
1 TAAAT-AAAA
857331 GAGTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAATAAAATAAAC
Found at i:870438 original size:17 final size:17
Alignment explanation
Indices: 870416--870453 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
870406 TCGGAAGTCA
870416 GTTACAATCAAGGAAGG
1 GTTACAATCAAGGAAGG
*
870433 GTTACAGTCAAGGAAGG
1 GTTACAATCAAGGAAGG
870450 GTTA
1 GTTA
870454 GCACCCTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.32, T:0.21
Consensus pattern (17 bp):
GTTACAATCAAGGAAGG
Found at i:870791 original size:14 final size:14
Alignment explanation
Indices: 870772--870809 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
870762 AGAAAATAAG
870772 TAAATAAAATAAAC
1 TAAATAAAATAAAC
870786 TAAATAAAATAAAC
1 TAAATAAAATAAAC
*
870800 AAAATGAAAA
1 TAAAT-AAAA
870810 GAGTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (14 bp):
TAAATAAAATAAAC
Found at i:870829 original size:53 final size:58
Alignment explanation
Indices: 870722--870833 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 58
870712 AAGTAACACT
* *
870722 ATAAACAAAATGAAAATAAAGAAACAAGAATAAGAGGATAAGAAAATAAGTAAATAAA
1 ATAAACAAAATGAAAATAAACAAACAAGAATAAGAGGATAAGAAAATAAATAAATAAA
* *
870780 ATAAACTAAAT-AAAATAAACAAA-ATGAA-AAGA-G-TAA-AAAATGAAATAAATAAA
1 ATAAACAAAATGAAAATAAACAAACAAGAATAAGAGGATAAGAAAAT-AAATAAATAAA
870833 A
1 A
870834 CATAAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
52 5 0.10
53 14 0.29
54 1 0.02
55 4 0.08
56 4 0.08
57 11 0.22
58 10 0.20
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.15
Consensus pattern (58 bp):
ATAAACAAAATGAAAATAAACAAACAAGAATAAGAGGATAAGAAAATAAATAAATAAA
Found at i:874147 original size:24 final size:24
Alignment explanation
Indices: 874100--874217 Score: 150
Period size: 24 Copynumber: 5.0 Consensus size: 24
874090 TTCAATTTGA
874100 ATTCTGATCTGA-ACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
874123 ATTCTGATCTAATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* * *
874147 ATTCTGATATGATACTTGCCTTGG
1 ATTCTGATCTGATACTTGACATGG
*
874171 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
874195 ATTTTGATATGATACTTGACATG
1 ATTCTGATCTGATACTTGACATG
874218 AATTATGTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
23 12 0.15
24 68 0.84
25 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:879080 original size:24 final size:24
Alignment explanation
Indices: 879033--879150 Score: 150
Period size: 24 Copynumber: 5.0 Consensus size: 24
879023 TTCGATTTGA
*
879033 ATTCTGATCT-AAACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
879056 ATTCTGATCTGATA-TATGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* *
879080 ATTATGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
879104 ATTCTGATTTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
879128 ATTTTGATATGATACTTGACATG
1 ATTCTGATCTGATACTTGACATG
879151 AATTATGTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.13
24 71 0.86
25 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:879163 original size:48 final size:48
Alignment explanation
Indices: 879045--879164 Score: 152
Period size: 48 Copynumber: 2.5 Consensus size: 48
879035 TCTGATCTAA
* *
879045 ACTTGACATGGATTCTGATCTGATATATGACATGGATTATGATCTGAT
1 ACTTGACATGGATTCTGATTTGATATATGACATGGATTATGATATGAT
* * *
879093 ACTTGACTTGGATTCTGATTTGATACT-TGACCTGGATTTTGATATGAT
1 ACTTGACATGGATTCTGATTTGATA-TATGACATGGATTATGATATGAT
* * *
879141 ACTTGACATGAATTATGTTTTGAT
1 ACTTGACATGGATTCTGATTTGAT
879165 TTTTCATATA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 61 0.98
49 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (48 bp):
ACTTGACATGGATTCTGATTTGATATATGACATGGATTATGATATGAT
Found at i:880215 original size:54 final size:53
Alignment explanation
Indices: 880120--880229 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 53
880110 GTAAATATAT
* *
880120 ATATATATATATATAAAGAAAGAGGGAAAATAATAATAATAAAGAAATAATTAA
1 ATATATATATATATAAAGAAAGAGAGAAAAAAATAATAATAAA-AAATAATTAA
* * *
880174 ATATATATATATATAAACTAATGA-AGAAATAAAATAA-AATAAAAAATATTTAA
1 ATATATATATATATAAA-GAAAGAGAGAAA-AAAATAATAATAAAAAATAATTAA
880227 ATA
1 ATA
880230 GGCCAAAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
53 12 0.24
54 27 0.55
55 10 0.20
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (53 bp):
ATATATATATATATAAAGAAAGAGAGAAAAAAATAATAATAAAAAATAATTAA
Found at i:886239 original size:21 final size:20
Alignment explanation
Indices: 886213--886262 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
886203 AGAAGCATTT
886213 AAATTTCAAGTCA-CTAATTGA
1 AAATTT-AAG-CATCTAATTGA
*
886234 AAATTTAAGGATCTAATTGA
1 AAATTTAAGCATCTAATTGA
886254 ATAATTTAA
1 A-AATTTAA
886263 AAAAAATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 1 0.04
20 12 0.46
21 13 0.50
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (20 bp):
AAATTTAAGCATCTAATTGA
Found at i:887298 original size:34 final size:34
Alignment explanation
Indices: 887250--887319 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
887240 TTATTTTTGC
*
887250 TGACGTGGCATGTTCATATCATAGATGATGATGA
1 TGACATGGCATGTTCATATCATAGATGATGATGA
*
887284 TGACATGGCATGTTCATATCATATATGATGATGA
1 TGACATGGCATGTTCATATCATAGATGATGATGA
887318 TG
1 TG
887320 CGGTAGATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.34
Consensus pattern (34 bp):
TGACATGGCATGTTCATATCATAGATGATGATGA
Found at i:888695 original size:166 final size:166
Alignment explanation
Indices: 888476--888800 Score: 411
Period size: 166 Copynumber: 2.0 Consensus size: 166
888466 GTTATTAGCC
* * *
888476 ATTCAATAACAACTAAATGACTTAGTCTGATGGTTAAGTATTAAGATTTTCATCCTTTATACCCA
1 ATTCAATAACAACTAAATGACTTAGTCTGATGGTTAAGTATCAAGACTTTCATCCTTTAGACCCA
* *
888541 TGTTCAAATCTCT-TAGATTGCAAAATTTATGGAGATTTAATA-ACTTTTATCTTAATTTAATAA
66 AGTTCAAAT-TCTATAGATTACAAAATTTATGGAGATTTAATACA-TTTTATCTTAATTTAATAA
** * *
888604 AAAATTCATGTGTTATGTGACAACATCTAATGATATTA
129 AAAATTCACATGTCACGTGACAACATCTAATGATATTA
* * * * * *
888642 ATTCAATAATAACTAAGTGATTTGGTTTGATGGTTAAGTATCAAGACTTTCATCCTTTAGACCTA
1 ATTCAATAACAACTAAATGACTTAGTCTGATGGTTAAGTATCAAGACTTTCATCCTTTAGACCCA
* * * * * * *
888707 AGTTTAAATTCTATGGATTATAAAATTTGTGGAGGTTTAATTCATTTTTTCTTAATTTAATAAAA
66 AGTTCAAATTCTATAGATTACAAAATTTATGGAGATTTAATACATTTTATCTTAATTTAATAAAA
*
888772 AATTCACATGTCACGTGATAACATCTAAT
131 AATTCACATGTCACGTGACAACATCTAAT
888801 TGGTTGATAT
Statistics
Matches: 134, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
165 3 0.02
166 130 0.97
167 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (166 bp):
ATTCAATAACAACTAAATGACTTAGTCTGATGGTTAAGTATCAAGACTTTCATCCTTTAGACCCA
AGTTCAAATTCTATAGATTACAAAATTTATGGAGATTTAATACATTTTATCTTAATTTAATAAAA
AATTCACATGTCACGTGACAACATCTAATGATATTA
Found at i:891454 original size:18 final size:18
Alignment explanation
Indices: 891431--891467 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
891421 TTTCTATGTT
891431 AGTTTTACTTGTATTCAG
1 AGTTTTACTTGTATTCAG
891449 AGTTTTACTTGTATTCAG
1 AGTTTTACTTGTATTCAG
891467 A
1 A
891468 AGCTTACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (18 bp):
AGTTTTACTTGTATTCAG
Found at i:897027 original size:17 final size:18
Alignment explanation
Indices: 896990--897033 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
896980 AATTTATTTA
*
896990 TTTATTTTATCCTTATCT
1 TTTATTTTATCCTTATAT
897008 TTTATTTTAT-CTTATAT
1 TTTATTTTATCCTTATAT
897025 TTTATTTTA
1 TTTATTTTA
897034 AATAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTTATCCTTATAT
Found at i:899123 original size:12 final size:12
Alignment explanation
Indices: 899054--899166 Score: 68
Period size: 12 Copynumber: 9.4 Consensus size: 12
899044 ACGGAGATAT
*
899054 CAGAAATCAAAA
1 CAGAAATCAGAA
* *
899066 CAGAATTTAGATA
1 CAGAAATCAGA-A
*
899079 -AGATATCAGAA
1 CAGAAATCAGAA
*
899090 CA-AAATCTAGAT
1 CAGAAATC-AGAA
899102 CAGAAATCAGAA
1 CAGAAATCAGAA
* *
899114 CAGAATTCAGAT
1 CAGAAATCAGAA
* *
899126 CATAAATCAAAA
1 CAGAAATCAGAA
* * *
899138 CAGAATTCATAT
1 CAGAAATCAGAA
* *
899150 CATAAATCAAAA
1 CAGAAATCAGAA
899162 CAGAA
1 CAGAA
899167 TTCAAATCGA
Statistics
Matches: 73, Mismatches: 24, Indels: 8
0.70 0.23 0.08
Matches are distributed among these distances:
11 5 0.07
12 62 0.85
13 6 0.08
ACGTcount: A:0.55, C:0.15, G:0.11, T:0.19
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:899169 original size:24 final size:24
Alignment explanation
Indices: 899052--899178 Score: 141
Period size: 24 Copynumber: 5.3 Consensus size: 24
899042 AAACGGAGAT
*
899052 ATCAGAAATCAAAACAGAATTTAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
899076 ATAAGATATCAGAACA-AAATCTAG
1 ATCAGAAATCAAAACAGAATTC-AG
*
899100 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* *
899124 ATCATAAATCAAAACAGAATTCAT
1 ATCAGAAATCAAAACAGAATTCAG
* *
899148 ATCATAAATCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
899172 ATC-GAAA
1 ATCAGAAA
899179 ATCATATAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
23 6 0.07
24 78 0.89
25 4 0.05
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.20
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:903445 original size:48 final size:48
Alignment explanation
Indices: 903374--903508 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 48
903364 GTAAACAGAG
* *
903374 ATATCAGAAATCAAAACAGAATTCAGATCATATATCAGAACAAAATCC
1 ATATCAGAAATCAAAACAGAATTCAGATCAGAAATCAGAACAAAATCC
* * ** *
903422 ATATCTGAAATCAAAACAGAATTCAGATCAGAAATCATAACTGAATTC
1 ATATCAGAAATCAAAACAGAATTCAGATCAGAAATCAGAACAAAATCC
* * *
903470 AGATCAAAAATCAAAACAGAATTCAAAT-AGGAAATCAGA
1 ATATCAGAAATCAAAACAGAATTCAGATCA-GAAATCAGA
903509 TAAAAATTCA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 1 0.01
48 73 0.99
ACGTcount: A:0.53, C:0.16, G:0.10, T:0.21
Consensus pattern (48 bp):
ATATCAGAAATCAAAACAGAATTCAGATCAGAAATCAGAACAAAATCC
Found at i:903506 original size:24 final size:24
Alignment explanation
Indices: 903376--903494 Score: 148
Period size: 24 Copynumber: 5.0 Consensus size: 24
903366 AAACAGAGAT
903376 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * * *
903400 ATCATATATCAGAACAAAATCCAT
1 ATCAGAAATCAAAACAGAATTCAG
*
903424 ATCTGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* *
903448 ATCAGAAATCATAACTGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
*
903472 ATCAAAAATCAAAACAGAATTCA
1 ATCAGAAATCAAAACAGAATTCA
903495 AATAGGAAAT
Statistics
Matches: 76, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 76 1.00
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:908227 original size:84 final size:85
Alignment explanation
Indices: 908086--908245 Score: 277
Period size: 84 Copynumber: 1.9 Consensus size: 85
908076 TATGTTATAT
*
908086 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATA-TA
1 TATTTAACCGGAAATATTATCAAGTACAATAAAATATTAGGTAACGCTTATATAATGTAATAGTA
908150 GCGCTTATATATAAAATAGG
66 GCGCTTATATATAAAATAGG
* *
908170 TATTTAACGGGAAATATTATCAAGTACAATAAAATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACCGGAAATATTATCAAGTACAATAAAATATTAGGTAACGCTTATATAATGTAATA-GT
908235 AGCGCTTATAT
65 AGCGCTTATAT
908246 TGACCTATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
84 59 0.83
86 12 0.17
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (85 bp):
TATTTAACCGGAAATATTATCAAGTACAATAAAATATTAGGTAACGCTTATATAATGTAATAGTA
GCGCTTATATATAAAATAGG
Found at i:909705 original size:3 final size:3
Alignment explanation
Indices: 909697--909735 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
909687 ACTTGTTTGG
* * *
909697 ATC ATC ATC ATC ATC ATC GTC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
909736 GTCAGCTTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:909736 original size:12 final size:12
Alignment explanation
Indices: 909698--909752 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
909688 CTTGTTTGGA
* *
909698 TCATCATCATCA
1 TCATCGTCATCT
909710 TCATCGTCA---
1 TCATCGTCATCT
909719 TCATCGTCATCT
1 TCATCGTCATCT
*
909731 TCATCGTCAGCT
1 TCATCGTCATCT
*
909743 TCATCTTCAT
1 TCATCGTCAT
909753 TGACCGCTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 9 0.25
12 27 0.75
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.38
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:912103 original size:199 final size:200
Alignment explanation
Indices: 911244--912593 Score: 2287
Period size: 199 Copynumber: 6.8 Consensus size: 200
911234 AACATTAAAC
* * * * *
911244 AGTGTCGATACA-TA-TTATACCAATTCTCCCATAAAACCGGTATACTTATACCGTTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
911307 AAAATTACCTAATACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * *
911372 GATCGACACTTTATGGTTGCACCTTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
911437 ACAAA
196 ACAAA
* * *
911442 AGTGTCGACACATTATTTAGACATATTCTCTTATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
911507 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTACATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
911572 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
911637 ACAAA
196 ACAAA
* *
911642 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACC-GTATACTTGTATCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
911706 AAAATTACCTATTATATTATACTTATGGGTTTCGATGTTTATGGGATCGACAC-TTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
911770 GATCAACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACC-AAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
911834 ACAAA
196 ACAAA
*
911839 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
911904 AAAATTACCTATTACATTAT-CTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
911968 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
912033 ACAAA
196 ACAAA
* *
912038 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCAGTTAGATTG-
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
912102 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * * *
912167 GATCGACACTTTATTGTTACACCATGTTTGTCATTCATTCTGGACCAAAAATATCGACACATACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
912232 ACAAA
196 ACAAA
* *
912237 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAATCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
912302 AAAATTACCTATTATATTATACTTATGGG-TTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
912366 GATCGACACTTTATTGTTGCACCCTG-TTACCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
912430 ACAAA
196 ACAAA
* *
912435 AGTGTCGATACATTATTTAGA-C-A-TATCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
912497 AAAATTACCTATTACATTATACTTTTGGGTTTCGATG-TTATAGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
912561 GATCGACAC-TTATGGTTGCACCCTGTTTGCCAT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCAT
912594 ATTGTAAATT
Statistics
Matches: 1091, Mismatches: 52, Indels: 21
0.94 0.04 0.02
Matches are distributed among these distances:
194 15 0.01
195 104 0.10
196 8 0.01
197 93 0.09
198 245 0.22
199 389 0.36
200 237 0.22
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:912361 original size:596 final size:596
Alignment explanation
Indices: 911244--912593 Score: 2333
Period size: 596 Copynumber: 2.3 Consensus size: 596
911234 AACATTAAAC
* * * *
911244 AGTGTCGATACA-TA-TTATACCAATTCTCCCATAAAACCGGTATACTTATACCGTTTAGATTGA
1 AGTGTCGATACATTATTTAGACC-ATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
*
911307 AAAATTACCTAATACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
65 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
911372 GATCGACACTTTATGGTTGCACCTTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACT
130 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACT
* *
911437 ACAAAAGTGTCGACACATTATTTAGACATATTCTCTTATAAAACCGGTATACTTGTACCGGTTAG
195 ACAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCAGTTAG
911502 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTAC
260 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTAC
* *
911567 ATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACAC
325 ATATGGATCGACACTTTATTGTTACACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACAC
* *
911632 AAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGTATACTTGTATCGG
390 AAACTACAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGTATACTTGTACCGG
*
911697 TTAGATTGAAAAATTACCTATTATATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTT
455 TTAGATTGAAAAATTACCTATTATATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTT
*
911762 TATATATGGATCAACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACC-AAAATATCGA
520 TATATATGGATCAACACTTTATTGTTGCACCCTG-TTACCATTCATTCTGGACCAAAAATATCGA
911826 CACAAACTACAAA
584 CACAAACTACAAA
* *
911839 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACC-ATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
*
911904 AAAATTACCTATTACATTAT-CTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
65 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
911968 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
130 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACT
*
912033 ACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCAGTTAG
195 ACAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCAGTTAG
*
912098 ATTG-AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTAT
260 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTAC
*
912162 ATATGGATCGACACTTTATTGTTACACCATGTTTGTCATTCATTCTGGACCAAAAATATCGACAC
325 ATATGGATCGACACTTTATTGTTACACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACAC
* * *
912227 ATACTACAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAATCGGTATACTTGTACCG
390 AAACTACAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA-CCGTATACTTGTACCG
912292 GTTAGATTGAAAAATTACCTATTATATTATACTTATGGG-TTCGATGTTTATCGGATCGACACTT
454 GTTAGATTGAAAAATTACCTATTATATTATACTTATGGGTTTCGATGTTTATCGGATCGACAC-T
*
912356 TTTATATATGGATCGACACTTTATTGTTGCACCCTGTTACCATTCATTCTGGACCAAAAATATCG
518 TTTATATATGGATCAACACTTTATTGTTGCACCCTGTTACCATTCATTCTGGACCAAAAATATCG
912421 ACACAAACTACAAA
583 ACACAAACTACAAA
*
912435 AGTGTCGATACATTATTTAGA-CA-TATCTCATAAAACCGGTATACTTGTACCGATTAGATTGAA
1 AGTGTCGATACATTATTTAGACCATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAA
*
912498 AAATTACCTATTACATTATACTTTTGGGTTTCGATG-TTATAGGATCGACACTTTTTATATATGG
66 AAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGG
912562 ATCGACAC-TTATGGTTGCACCCTGTTTGCCAT
131 ATCGACACTTTATGGTTGCACCCTGTTTGCCAT
912594 ATTGTAAATT
Statistics
Matches: 717, Mismatches: 32, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
592 23 0.03
593 91 0.13
594 16 0.02
595 219 0.31
596 306 0.43
597 62 0.09
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (596 bp):
AGTGTCGATACATTATTTAGACCATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAA
AAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGG
ATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTA
CAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCAGTTAGA
TTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTACA
TATGGATCGACACTTTATTGTTACACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACA
AACTACAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGTATACTTGTACCGGT
TAGATTGAAAAATTACCTATTATATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTT
ATATATGGATCAACACTTTATTGTTGCACCCTGTTACCATTCATTCTGGACCAAAAATATCGACA
CAAACTACAAA
Found at i:913211 original size:17 final size:17
Alignment explanation
Indices: 913189--913231 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
913179 TCTCATTCAT
913189 AATTATATCACATACAA
1 AATTATATCACATACAA
**
913206 AATTATAAATCGTATACAA
1 AATTAT--ATCACATACAA
913225 AATTATA
1 AATTATA
913232 AATCTTATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 7 0.32
19 15 0.68
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (17 bp):
AATTATATCACATACAA
Found at i:913224 original size:19 final size:19
Alignment explanation
Indices: 913200--913248 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
913190 ATTATATCAC
913200 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
913219 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
913238 ATACAAAATTA
1 ATACAAAATTA
913249 ACCATACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:913534 original size:19 final size:19
Alignment explanation
Indices: 913500--913562 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 19
913490 CCCCTTATGC
* *
913500 CTCTCAAGTGTATCTTCGA
1 CTCTCAAGTTTCTCTTCGA
*
913519 CTCTCTAGTTTCTCTTCGA
1 CTCTCAAGTTTCTCTTCGA
913538 CTCTATCAAGTTTCTCTTCGA
1 CTC--TCAAGTTTCTCTTCGA
913559 CTCT
1 CTCT
913563 TGATTGTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 20 0.53
21 18 0.47
ACGTcount: A:0.16, C:0.30, G:0.11, T:0.43
Consensus pattern (19 bp):
CTCTCAAGTTTCTCTTCGA
Found at i:913551 original size:21 final size:20
Alignment explanation
Indices: 913512--913563 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
913502 CTCAAGTGTA
*
913512 TCTTCGACTC-TCTAGTTTC
1 TCTTCGACTCTTCAAGTTTC
913531 TCTTCGACTCTATCAAGTTTC
1 TCTTCGACTCT-TCAAGTTTC
913552 TCTTCGACTCTT
1 TCTTCGACTCTT
913564 GATTGTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 10 0.33
20 1 0.03
21 19 0.63
ACGTcount: A:0.13, C:0.31, G:0.10, T:0.46
Consensus pattern (20 bp):
TCTTCGACTCTTCAAGTTTC
Found at i:916861 original size:15 final size:15
Alignment explanation
Indices: 916841--916877 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
916831 GAATGCGAAA
916841 GTCACAGACAAGTTT
1 GTCACAGACAAGTTT
916856 GTCACAGACAAGTTT
1 GTCACAGACAAGTTT
916871 GTCACAG
1 GTCACAG
916878 TCAAAAGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (15 bp):
GTCACAGACAAGTTT
Found at i:919290 original size:16 final size:16
Alignment explanation
Indices: 919260--919297 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
919250 TATTTCAGAG
919260 TGATT-AAACGCTGAA
1 TGATTCAAACGCTGAA
*
919275 TGATTCAAATGCTGAA
1 TGATTCAAACGCTGAA
919291 TGATTCA
1 TGATTCA
919298 GAAACTCTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (16 bp):
TGATTCAAACGCTGAA
Found at i:926770 original size:2 final size:2
Alignment explanation
Indices: 926763--926799 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
926753 TTCAAATGTC
926763 AT AT AT AT -T AT 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 AT AT AT
926800 TTGCATTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:927502 original size:15 final size:16
Alignment explanation
Indices: 927477--927506 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
927467 TTTGTAAAAA
927477 AATTATAAATTTTGTT
1 AATTATAAATTTTGTT
927493 AATT-TAAATTTTGT
1 AATTATAAATTTTGT
927507 AACAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (16 bp):
AATTATAAATTTTGTT
Found at i:927522 original size:20 final size:19
Alignment explanation
Indices: 927462--927522 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
927452 ATTTATCTTT
*
927462 TAAATTTTGTAAAAAAATTA
1 TAAATTTTGTAAAAATA-TA
*
927482 TAAATTTTGT--TAAT-T-
1 TAAATTTTGTAAAAATATA
927497 TAAATTTTGTAACAAATATA
1 TAAATTTTGTAA-AAATATA
927517 TAAATT
1 TAAATT
927523 AAAAATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
15 10 0.30
16 1 0.03
18 5 0.15
19 1 0.03
20 16 0.48
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (19 bp):
TAAATTTTGTAAAAATATA
Found at i:928280 original size:38 final size:40
Alignment explanation
Indices: 928234--928323 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 40
928224 GGATTAAAAG
* *
928234 AGAAATAAATAAAAATG-AAG-AA-AATATTAATTTTTAAA
1 AGAAATAAA-AAAAAAGAAAGAAAGAATATTAAATTTTAAA
* *
928272 AGAAATAAAAAAAAAGAAAAGAAAGAATGTTAAATTTTAGA
1 AGAAATAAAAAAAAAG-AAAGAAAGAATATTAAATTTTAAA
928313 AGAAATAAAAA
1 AGAAATAAAAA
928324 TAATAGGATT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
37 6 0.14
38 9 0.20
39 3 0.07
40 2 0.05
41 24 0.55
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (40 bp):
AGAAATAAAAAAAAAGAAAGAAAGAATATTAAATTTTAAA
Found at i:929038 original size:2 final size:2
Alignment explanation
Indices: 929033--929089 Score: 86
Period size: 2 Copynumber: 30.5 Consensus size: 2
929023 TTTAATATTA
929033 AT AT AT AT AT AT AT AT A- AT AT A- AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
929072 AT -T AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
929090 AGATATAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
1 4 0.08
2 47 0.92
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:929058 original size:22 final size:22
Alignment explanation
Indices: 929025--929098 Score: 100
Period size: 22 Copynumber: 3.4 Consensus size: 22
929015 TTTTTAATTT
929025 TAATATTAATATATATATATATA
1 TAATA-TAATATATATATATATA
929048 TAATATAATATATATATATA-A
1 TAATATAATATATATATATATA
*
929069 T-ATATTATATATATATATATA
1 TAATATAATATATATATATATA
929090 -AGATATAAT
1 TA-ATATAAT
929099 TACTTAAACT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
20 17 0.37
21 3 0.07
22 21 0.46
23 5 0.11
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (22 bp):
TAATATAATATATATATATATA
Found at i:929376 original size:5 final size:5
Alignment explanation
Indices: 929366--930901 Score: 2237
Period size: 5 Copynumber: 313.6 Consensus size: 5
929356 AAATATAAAT
929366 ATACA ATACA ATACA ATACA ATACA ATAC- ATACA ATACA ATACA ATAC-
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
*
929414 ATACA ATAC- ATACA ATACA ATACA ATACA ATACA ATACCA ATAC- CTACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATA-CA ATACA ATACA
929463 ATACA ATACA ATACA ATACA ATACA ATAC- -TACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
929511 ATACA ATACA ATACA ATACA ATAC- ATACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
929560 ATACA ATACA ATACA ATACA ATACA ATAC- ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
929609 ATACA ATACA ATACA ATACA ATACA ATACA ATAC- ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
*
929658 ATACACA ATAC- ATACA ATACA ATACA AAACA AT-CA CATACA ATAC-
1 AT--ACA ATACA ATACA ATACA ATACA ATACA ATACA -ATACA ATACA
929703 ATACA ATACA ATACA TATACA ATAC- ATAC- ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA -ATACA ATACA ATACA ATACA ATACA ATACA ATACA
*
929752 ATACC ATACA ATACA ATACA ATACA ATACA ATAC- ATACA TATAC- ATAC-
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA -ATACA ATACA
929800 AT-CA ATAC- ATACA ATACA ATACA ATACA ATACA ATACA ATAC- ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
*
929847 ATACA AT--T ATACA ATACA ATAC- ATACA ATACA ATACA ATAC- ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
* *
929893 ATACA ATACA ATACA ATACA ATACA ATACA ATATA CACACA CATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA -ATACA -ATACA ATACA
*
929945 ATACA ATAC- A-ACA ATACA ATACA ATACA ATACACA ATAC- A-CCA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA AT--ACA ATACA ATACA ATACA
929993 ATACA ATACACA ATACA ATACA ATACA ATAC- ATAC- ATACA ATACA ATAC-
1 ATACA AT--ACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
930042 ATACA A-ACA ATACA ATACA ATAC- ATACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
930090 ATACA ATACA ATACACA ATACA ATACA ATACA ATACACA ATACA ATACA
1 ATACA ATACA AT--ACA ATACA ATACA ATACA AT--ACA ATACA ATACA
*
930139 ATACAAA ATACA ATACA ATACA ATAC- ATACA ATAC- ATACA TACACA
1 ATAC--A ATACA ATACA ATACA ATACA ATACA ATACA ATACA -ATACA
930185 CATACA ATACA ATACA ATACA ATACA ATACA ATACA ATAC- ATACA ATACAA
1 -ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATAC-A
930236 ATACA ATACA ATACAAA ATAC- ATACA ATACAA ATACA ATACA ATACA
1 ATACA ATACA ATAC--A ATACA ATACA ATAC-A ATACA ATACA ATACA
930283 ATACA ATACA ATACA ATAC- ATACA ATACA ATACA ATACA ATACA ATACATA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATAC--A
*
930334 ATACA ATAC- ATACA ATACA ATACAAA ATACA ATAC- ATATA A-ACA ATACA
1 ATACA ATACA ATACA ATACA ATAC--A ATACA ATACA ATACA ATACA ATACA
930383 ATACAA TATACA ATACA ATACA ATACA ATACA ATACA ATACA ATAC- ATACA
1 ATAC-A -ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
930434 ATACA ATACA ATACA ATACA ATAC- ATACA ATACA ATACA ATAC- ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
930482 ATACA ATAC- ATACA ATACA ATACA ATACA A-AC- ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
930529 ATAC- ATACA ATACA ATACA ATACA ATAC- ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
930577 AT--A ATACA ATAC- ATAC- ATACA ATACA ATAC- ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
930622 ATACA ATACA ATACA ATACA ATACA ATAC- ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
930671 ATACA ATA-A ATACA ATACA ATACA ATACA ATA-A ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
930719 ATACA ATACA ATACA ATAC- ATACA ATAC- ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
930767 ATACA ATACA ATACA ATAC- ATAC- ATACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
930815 ATACATA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATAC-
1 ATAC--A ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
* *
930866 ATACA AT--A ATACA ATACA ATACA ATATA ATATA ATA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATA
930902 TTATAATGCC
Statistics
Matches: 1422, Mismatches: 20, Indels: 178
0.88 0.01 0.11
Matches are distributed among these distances:
3 16 0.01
4 199 0.14
5 1109 0.78
6 44 0.03
7 54 0.04
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (5 bp):
ATACA
Found at i:931776 original size:22 final size:21
Alignment explanation
Indices: 931733--931787 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 21
931723 TTCAAAAATG
931733 GTATCGATA--ATGTATAAGA
1 GTATCGATACCATGTATAAGA
*
931752 GTATCGATACCATAGTATAATA
1 GTATCGATACCAT-GTATAAGA
931774 GTATCGATACCATG
1 GTATCGATACCATG
931788 GTGAGGGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 9 0.28
21 3 0.09
22 20 0.62
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (21 bp):
GTATCGATACCATGTATAAGA
Found at i:932230 original size:55 final size:55
Alignment explanation
Indices: 932126--932569 Score: 611
Period size: 55 Copynumber: 8.0 Consensus size: 55
932116 TGATTACCAA
* * * * ** **
932126 ATGGGCACTTTGTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGT
1 ATGGGCACTTTATGTG--TAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
* *
932183 ATGGGCACTTTATGTGTAAACTTAATAAATTCATACTAAGTGGATGAATTTCCGC
1 ATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
* * *
932238 ATGGGTACTTTATGTGTAAACTTAAGAAATTCATACTACGTGGATGAGTTTCCGT
1 ATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
* * *
932293 ATGAGCACTTTATGTCTAAACTTAAGAAATTCATACTAAGTGAATGAATTTCCGT
1 ATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
* * *
932348 ATGGCCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATAAATTTTCGT
1 ATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
* *
932403 ATGGGTACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCAGT
1 ATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
* *
932458 ATGGACACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGT
1 ATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
* * * *
932513 ATGGGCACTTTATGTGCAAAAC-TAGGAAATTCATACTAAGTGTATAAATTTCCGT
1 ATGGGCACTTTATGTG-TAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
932568 AT
1 AT
932570 TGGTAGTGGG
Statistics
Matches: 345, Mismatches: 41, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
55 326 0.94
56 4 0.01
57 15 0.04
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (55 bp):
ATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
Found at i:939196 original size:55 final size:55
Alignment explanation
Indices: 939150--939586 Score: 584
Period size: 55 Copynumber: 8.0 Consensus size: 55
939140 TAATTTGTTT
*
939150 ATGAATTTTCGTATGAGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* *
939205 ATAAATTTCCGTATGGGCACTTTATGTGT-AACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
*
939259 ATTAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGT-G
1 ATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * *
939313 ATTGAA-TTTCAATATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTGAGTGA
1 A-TGAATTTTC-GTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
939369 ATGAATTTTCGTATGGGCAC-TT-TGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * * * *
939422 ATAAATTTCCATTTGGGCACTTTATGTGTAAACTTAAGAAATCCATACTAAGTGG
1 ATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * * * *
939477 ATGAA-TTTCAATATGGGCACTTTATCTGTAAACTTAAGAAATTCAGACAAAGTGA
1 ATGAATTTTC-GTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * *
939532 ATGAA-TTTCTGTATGGTCACTTTATGTGAAAAAAC-TAGGAAATTCATACTAAGTG
1 ATGAATTTTC-GTATGGGCACTTTATGTG--TAAACTTAAGAAATTCATACTAAGTG
939587 TATAAATTCC
Statistics
Matches: 339, Mismatches: 33, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
53 45 0.13
54 65 0.19
55 203 0.60
56 22 0.06
57 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (55 bp):
ATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
Found at i:939471 original size:163 final size:165
Alignment explanation
Indices: 939161--939594 Score: 637
Period size: 163 Copynumber: 2.6 Consensus size: 165
939151 TGAATTTTCG
* * * *
939161 TATGAGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATAAATTTCCGTATGGGCACT
1 TATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGAATGAATTTTCGTATGGGCACT
* * *
939226 TTATGTGT-AACTTAAGAAATTCATACTAAGTGGATTAATTTTCGTATGGGCACTTTATGTGTAA
66 TTATGTGTAAACTTAAGAAATTCATACTAAGTGGATAAATTTCCATATGGGCACTTTATGTGTAA
*
939290 ACTTAAGAAATTCATACTAAGT-GATTGAATTTCAA
131 ACTTAAGAAATCCATACTAAGTGGA-TGAATTTCAA
*
939325 TATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTGAGTGAATGAATTTTCGTATGGGCAC-
1 TATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGAATGAATTTTCGTATGGGCACT
*
939389 TT-TGTGTAAACTTAAGAAATTCATACTAAGTGGATAAATTTCCATTTGGGCACTTTATGTGTAA
66 TTATGTGTAAACTTAAGAAATTCATACTAAGTGGATAAATTTCCATATGGGCACTTTATGTGTAA
939453 ACTTAAGAAATCCATACTAAGTGGATGAATTTCAA
131 ACTTAAGAAATCCATACTAAGTGGATGAATTTCAA
* * * *
939488 TATGGGCACTTTATCTGTAAACTTAAGAAATTCAGACAAAGTGAATGAA-TTTCTGTATGGTCAC
1 TATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGAATGAATTTTC-GTATGGGCAC
* * *
939552 TTTATGTGAAAAAAC-TAGGAAATTCATACTAAGTGTATAAATT
65 TTTATGTG--TAAACTTAAGAAATTCATACTAAGTGGATAAATT
939595 CCGTATTGGT
Statistics
Matches: 245, Mismatches: 18, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
162 9 0.04
163 139 0.57
164 63 0.26
165 4 0.02
166 26 0.11
167 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (165 bp):
TATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGAATGAATTTTCGTATGGGCACT
TTATGTGTAAACTTAAGAAATTCATACTAAGTGGATAAATTTCCATATGGGCACTTTATGTGTAA
ACTTAAGAAATCCATACTAAGTGGATGAATTTCAA
Found at i:939521 original size:218 final size:219
Alignment explanation
Indices: 939150--939586 Score: 666
Period size: 218 Copynumber: 2.0 Consensus size: 219
939140 TAATTTGTTT
939150 ATGAATTTTCGTATGAGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATAAATTTCC
1 ATGAATTTTCGTATGAGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATAAATTTCC
* * * *
939215 GTATGGGCACTTTATGTGTAACTTAAGAAATTCATACTAAGTGGATTAATTTTCGTATGGGCACT
66 ATATGGGCACTTTATGTGTAACTTAAGAAATCCATACTAAGTGGATGAATTTTCATATGGGCACT
* * * * *
939280 TTATGTGTAAACTTAAGAAATTCATACTAAGTGATTGAATTTCAATATGGGCACTTTATGTG-TA
131 TTATCTGTAAACTTAAGAAATTCAGACAAAGTGAATGAATTTCAATATGGGCACTTTATGTGAAA
*
939344 AACTTAAGAAATTCATACTGAGTGA
196 AAC-TAAGAAATTCATACTAAGTGA
*
939369 ATGAATTTTCGTATGGGCAC-TT-TGTGTAAACTTAAGAAATTCATACTAAGTGGATAAATTTCC
1 ATGAATTTTCGTATGAGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATAAATTTCC
*
939432 ATTTGGGCACTTTATGTGTAAACTTAAGAAATCCATACTAAGTGGATGAA-TTTCAATATGGGCA
66 ATATGGGCACTTTATGTGT-AACTTAAGAAATCCATACTAAGTGGATGAATTTTC-ATATGGGCA
** *
939496 CTTTATCTGTAAACTTAAGAAATTCAGACAAAGTGAATGAATTTCTGTATGGTCACTTTATGTGA
129 CTTTATCTGTAAACTTAAGAAATTCAGACAAAGTGAATGAATTTCAATATGGGCACTTTATGTG-
*
939561 AAAAACTAGGAAATTCATACTAAGTG
193 AAAAACTAAGAAATTCATACTAAGTG
939587 TATAAATTCC
Statistics
Matches: 198, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
217 62 0.31
218 95 0.48
219 37 0.19
220 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (219 bp):
ATGAATTTTCGTATGAGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATAAATTTCC
ATATGGGCACTTTATGTGTAACTTAAGAAATCCATACTAAGTGGATGAATTTTCATATGGGCACT
TTATCTGTAAACTTAAGAAATTCAGACAAAGTGAATGAATTTCAATATGGGCACTTTATGTGAAA
AACTAAGAAATTCATACTAAGTGA
Found at i:940248 original size:2 final size:2
Alignment explanation
Indices: 940241--940274 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
940231 TTATTTTAAA
940241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
940275 CATTTTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:940342 original size:36 final size:36
Alignment explanation
Indices: 940264--940545 Score: 271
Period size: 37 Copynumber: 7.6 Consensus size: 36
940254 TATATATATA
**
940264 TATATATTATACATTTTCAAAACCATTTTTAAAAAAAC
1 TATATATTATATGTTTTCAAAACCATTTTT--AAAAAC
* *
940302 -ATATATTATATGTTTTCAAAACCGTTTTTAAAAAT
1 TATATATTATATGTTTTCAAAACCATTTTTAAAAAC
** * *
940337 TATATATTATACATTTTCAAAACTATTTTAAAAAAC
1 TATATATTATATGTTTTCAAAACCATTTTTAAAAAC
** ** *
940373 TATATATTATACATTTTCAAAACCATTTAAAAAAAAATA
1 TATATATTATATGTTTTCAAAACCATTT--TTAAAAA-C
*
940412 TATATATTATATGTTTTCAAAACCGTTTTTTAAAAAC
1 TATATATTATATGTTTTCAAAACC-ATTTTTAAAAAC
** * *
940449 TATATACCATATGTTTTCAAAACTATTTTTCCAAAAC
1 TATATATTATATGTTTTCAAAACCATTTTT-AAAAAC
* * *
940486 TATAT-TATATATGTTTTCAAAAATACGTTTTCAAAAAC
1 TATATAT-TATATGTTTTC-AAAA-CCATTTTTAAAAAC
940524 TATATATTATATGTTTTCAAAA
1 TATATATTATATGTTTTCAAAA
940546 ACTATCTATG
Statistics
Matches: 203, Mismatches: 31, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
35 5 0.02
36 61 0.30
37 71 0.35
38 36 0.18
39 27 0.13
40 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (36 bp):
TATATATTATATGTTTTCAAAACCATTTTTAAAAAC
Found at i:940942 original size:81 final size:81
Alignment explanation
Indices: 940845--941023 Score: 277
Period size: 81 Copynumber: 2.2 Consensus size: 81
940835 GGTGATTCCA
* *
940845 TCGTCGTGAGGTTGAGTTGATATTGAGATGTCTTTGAACATGATATCATTCGTCATGAAGTTGAA
1 TCGTCGTGAAGTTGAGTTGATATTGAGATGTCTTTGAACATGACATCATTCGTCATGAAGTTGAA
940910 ATCATGGTTGACCCAT
66 ATCATGGTTGACCCAT
* * *
940926 TCGTCGTGAAGTTGAGTTGATCTTGAGATGTCTTTGAATATGACATCCTTCGTCATGAAGTTGAA
1 TCGTCGTGAAGTTGAGTTGATATTGAGATGTCTTTGAACATGACATCATTCGTCATGAAGTTGAA
* *
940991 ATCTTGGTTGACCCCT
66 ATCATGGTTGACCCAT
* *
941007 TTGTCCTGAAGTTGAGT
1 TCGTCGTGAAGTTGAGT
941024 CAGTCGAGCA
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 89 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (81 bp):
TCGTCGTGAAGTTGAGTTGATATTGAGATGTCTTTGAACATGACATCATTCGTCATGAAGTTGAA
ATCATGGTTGACCCAT
Found at i:948109 original size:30 final size:30
Alignment explanation
Indices: 948075--948154 Score: 144
Period size: 30 Copynumber: 2.7 Consensus size: 30
948065 CAAAATGGTT
948075 TTTGGACTTGAATTGAATTTACAAAACGTA
1 TTTGGACTTGAATTGAATTTACAAAACGTA
*
948105 TTTGGACTTGAATTGAATTTACAAAATGTA
1 TTTGGACTTGAATTGAATTTACAAAACGTA
948135 TTTGGACTT-AATTGAATTTA
1 TTTGGACTTGAATTGAATTTA
948155 TTCAAAATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 11 0.22
30 38 0.78
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.41
Consensus pattern (30 bp):
TTTGGACTTGAATTGAATTTACAAAACGTA
Found at i:948246 original size:19 final size:19
Alignment explanation
Indices: 948219--948284 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
948209 AATGTTTTTA
* *
948219 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
948238 TGAACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
* *
948257 TGAACAGTAAATCACTGTT
1 TGAACAGTAAATTACTATT
*
948276 TGAATAGTA
1 TGAACAGTA
948285 CCCCGAGGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:949667 original size:31 final size:31
Alignment explanation
Indices: 949600--949659 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
949590 CAATTTAAGG
*
949600 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
949631 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
949660 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:949760 original size:19 final size:19
Alignment explanation
Indices: 949733--949790 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
949723 TATGAATAGT
*
949733 AATTCACTATTGGAACAGTA
1 AATT-ACTATTTGAACAGTA
949753 AATTACTATTTGAACAGTA
1 AATTACTATTTGAACAGTA
* *
949772 AATCACTGTTTGAACAGTA
1 AATTACTATTTGAACAGTA
949791 CCTCGAGGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 31 0.89
20 4 0.11
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (19 bp):
AATTACTATTTGAACAGTA
Found at i:949934 original size:19 final size:20
Alignment explanation
Indices: 949897--949935 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
949887 ATTTGAATAT
949897 TATGAAGGGGTATCGATTCC
1 TATGAAGGGGTATCGATTCC
949917 TATGAAGGGGTA-CGATTCC
1 TATGAAGGGGTATCGATTCC
949936 CCCATTCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (20 bp):
TATGAAGGGGTATCGATTCC
Found at i:950258 original size:34 final size:32
Alignment explanation
Indices: 950219--950288 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
950209 TTTTGTAAAG
* *
950219 GGGAAAGGTTCTAGCTTAGCTCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
950253 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
950285 GGGA
1 GGGA
950289 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:955081 original size:15 final size:16
Alignment explanation
Indices: 955061--955090 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
955051 TCAAAAAGAA
955061 AAAAAAT-TTAAATTT
1 AAAAAATGTTAAATTT
955076 AAAAAATGTTAAATT
1 AAAAAATGTTAAATT
955091 AAGAAATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
AAAAAATGTTAAATTT
Found at i:955872 original size:15 final size:16
Alignment explanation
Indices: 955840--955872 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
955830 ATATATATAA
*
955840 TGGATTATTTATATTT
1 TGGATTATTTAGATTT
955856 TGGATTA-TTAGATTT
1 TGGATTATTTAGATTT
955871 TG
1 TG
955873 TATTTATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (16 bp):
TGGATTATTTAGATTT
Found at i:956567 original size:21 final size:21
Alignment explanation
Indices: 956541--956582 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
956531 AGCATCTTAC
956541 TCCGCTCTGATGATTCACACG
1 TCCGCTCTGATGATTCACACG
956562 TCCGCTCTGATGATTCACACG
1 TCCGCTCTGATGATTCACACG
956583 AAGAAGAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (21 bp):
TCCGCTCTGATGATTCACACG
Found at i:957798 original size:2 final size:2
Alignment explanation
Indices: 957791--957828 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
957781 TTAAAAGCAA
957791 AT AT AT AT AT AT 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 AT AT AT
957829 GCAGAAGGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:959256 original size:31 final size:31
Alignment explanation
Indices: 959221--959290 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
959211 AATATTAATT
959221 GTTTAATTATACTAACATAATACTTTTGACA
1 GTTTAATTATACTAACATAATACTTTTGACA
959252 GTTTAATTATACTAACATAATACTTTTGACA
1 GTTTAATTATACTAACATAATACTTTTGACA
959283 GTTTAATT
1 GTTTAATT
959291 GGATGTCTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (31 bp):
GTTTAATTATACTAACATAATACTTTTGACA
Found at i:960393 original size:16 final size:16
Alignment explanation
Indices: 960336--960398 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
960326 AACATAAATG
960336 AAAAAT-ATTTAATT-
1 AAAAATAATTTAATTA
960350 AAAAATAACTTTTAATTA
1 AAAAATAA--TTTAATTA
960368 AAATAA-AATTTAATTA
1 AAA-AATAATTTAATTA
*
960384 AAAAATAATTCAATT
1 AAAAATAATTTAATT
960399 TAGTGTAGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
14 6 0.14
15 3 0.07
16 19 0.45
17 7 0.17
18 5 0.12
19 2 0.05
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAATAATTTAATTA
Found at i:960857 original size:21 final size:22
Alignment explanation
Indices: 960832--960890 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
960822 AACATGGTTC
960832 AACATA-ATACAAGT-TAAAAAA
1 AACATAGATAC-AGTATAAAAAA
*
960853 AACATAGTTACAGTATAAAAAA
1 AACATAGATACAGTATAAAAAA
*
960875 ATACATAGTTACAGTA
1 A-ACATAGATACAGTA
960891 CATAATATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
21 9 0.26
22 11 0.32
23 14 0.41
ACGTcount: A:0.58, C:0.10, G:0.08, T:0.24
Consensus pattern (22 bp):
AACATAGATACAGTATAAAAAA
Found at i:960871 original size:22 final size:23
Alignment explanation
Indices: 960846--960890 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
960836 TAATACAAGT
960846 TAAAAAAA-ACATAGTTACAGTA
1 TAAAAAAATACATAGTTACAGTA
960868 TAAAAAAATACATAGTTACAGTA
1 TAAAAAAATACATAGTTACAGTA
960891 CATAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (23 bp):
TAAAAAAATACATAGTTACAGTA
Found at i:967341 original size:11 final size:11
Alignment explanation
Indices: 967325--967349 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
967315 AATATAAACA
967325 TTAATATATTT
1 TTAATATATTT
967336 TTAATATATTT
1 TTAATATATTT
967347 TTA
1 TTA
967350 CCATAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTAATATATTT
Found at i:967459 original size:15 final size:15
Alignment explanation
Indices: 967439--967469 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
967429 CAACTGATAG
967439 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
967454 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
967469 A
1 A
967470 CTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:976052 original size:21 final size:22
Alignment explanation
Indices: 976023--976069 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
976013 TTTTAACTTT
*
976023 TTTTCTCTCTTTTATTATTAAC
1 TTTTCTCTCTTTCATTATTAAC
*
976045 TTTT-TCTCTTTCATTTTTAAC
1 TTTTCTCTCTTTCATTATTAAC
976066 TTTT
1 TTTT
976070 ACTTTTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTCTCTCTTTCATTATTAAC
Found at i:976077 original size:21 final size:21
Alignment explanation
Indices: 976032--976077 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
976022 TTTTTCTCTC
*
976032 TTTT-ATTATTAACTTTTTCT
1 TTTTCATTATTAACTTTTACT
* *
976052 CTTTCATTTTTAACTTTTACT
1 TTTTCATTATTAACTTTTACT
976073 TTTTC
1 TTTTC
976078 TCTCTCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTCATTATTAACTTTTACT
Found at i:976096 original size:27 final size:26
Alignment explanation
Indices: 976013--976096 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
976003 CTCTCAATTT
*
976013 TTTTAACTTTTTTTCTCTC-TTTTATTA
1 TTTT-ACTTTTTCTCTCTCATTTT-TTA
* * *
976040 -TTAACTTTTTCTCTTTCATTTTTAA
1 TTTTACTTTTTCTCTCTCATTTTTTA
976065 CTTTTACTTTTTCTCTCTCATTTCTTTA
1 -TTTTACTTTTTCTCTCTCATTT-TTTA
976093 TTTT
1 TTTT
976097 CTTCCTTCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
25 14 0.30
26 6 0.13
27 23 0.50
28 3 0.07
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTACTTTTTCTCTCTCATTTTTTA
Found at i:983641 original size:31 final size:31
Alignment explanation
Indices: 983565--983641 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
983555 AACAGTTTAG
*
983565 TGACTAAAAGATAAT-AATTGATAACATAAT
1 TGACTAAAAGATAATAAATTGATAACATAAA
*** *
983595 TGACTAAATTTTAATAAATTGATAACGTAAA
1 TGACTAAAAGATAATAAATTGATAACATAAA
* *
983626 TGACTGAAGGATAATA
1 TGACTAAAAGATAATA
983642 TTTTAGATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 12 0.32
31 25 0.68
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.31
Consensus pattern (31 bp):
TGACTAAAAGATAATAAATTGATAACATAAA
Found at i:986478 original size:37 final size:39
Alignment explanation
Indices: 986417--986493 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 39
986407 TATTTTATTC
* *
986417 TATTTAATATTTTGTTAATGTTTTATGTAATTATTGTAT
1 TATTTAATATTTTGTTAATATTTTATGTAAATATTGTAT
* * *
986456 TATTTAAT-TTTT-TTAGTATTTTATTTAAATATTTTAT
1 TATTTAATATTTTGTTAATATTTTATGTAAATATTGTAT
986493 T
1 T
986494 TTTTTGCAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
37 21 0.64
38 4 0.12
39 8 0.24
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (39 bp):
TATTTAATATTTTGTTAATATTTTATGTAAATATTGTAT
Found at i:987107 original size:23 final size:25
Alignment explanation
Indices: 987075--987126 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
987065 TTTTTTAGGT
*
987075 AAAACAATTA-AATATT-ATTTTTA
1 AAAACAATTATAATATTAATTTTGA
* *
987098 AAAACGATTATGATATTAATTTTGA
1 AAAACAATTATAATATTAATTTTGA
987123 AAAA
1 AAAA
987127 TGGGTGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.38
24 5 0.21
25 10 0.42
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (25 bp):
AAAACAATTATAATATTAATTTTGA
Found at i:989735 original size:3 final size:3
Alignment explanation
Indices: 989727--989758 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
989717 CTATATAAGT
989727 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
989759 ATAAAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:989746 original size:14 final size:14
Alignment explanation
Indices: 989729--989762 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
989719 ATATAAGTTA
989729 ATAATAATAATAAT
1 ATAATAATAATAAT
989743 ATAATAATAATAAT
1 ATAATAATAATAAT
989757 A-AATAA
1 ATAATAA
989763 AACAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:989747 original size:17 final size:16
Alignment explanation
Indices: 989727--989762 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
989717 CTATATAAGT
989727 TAATAATAATAATAATA
1 TAATAATAATAATAA-A
989744 TAATAATAATAATAAA
1 TAATAATAATAATAAA
989760 TAA
1 TAA
989763 AACAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATAATAATAATAAA
Found at i:990164 original size:133 final size:134
Alignment explanation
Indices: 989949--990275 Score: 460
Period size: 133 Copynumber: 2.4 Consensus size: 134
989939 TGAAGAGTTA
* * * ** *
989949 TGGTCATCTAAGGGTGACATGGA-TCTTACATGATGAGGATATCTGGTCGGGGGATGACACTACT
1 TGGTTATCT-AGGGTGACA-CGACTCTTACGTGATGAGGAGGTCTGGTCGGGGGATGACATTACT
* * *
990013 CATATGTGATGAAGAGTTCTTGGCCATCTTTAGGAATGATGATGACACGGTTCCTACATGATGAG
64 CATACGTGATGAAGAGTTCTTGGCCATCTTTAGGAATGATGATAACACGGTTCCTACATGATGAA
990078 GACGGC
129 GACGGC
* * *
990084 TGGTTATCTAGGGTGACACGACTCTTACGTGATGAGGAGGTTTGGTC-AGGGATGACATTGCTCA
1 TGGTTATCTAGGGTGACACGACTCTTACGTGATGAGGAGGTCTGGTCGGGGGATGACATTACTCA
* * *
990148 TACGTGATGAAGAGTTCTTGGCCATCTTTAGGAATGATGATAACTCGGTTCTTACGTGATGAAGA
66 TACGTGATGAAGAGTTCTTGGCCATCTTTAGGAATGATGATAACACGGTTCCTACATGATGAAGA
990213 CGGC
131 CGGC
* * *
990217 TGGTTATATAGGGTGACACGTCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACAT
1 TGGTTATCTAGGGTGACACGACTCTTACGTGATGAGGAGGTCTGGTCGGGGGATGACAT
990276 GGTTCCTACA
Statistics
Matches: 170, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
133 122 0.72
134 40 0.24
135 8 0.05
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (134 bp):
TGGTTATCTAGGGTGACACGACTCTTACGTGATGAGGAGGTCTGGTCGGGGGATGACATTACTCA
TACGTGATGAAGAGTTCTTGGCCATCTTTAGGAATGATGATAACACGGTTCCTACATGATGAAGA
CGGC
Found at i:990360 original size:28 final size:28
Alignment explanation
Indices: 990320--990399 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 28
990310 AGTGATTATG
** *
990320 GTTTCAAGGGAAACCGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
*
990348 GTTTCAAAAGAAACAGGCTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
* *
990376 GTTTCAAGAA-TAACAAACTCAAAG
1 GTTTCAA-AAGAAACAGACTCAAAG
990400 GTGATGTGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 42 0.95
29 2 0.05
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGACTCAAAGATTT
Found at i:990564 original size:67 final size:64
Alignment explanation
Indices: 990421--990593 Score: 172
Period size: 66 Copynumber: 2.7 Consensus size: 64
990411 CAAAAGTAAT
* *
990421 TGTCTCAAAAGAGACAAAA-TTG-TTTCAAGGGAAACGACTCAAAGATGGCGTTTAAAGGAAAT
1 TGTCTCAAAAGAGACAAAATTTGTTTTCAAGAGAAACGACTCAAAGATGGCGTTTAAAGGAAAG
** * * * * * *
990483 TGTCTCAAGCGAGACAAAATTTGTTTTTAAGATAAACGTTCTCAAAGATCGGTGTTTCATGGAAA
1 TGTCTCAAAAGAGACAAAATTTGTTTTCAAGAGAAACG-ACTCAAAGAT-GGCGTTTAAAGG-AA
990548 AG
63 AG
* * *
990550 TGTCTCAAATGAGACAAAATTCG-TTTCAAGGGAAACGATCTCAA
1 TGTCTCAAAAGAGACAAAATTTGTTTTCAAGAGAAACGA-CTCAA
990594 TGGTTGTTTG
Statistics
Matches: 88, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
62 17 0.19
63 3 0.03
64 11 0.12
65 9 0.10
66 25 0.28
67 23 0.26
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (64 bp):
TGTCTCAAAAGAGACAAAATTTGTTTTCAAGAGAAACGACTCAAAGATGGCGTTTAAAGGAAAG
Found at i:990897 original size:27 final size:28
Alignment explanation
Indices: 990867--990920 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
990857 TTTTATTAGT
990867 AGAAACA-ACCTCAAAGATTT-TTTCAAA
1 AGAAACATA-CTCAAAGATTTGTTTCAAA
990894 AGAAACATACTCAAAGATTTGTTTCAA
1 AGAAACATACTCAAAGATTTGTTTCAA
990921 GAACTGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (28 bp):
AGAAACATACTCAAAGATTTGTTTCAAA
Found at i:990948 original size:21 final size:21
Alignment explanation
Indices: 990924--990963 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
990914 GTTTCAAGAA
*
990924 CTGTCTCAAGAGAGACAAAAT
1 CTGTCTCAAGAGAAACAAAAT
* *
990945 CTGTTTTAAGAGAAACAAA
1 CTGTCTCAAGAGAAACAAA
990964 CTCAAAGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (21 bp):
CTGTCTCAAGAGAAACAAAAT
Found at i:991044 original size:67 final size:65
Alignment explanation
Indices: 990878--991058 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 65
990868 GAAACAACCT
* * *
990878 CAAAGATTT-TTTCAAAAGAAACATACTCAAAGA-TTTGTTTC-AAG-AACTGTCTCAAGAGAGA
1 CAAAAATTTGTTTCAAAAGAAACAAACTCAAAGATTTTTTTTCAAAGAAACTGTCTCAAGAGAGA
* * * *
990939 C-AAAATCTGTTTTAAGAGAAACAAACTCAAAGATTTTTTTTCTCGAAAGAAATTGTCTCAAGAG
1 CAAAAATTTGTTTCAAAAGAAACAAACTCAAAGA-TTTTTTT-TC-AAAGAAACTGTCTCAAGAG
991003 AGA
63 AGA
* *
991006 CAAAAATTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAAC
1 CAAAAATTTGTTTCAAAAGAAACAAACTCAAAGATTTTT-TTTC-AAAGAAAC
991059 GACTCAAAGA
Statistics
Matches: 97, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
60 5 0.05
61 22 0.23
63 5 0.05
64 2 0.02
66 3 0.03
67 31 0.32
68 29 0.30
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (65 bp):
CAAAAATTTGTTTCAAAAGAAACAAACTCAAAGATTTTTTTTCAAAGAAACTGTCTCAAGAGAGA
Found at i:991074 original size:30 final size:30
Alignment explanation
Indices: 991012--991073 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
991002 GAGACAAAAA
*
991012 TTTGTTTCCAAAGAAACAGACTCAAAGATT
1 TTTGTTTCAAAAGAAACAGACTCAAAGATT
991042 TTTGTTTCAAAAGAAAC-GACTCAAAGATT
1 TTTGTTTCAAAAGAAACAGACTCAAAGATT
991071 TTT
1 TTT
991074 TTCACGAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (30 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGATT
Found at i:991128 original size:129 final size:127
Alignment explanation
Indices: 990984--991356 Score: 296
Period size: 129 Copynumber: 2.9 Consensus size: 127
990974 TTTTTTCTCG
* *
990984 AAAGAAATTGTCTCAAGAGAGACAAAAATTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTT
1 AAAGAAATAGACTCAAGAGAG-C-AAAATTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTT
991049 CAAAAGAAACGACTCAAAGATTTTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
64 CAAAAGAAACGACTCAAAGATTTTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
* * * *
991113 AAAGAAATAGGCTCAAG-GATTGTTTTTCATGAAA-TTGTCT-C-AAG--AGAGA--CAAA-A-C
1 AAAGAAATAGACTCAAGAGA--G-----CA--AAATTTGTTTCCAAAGAAACAGACTCAAAGATT
* *
991168 TTTGTTTCAAAAGAAATAGACTCAAAGATTTTTTTTTCACTAAATTGTCTCAAGAGAGACAAAAC
57 TTTGTTTCAAAAGAAA-CGACTCAAAGA--TTTTTTTCACGAAATTGTCTCAAGAGAGACAAAAC
991233 TTTGTTTCA
119 TTTGTTTCA
* * * *
991242 AAAGAAACAGACTC-A-A-AG---ATTTTTTTTCTCAAAAGAAACA-ACTCAAAGATTTTT-ATT
1 AAAGAAATAGACTCAAGAGAGCAAAATTTGTTTC-C-AAAGAAACAGACTCAAAGATTTTTGTTT
* * * *
991299 CAAAAGGAACAGACTCAATAGATTTGTTTCAAAAGAAATTATCTCAAGAGAGACAAAA
64 CAAAAGAAAC-GACTCAA-AGATTTTTTTC--ACGAAATTGTCTCAAGAGAGACAAAA
991357 ATCGTTTTAA
Statistics
Matches: 195, Mismatches: 22, Indels: 58
0.71 0.08 0.21
Matches are distributed among these distances:
115 1 0.01
116 4 0.02
118 1 0.01
120 3 0.02
121 1 0.01
122 2 0.01
123 11 0.06
124 18 0.09
125 30 0.15
126 16 0.08
127 12 0.06
128 7 0.04
129 70 0.36
130 5 0.03
132 3 0.02
133 2 0.01
134 6 0.03
135 3 0.02
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (127 bp):
AAAGAAATAGACTCAAGAGAGCAAAATTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCA
AAAGAAACGACTCAAAGATTTTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
Found at i:991184 original size:37 final size:37
Alignment explanation
Indices: 991143--991248 Score: 86
Period size: 37 Copynumber: 3.1 Consensus size: 37
991133 TGTTTTTCAT
991143 GAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAA
1 GAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAA
* * ** * *
991180 GAAATAGACTC-A-A-AG----ATTTTTTTTTC--AC
1 GAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAA
*
991208 TAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAA
1 GAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAA
991245 GAAA
1 GAAA
991249 CAGACTCAAA
Statistics
Matches: 46, Mismatches: 14, Indels: 18
0.59 0.18 0.23
Matches are distributed among these distances:
28 9 0.20
29 1 0.02
30 9 0.20
31 2 0.04
34 2 0.04
35 9 0.20
36 1 0.02
37 13 0.28
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (37 bp):
GAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAA
Found at i:991206 original size:156 final size:158
Alignment explanation
Indices: 990884--991206 Score: 438
Period size: 156 Copynumber: 2.1 Consensus size: 158
990874 ACCTCAAAGA
*
990884 TTTTTTCAAAAGAAACATACTCAAAGATTTGTTTCAAGAACTGTCTCAAGAGAGACAAAATCTGT
1 TTTTTTCAAAAGAAACAGACTCAAAGATTTGTTTCAAGAACTGTCTCAAGAGAGACAAAATCTGT
* * *
990949 TTTAAGAGAAACAAACTCAAAGATTTTTTTTCTCGAAAGAAATTGTCTCAAGAGAGACAAAAATT
66 TTCAAAAGAAACAAACTCAAAGATTTGTTTTCTC-AAAGAAATTGTCTCAAGAGAGACAAAAATT
*
991014 TGTTTCCAAAGAAACAGACTCAAAGATTT
130 TGTTTCAAAAGAAACAGACTCAAAGATTT
* * * * *
991043 TTGTTTCAAAAGAAAC-GACTCAAAGATTTTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTT
1 TTTTTTCAAAAGAAACAGACTCAAAGATTTGTTTCAAG-AACTGTCTCAAGAGAGACAAAA-TCT
* ** * * *
991107 GTTTCAAAAGAAATAGGCTCAAGGA-TTGTTTT-TC-ATGAAATTGTCTCAAGAGAGACAAAACT
64 GTTTCAAAAGAAACAAACTCAAAGATTTGTTTTCTCAAAGAAATTGTCTCAAGAGAGACAAAAAT
*
991169 TTGTTTCAAAAGAAATAGACTCAAAGATTT
129 TTGTTTCAAAAGAAACAGACTCAAAGATTT
991199 TTTTTTCA
1 TTTTTTCA
991207 CTAAATTGTC
Statistics
Matches: 144, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
156 61 0.42
158 20 0.14
159 42 0.29
160 21 0.15
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (158 bp):
TTTTTTCAAAAGAAACAGACTCAAAGATTTGTTTCAAGAACTGTCTCAAGAGAGACAAAATCTGT
TTCAAAAGAAACAAACTCAAAGATTTGTTTTCTCAAAGAAATTGTCTCAAGAGAGACAAAAATTT
GTTTCAAAAGAAACAGACTCAAAGATTT
Found at i:991239 original size:65 final size:64
Alignment explanation
Indices: 991042--991269 Score: 363
Period size: 64 Copynumber: 3.6 Consensus size: 64
991032 CTCAAAGATT
* *
991042 TTTGTTTCAAAAGAAA-CGACTCAAAGA-TTTTTTTCACGAAATTGTCTCAAGAGAGACAAAAC
1 TTTGTTTCAAAAGAAATAGACTCAAAGATTTTTTTTCACTAAATTGTCTCAAGAGAGACAAAAC
* * *
991104 TTTGTTTCAAAAGAAATAGGCTCAAGGATTGTTTTTCA-TGAAATTGTCTCAAGAGAGACAAAAC
1 TTTGTTTCAAAAGAAATAGACTCAAAGATTTTTTTTCACT-AAATTGTCTCAAGAGAGACAAAAC
991168 TTTGTTTCAAAAGAAATAGACTCAAAGATTTTTTTTTCACTAAATTGTCTCAAGAGAGACAAAAC
1 TTTGTTTCAAAAGAAATAGACTCAAAGA-TTTTTTTTCACTAAATTGTCTCAAGAGAGACAAAAC
*
991233 TTTGTTTCAAAAGAAACAGACTCAAAGATTTTTTTTC
1 TTTGTTTCAAAAGAAATAGACTCAAAGATTTTTTTTC
991270 TCAAAAGAAA
Statistics
Matches: 152, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
62 16 0.11
63 8 0.05
64 67 0.44
65 60 0.39
66 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (64 bp):
TTTGTTTCAAAAGAAATAGACTCAAAGATTTTTTTTCACTAAATTGTCTCAAGAGAGACAAAAC
Found at i:991269 original size:29 final size:29
Alignment explanation
Indices: 991237--991336 Score: 132
Period size: 29 Copynumber: 3.4 Consensus size: 29
991227 CAAAACTTTG
991237 TTTCAAAAGAAACAGACTCAAAGATTTTTT
1 TTTCAAAAGAAACAGACTCAAAGA-TTTTT
991267 TTCTCAAAAGAAACA-ACTCAAAGATTTTT
1 TT-TCAAAAGAAACAGACTCAAAGATTTTT
* * *
991296 ATTCAAAAGGAACAGACTCAATAGA-TTTG
1 TTTCAAAAGAAACAGACTCAA-AGATTTTT
991325 TTTCAAAAGAAA
1 TTTCAAAAGAAA
991337 TTATCTCAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
28 11 0.18
29 25 0.40
30 14 0.23
31 12 0.19
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (29 bp):
TTTCAAAAGAAACAGACTCAAAGATTTTT
Found at i:994948 original size:20 final size:21
Alignment explanation
Indices: 994894--994956 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
994884 GATTCCCCTG
994894 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
994918 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
994938 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
994957 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:998806 original size:19 final size:19
Alignment explanation
Indices: 998765--998806 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
998755 GACTTATTTT
*
998765 ATTTTTAATTTGAAACATC
1 ATTTTTAATTTGAAACATA
*
998784 ATTTTTATATTTTAAA-ATA
1 ATTTTTA-ATTTGAAACATA
998803 ATTT
1 ATTT
998807 CTCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTTTTAATTTGAAACATA
Found at i:1000943 original size:15 final size:14
Alignment explanation
Indices: 1000925--1000985 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
1000915 TTCTTTGCTC
1000925 TTTTCTTTCGTTCTT
1 TTTTCTTT-GTTCTT
*
1000940 TTTTATTTGATT-TT
1 TTTTCTTTG-TTCTT
1000954 TTTCTCTTTGTTC-T
1 TTT-TCTTTGTTCTT
1000968 TTTTC-TT-TTCTT
1 TTTTCTTTGTTCTT
1000980 TTTTCT
1 TTTTCT
1000986 ATTTGCTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
11 3 0.08
12 8 0.21
13 2 0.05
14 12 0.31
15 14 0.36
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTTCTTTGTTCTT
Found at i:1001009 original size:44 final size:42
Alignment explanation
Indices: 1000908--1001009 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 42
1000898 CTTTGTCATC
* *
1000908 TTTTTTGT-TCTTTGCTCTTTTCTTTCGTTCTTTTTTATTTGA
1 TTTTTT-TCTCTTTGTTCTTTTCTTTCGTTCTTTTCTATTTGA
*
1000950 TTTTTTTCTCTTTGTTCTTTTTCTTTTC-TT-TTTTCTATTTGC
1 TTTTTTTCTCTTTGTTC-TTTTC-TTTCGTTCTTTTCTATTTGA
1000992 TCTTTATTTCTCTTTGTT
1 T-TTT-TTTCTCTTTGTT
1001010 TTGATTTGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
41 1 0.02
42 25 0.48
43 10 0.19
44 16 0.31
ACGTcount: A:0.04, C:0.16, G:0.07, T:0.74
Consensus pattern (42 bp):
TTTTTTTCTCTTTGTTCTTTTCTTTCGTTCTTTTCTATTTGA
Found at i:1001655 original size:20 final size:20
Alignment explanation
Indices: 1001616--1001657 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1001606 GGATAGATGC
*
1001616 AATGTTTCAAGGTCGGAAAG
1 AATGTTTCAAGGTCGCAAAG
* *
1001636 AATGTTTTAAGGTCTCAAAG
1 AATGTTTCAAGGTCGCAAAG
1001656 AA
1 AA
1001658 AGGGAATGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (20 bp):
AATGTTTCAAGGTCGCAAAG
Found at i:1002976 original size:75 final size:74
Alignment explanation
Indices: 1002853--1003003 Score: 259
Period size: 75 Copynumber: 2.0 Consensus size: 74
1002843 CAAGTCTCCT
*
1002853 TACTCTGAACTTCTTTCAGCCCTAGATGCTTCTCTGTGTATCGACAGCTTGATTGAAAACTTTTA
1 TACTCTGAACTTCTTTCAGCCCTAGATGCATCTCTGTGTATCGACAGCTTGATTGAAAAC-TTTA
1002918 CCCCTTCTTG
65 CCCCTTCTTG
*
1002928 TACTCTGAACTTCTTTCAGCCCTA-ATGCATGTCTGTGTATGCGACAGCTTGATTGAAAACTTTA
1 TACTCTGAACTTCTTTCAGCCCTAGATGCATCTCTGTGTAT-CGACAGCTTGATTGAAAACTTTA
1002992 CCCCTTCTTG
65 CCCCTTCTTG
1003002 TA
1 TA
1003004 AAAATTTTCT
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
74 30 0.41
75 43 0.59
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (74 bp):
TACTCTGAACTTCTTTCAGCCCTAGATGCATCTCTGTGTATCGACAGCTTGATTGAAAACTTTAC
CCCTTCTTG
Found at i:1004962 original size:76 final size:76
Alignment explanation
Indices: 1004836--1004989 Score: 290
Period size: 76 Copynumber: 2.0 Consensus size: 76
1004826 AGTCTCCTTA
*
1004836 TACTCTGAACTTCTTTCAGCCCTAGATGCTTCTCTGTGTATGCGACAGCTTGATTGAAAACTTTT
1 TACTCTGAACTTCTTTCAGCCCTAGATGCATCTCTGTGTATGCGACAGCTTGATTGAAAACTTTT
1004901 ACCCCTTCTTG
66 ACCCCTTCTTG
*
1004912 TACTCTGAACTTCTTTCAGCCCTAGATGCATGTCTGTGTATGCGACAGCTTGATTGAAAACTTTT
1 TACTCTGAACTTCTTTCAGCCCTAGATGCATCTCTGTGTATGCGACAGCTTGATTGAAAACTTTT
1004977 ACCCCTTCTTG
66 ACCCCTTCTTG
1004988 TA
1 TA
1004990 AAAATTTTCT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (76 bp):
TACTCTGAACTTCTTTCAGCCCTAGATGCATCTCTGTGTATGCGACAGCTTGATTGAAAACTTTT
ACCCCTTCTTG
Found at i:1019078 original size:2 final size:2
Alignment explanation
Indices: 1019071--1019118 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
1019061 TATTATTATC
* *
1019071 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1019113 AT AT AT
1 AT AT AT
1019119 TTGAATTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1026537 original size:97 final size:96
Alignment explanation
Indices: 1026388--1026566 Score: 216
Period size: 97 Copynumber: 1.9 Consensus size: 96
1026378 ATCTGATCAG
* * * ** * * * *
1026388 AAAATATATAATATCCCTCGACTCAAAATATATATATTTTCCATCTAACTCTGACTTCGACCTAA
1 AAAATATATAATAACCCCCGACTCAAAACATATATATTCCCCACCTAACTCTGAATCCGACCCAA
1026453 ATATTTAGAGTATAAATCCAACCCGGTCTTA
66 ATATTTAGAGTATAAATCCAACCCGGTCTTA
*
1026484 AAAATATATAATAACCACCCGACTCAAAACATATAT-TCTCCCCACCTAGCTCTGAATCCGACCC
1 AAAATATATAATAACC-CCCGACTCAAAACATATATAT-TCCCCACCTAACTCTGAATCCGACCC
* * *
1026548 GAATTTTTAGGGTATAAAT
64 AAATATTTAGAGTATAAAT
1026567 TCGACCCAAC
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
96 16 0.24
97 52 0.76
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.30
Consensus pattern (96 bp):
AAAATATATAATAACCCCCGACTCAAAACATATATATTCCCCACCTAACTCTGAATCCGACCCAA
ATATTTAGAGTATAAATCCAACCCGGTCTTA
Found at i:1031835 original size:20 final size:20
Alignment explanation
Indices: 1031812--1031861 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1031802 ACAGGTTCCA
*
1031812 AAATCGCAACGCGAATAGGT
1 AAATCGCAACGAGAATAGGT
* *
1031832 AAATCGCAACGATAATATGT
1 AAATCGCAACGAGAATAGGT
1031852 AAATCGCAAC
1 AAATCGCAAC
1031862 ACATAAGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGAGAATAGGT
Found at i:1032635 original size:14 final size:14
Alignment explanation
Indices: 1032616--1032654 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
1032606 GGTCATTAAC
1032616 GTTGCGAATTTCAA
1 GTTGCGAATTTCAA
* *
1032630 GTTGCGAAATTCGA
1 GTTGCGAATTTCAA
1032644 GTTGCGAATTT
1 GTTGCGAATTT
1032655 GGAGAATTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (14 bp):
GTTGCGAATTTCAA
Found at i:1032691 original size:20 final size:20
Alignment explanation
Indices: 1032666--1032712 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1032656 GAGAATTCGT
*
1032666 GTTGCGATTTACATATTATC
1 GTTGCGATTTACATATTAGC
* *
1032686 GTTGCGATTTACCTATTCGC
1 GTTGCGATTTACATATTAGC
1032706 GTTGCGA
1 GTTGCGA
1032713 ATTTCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (20 bp):
GTTGCGATTTACATATTAGC
Found at i:1032819 original size:20 final size:20
Alignment explanation
Indices: 1032790--1032850 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
1032780 GGAGAATTTG
*
1032790 CGTTGTGATTTACATATTAT
1 CGTTGAGATTTACATATTAT
* **
1032810 CGTTGAGATTTACTTATTCG
1 CGTTGAGATTTACATATTAT
* * *
1032830 CTTTGCGAATTACATATTAT
1 CGTTGAGATTTACATATTAT
1032850 C
1 C
1032851 ATTGCAATTT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
CGTTGAGATTTACATATTAT
Found at i:1032855 original size:20 final size:20
Alignment explanation
Indices: 1032799--1032859 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 20
1032789 GCGTTGTGAT
* * *
1032799 TTACATATTATCGTTGAGAT
1 TTACATATTATCATTGCGAA
* ** *
1032819 TTACTTATTCGCTTTGCGAA
1 TTACATATTATCATTGCGAA
1032839 TTACATATTATCATTGC-AA
1 TTACATATTATCATTGCGAA
1032858 TT
1 TT
1032860 TAACTATTCG
Statistics
Matches: 31, Mismatches: 10, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (20 bp):
TTACATATTATCATTGCGAA
Found at i:1032861 original size:40 final size:40
Alignment explanation
Indices: 1032789--1032880 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
1032779 TGGAGAATTT
* * *
1032789 GCGTTGTGATTTACATATTATCGTTGAGATTT-ACTTATTC
1 GCGTTGCGAATTACATATTATCATTGAGATTTAAC-TATTC
*
1032829 GCTTTGCGAATTACATATTATCATTGCA-ATTTAACTATTC
1 GCGTTGCGAATTACATATTATCATTG-AGATTTAACTATTC
1032869 GCGTTGCGAATT
1 GCGTTGCGAATT
1032881 TGACTTTGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
40 42 0.93
41 3 0.07
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (40 bp):
GCGTTGCGAATTACATATTATCATTGAGATTTAACTATTC
Found at i:1032911 original size:19 final size:20
Alignment explanation
Indices: 1032852--1032921 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1032842 CATATTATCA
*
1032852 TTGCAA-TTTAACTATTCGCG
1 TTGCAATTTTGACT-TTCGCG
*
1032872 TTGCGAA-TTTGACTTTGGCG
1 TTGC-AATTTTGACTTTCGCG
1032892 TTGCAATTTTGAC-TTCGCG
1 TTGCAATTTTGACTTTCGCG
*
1032911 TTGCGATTTTG
1 TTGCAATTTTG
1032922 GAACCTGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
19 17 0.39
20 19 0.43
21 8 0.18
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (20 bp):
TTGCAATTTTGACTTTCGCG
Found at i:1035274 original size:15 final size:15
Alignment explanation
Indices: 1035251--1035284 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1035241 AATTATTTTT
* *
1035251 AAATCTTAAATATAA
1 AAATATTAAAAATAA
1035266 AAATATTAAAAATAA
1 AAATATTAAAAATAA
1035281 AAAT
1 AAAT
1035285 TAAGTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATATTAAAAATAA
Found at i:1039562 original size:81 final size:81
Alignment explanation
Indices: 1039424--1039584 Score: 234
Period size: 81 Copynumber: 2.0 Consensus size: 81
1039414 CACTAGCCTT
*
1039424 TGAAATCATTATAGCCGCAGGCACCAAATACTAATATTGGGTAAAGGGGACAAGAGACAATGGGT
1 TGAAATCATTATAGCCGCAGGCACCAAATACTAATATTGGGTAAAGGGGACAAGAGACAATGGGC
*
1039489 AAGAGTGAGAGGGAGA
66 AAGAGGGAGAGGGAGA
* * * * *
1039505 TGAAATCATTTTAGTCGCCGAG-ACCAAATACTAATATTGGGTAAAGGGGATAGGAGACAATGGG
1 TGAAATCATTATAGCCGCAG-GCACCAAATACTAATATTGGGTAAAGGGGACAAGAGACAATGGG
*
1039569 CGAGAGGGAGAGGGAG
65 CAAGAGGGAGAGGGAG
1039585 GGGACGAGGG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 70 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.33, T:0.18
Consensus pattern (81 bp):
TGAAATCATTATAGCCGCAGGCACCAAATACTAATATTGGGTAAAGGGGACAAGAGACAATGGGC
AAGAGGGAGAGGGAGA
Found at i:1040996 original size:107 final size:108
Alignment explanation
Indices: 1040857--1041063 Score: 321
Period size: 107 Copynumber: 1.9 Consensus size: 108
1040847 TCATATATCT
* *
1040857 ACACTTTGCTGATACGGGTAACATTTTAACGTTTTAA-TTAATTTAAATTATTAGTAATTTAGTT
1 ACACTTTACTGATACGGGTAACATTTTAACGTTTTAATTTAATTT-AATTATTAATAA-TTAGTT
* * *
1040921 -ATTTATTTAATGCATGATTATTATATTAATAATTAAATATCTCG
64 GATTCATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
*
1040965 ACACTTTACTGATAC-GGTAATATTTTAACGTTTTAATTTAATTTAATTATTAATAATTAGTTGA
1 ACACTTTACTGATACGGGTAACATTTTAACGTTTTAATTTAATTTAATTATTAATAATTAGTTGA
1041029 TTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TTCATTTAATGCATGATTATTAGATTAAGAATTAA
1041064 TTTTTATAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
106 6 0.07
107 64 0.70
108 21 0.23
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (108 bp):
ACACTTTACTGATACGGGTAACATTTTAACGTTTTAATTTAATTTAATTATTAATAATTAGTTGA
TTCATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
Done.