Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_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: 6067759
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 31
Found at i:4169953 original size:10 final size:10
Alignment explanation
Indices: 4169940--4170004 Score: 62
Period size: 10 Copynumber: 6.4 Consensus size: 10
4169930 AAAATTCAGC
4169940 AAAAAAAAGG
1 AAAAAAAAGG
*
4169950 AAAAAACAAAAAG
1 --AAAA-AAAAGG
*
4169963 CAAAAAAAGG
1 AAAAAAAAGG
4169973 AAAAAAAAGG
1 AAAAAAAAGG
*
4169983 --AAAAAAGA
1 AAAAAAAAGG
4169991 AAAAAAAAGG
1 AAAAAAAAGG
4170001 AAAA
1 AAAA
4170005 TTGAATCAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 7 0.16
10 25 0.57
11 3 0.07
12 4 0.09
13 5 0.11
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:4172282 original size:114 final size:113
Alignment explanation
Indices: 4172082--4172412 Score: 554
Period size: 114 Copynumber: 2.9 Consensus size: 113
4172072 CACGTTCTCG
*
4172082 TAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGAAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
4172147 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTAA
66 GGTATGAA-CCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTAA
* *
4172196 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGAAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
4172261 GGTATGAACCCTAAAACCAATCATTGGATTTAAAAGATGAATTTGTTCA
66 GGTATGAACCC-AAAACCAATCATTGGATTTGAAAGATGAATTTGTTAA
*
4172310 TAGTAGAAATAAGAAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGAAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* * *
4172375 GGTAGGAATCCCAGAACCAATCATTGGAATTGAAAGAT
66 GGTATGAA-CCCAAAACCAATCATTGGATTTGAAAGAT
4172413 AAACTGCATG
Statistics
Matches: 203, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
113 3 0.01
114 197 0.97
115 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (113 bp):
TAGTAGAAATAAGAAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGTATGAACCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTAA
Found at i:4174827 original size:22 final size:23
Alignment explanation
Indices: 4174776--4174831 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
4174766 ATCTACACTC
*
4174776 TTCAAAGATGATAGATTCCCTTT
1 TTCAAAGATGACAGATTCCCTTT
* *
4174799 TTTAAAGATGACAGATTCTC-TT
1 TTCAAAGATGACAGATTCCCTTT
4174821 TTCAAAGATGA
1 TTCAAAGATGA
4174832 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (23 bp):
TTCAAAGATGACAGATTCCCTTT
Found at i:4175657 original size:165 final size:167
Alignment explanation
Indices: 4175346--4175669 Score: 537
Period size: 165 Copynumber: 2.0 Consensus size: 167
4175336 AAAATGAGCA
*
4175346 TTATCTTCAGATTGGGTCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
1 TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
**
4175411 ATTTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
66 ATTTTCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
* *
4175476 CTTAGTTTTTTTACTTAGTAAACTATTTCTAACAACC
131 CATAGTTTTCTTACTTAGTAAACTATTTCTAACAACC
* ** *
4175513 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAA-ATAATGAGAAAACG
1 TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
4175576 ATTTTCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
66 ATTTTCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
4175641 TCATAG-TTTCTTACTTAGTAAACTATTTC
130 TCATAGTTTTCTTACTTAGTAAACTATTTC
4175670 CCACATCTGT
Statistics
Matches: 147, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
165 63 0.43
166 43 0.29
167 41 0.28
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (167 bp):
TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
ATTTTCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
CATAGTTTTCTTACTTAGTAAACTATTTCTAACAACC
Found at i:4176116 original size:76 final size:76
Alignment explanation
Indices: 4175673--4176082 Score: 739
Period size: 76 Copynumber: 5.4 Consensus size: 76
4175663 CTATTTCCCA
4175673 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
4175738 AGCCTTAGGAT
66 AGCCTTAGGGT
*
4175749 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4175814 AGCCTTAGGGT
66 AGCCTTAGGGT
4175825 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4175890 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
4175901 CATCAGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATTTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
4175966 AACCTTAGGGT
66 AGCCTTAGGGT
* *
4175977 CATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
4176042 AACCTTAGGGT
66 AGCCTTAGGGT
4176053 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
4176083 TTAAGACCTC
Statistics
Matches: 321, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 321 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:4176244 original size:3 final size:3
Alignment explanation
Indices: 4176236--4176319 Score: 75
Period size: 3 Copynumber: 28.0 Consensus size: 3
4176226 TTTTACTTAA
** *
4176236 ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
* *
4176282 A-T ATAT ATAT ATT A-T ATT ATT ATT A-A ATA ATT ATT ATT
1 ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4176320 TACAAACAGG
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
2 5 0.07
3 54 0.79
4 9 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:4176274 original size:16 final size:15
Alignment explanation
Indices: 4176238--4176319 Score: 68
Period size: 14 Copynumber: 5.7 Consensus size: 15
4176228 TTACTTAAAT
** *
4176238 TATTATTAAAATTAT
1 TATTATTATTATTAA
4176253 TATTATTATTATTAAA
1 TATTATTATTATT-AA
4176269 TATTATTATTATT-A
1 TATTATTATTATTAA
4176283 TA-TA-TATATATT-A
1 TATTATTAT-TATTAA
4176296 TATTATTATTA--AA
1 TATTATTATTATTAA
4176309 TAATTATTATT
1 T-ATTATTATT
4176320 TACAAACAGG
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
12 3 0.05
13 11 0.19
14 16 0.28
15 14 0.24
16 14 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATTATTATTAA
Found at i:4176276 original size:22 final size:22
Alignment explanation
Indices: 4176236--4176319 Score: 115
Period size: 22 Copynumber: 4.0 Consensus size: 22
4176226 TTTTACTTAA
4176236 ATTATTATTAAA-ATTATTATT
1 ATTATTATTAAATATTATTATT
4176257 ATTATTATTAAATATTATTATT
1 ATTATTATTAAATATTATTATT
*
4176279 ATTA-TA-TATATA-TATTA-T
1 ATTATTATTAAATATTATTATT
4176297 ATTATTATTAAATAATTATTATT
1 ATTATTATTAAAT-ATTATTATT
4176320 TACAAACAGG
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.09
19 7 0.13
20 9 0.16
21 15 0.27
22 18 0.33
23 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTATTATTAAATATTATTATT
Found at i:4177612 original size:15 final size:15
Alignment explanation
Indices: 4177592--4177662 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
4177582 ATCCATTAGT
4177592 TTTTAATATTATTAC
1 TTTTAATATTATTAC
* *
4177607 TTTTAAT-TTCTTTC
1 TTTTAATATTATTAC
4177621 ATTTTAATTATTATTA-
1 -TTTTAA-TATTATTAC
*
4177637 TTTTATTTTATTATTAC
1 TTTTA--ATATTATTAC
*
4177654 GTTTAATAT
1 TTTTAATAT
4177663 ATGTTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
14 5 0.12
15 21 0.49
16 9 0.21
17 8 0.19
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (15 bp):
TTTTAATATTATTAC
Found at i:4177726 original size:14 final size:15
Alignment explanation
Indices: 4177709--4177741 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4177699 TATTATTAAG
4177709 TTATATAA-ATATAT
1 TTATATAATATATAT
*
4177723 TTATATAATATTTAT
1 TTATATAATATATAT
4177738 TTAT
1 TTAT
4177742 TTATTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATAATATATAT
Found at i:4178140 original size:17 final size:15
Alignment explanation
Indices: 4178110--4178143 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
4178100 AAATTATAGT
4178110 AATAAATTTAAATTA
1 AATAAATTTAAATTA
4178125 AATAGAATTATAAATTA
1 AATA-AATT-TAAATTA
4178142 AA
1 AA
4178144 CATATCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AATAAATTTAAATTA
Found at i:4188852 original size:21 final size:21
Alignment explanation
Indices: 4188798--4188921 Score: 81
Period size: 21 Copynumber: 5.8 Consensus size: 21
4188788 ATATAAAATT
* *
4188798 TCCCGAAGGACCACATAGATTTG
1 TCCCAAAGGACCACAT--ATATG
* *
4188821 TACCTAAGGACCACATATATG
1 TCCCAAAGGACCACATATATG
* *
4188842 TTCCAAAGGACCAAATATATG
1 TCCCAAAGGACCACATATATG
* * *
4188863 TCCCGAAGGA-TAGTATATATG
1 TCCCAAAGGACCA-CATATATG
* * *
4188884 T-TCAGAATGATCACATATATG
1 TCCCA-AAGGACCACATATATG
*
4188905 TCCCGAAGGACCACATA
1 TCCCAAAGGACCACATA
4188922 GAACCCTCGA
Statistics
Matches: 78, Mismatches: 19, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.03
21 60 0.77
22 2 0.03
23 14 0.18
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (21 bp):
TCCCAAAGGACCACATATATG
Found at i:4188881 original size:42 final size:42
Alignment explanation
Indices: 4188835--4188914 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
4188825 TAAGGACCAC
4188835 ATATATGTTCCA-AAGGACCAAATATATGTCCCGAAGGATAGT
1 ATATATGTT-CAGAAGGACCAAATATATGTCCCGAAGGATAGT
* * *
4188877 ATATATGTTCAGAATGATCACATATATGTCCCGAAGGA
1 ATATATGTTCAGAAGGACCAAATATATGTCCCGAAGGA
4188915 CCACATAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (42 bp):
ATATATGTTCAGAAGGACCAAATATATGTCCCGAAGGATAGT
Found at i:4191119 original size:6 final size:6
Alignment explanation
Indices: 4191110--4191139 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
4191100 CTGATTTATT
*
4191110 CCTCTA CCTCTA CCTCTA CCTCTA CTTCTA
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA
4191140 ATTTTCTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.47, G:0.00, T:0.37
Consensus pattern (6 bp):
CCTCTA
Found at i:4191380 original size:16 final size:16
Alignment explanation
Indices: 4191359--4191390 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4191349 CATAGTCTGA
4191359 GTTTGAGAATCAAAAT
1 GTTTGAGAATCAAAAT
*
4191375 GTTTGAGGATCAAAAT
1 GTTTGAGAATCAAAAT
4191391 CTCTACTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (16 bp):
GTTTGAGAATCAAAAT
Found at i:4193132 original size:21 final size:21
Alignment explanation
Indices: 4193097--4193199 Score: 118
Period size: 21 Copynumber: 4.9 Consensus size: 21
4193087 TACATAGATT
* *
4193097 TGTCCCGAAGGACCACATATA
1 TGTCCCAAATGACCACATATA
* *
4193118 TGTTCCAAATGACCAAATATA
1 TGTCCCAAATGACCACATATA
* *
4193139 TGTCCCGAATGACCGCATATA
1 TGTCCCAAATGACCACATATA
* *
4193160 TGTTCCAAATGATCACATATA
1 TGTCCCAAATGACCACATATA
4193181 TGTCCCGAAA-GACCACATA
1 TGTCCC-AAATGACCACATA
4193200 AAACCTTCGA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
21 64 0.96
22 3 0.04
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (21 bp):
TGTCCCAAATGACCACATATA
Found at i:4193158 original size:42 final size:42
Alignment explanation
Indices: 4193097--4193199 Score: 161
Period size: 42 Copynumber: 2.5 Consensus size: 42
4193087 TACATAGATT
*
4193097 TGTCCCGAAGGACCACATATATGTTCCAAATGACCAAATATA
1 TGTCCCGAAAGACCACATATATGTTCCAAATGACCAAATATA
* * * *
4193139 TGTCCCGAATGACCGCATATATGTTCCAAATGATCACATATA
1 TGTCCCGAAAGACCACATATATGTTCCAAATGACCAAATATA
4193181 TGTCCCGAAAGACCACATA
1 TGTCCCGAAAGACCACATA
4193200 AAACCTTCGA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (42 bp):
TGTCCCGAAAGACCACATATATGTTCCAAATGACCAAATATA
Found at i:4193160 original size:23 final size:21
Alignment explanation
Indices: 4193064--4193195 Score: 93
Period size: 21 Copynumber: 6.1 Consensus size: 21
4193054 GCACTGAGTG
* *
4193064 CCATATAAAATGTTCCGAATGA
1 CCATAT-ATATGTCCCGAATGA
* * *
4193086 CTACATAGATTTGTCCCGAAGGA
1 C--CATATATATGTCCCGAATGA
* * *
4193109 CCACATATATGTTCCAAATGA
1 CCATATATATGTCCCGAATGA
*
4193130 CCAAATATATGTCCCGAATGA
1 CCATATATATGTCCCGAATGA
** * *
4193151 CCGCATATATGTTCCAAATGA
1 CCATATATATGTCCCGAATGA
* * *
4193172 TCACATATATGTCCCGAAAGA
1 CCATATATATGTCCCGAATGA
4193193 CCA
1 CCA
4193196 CATAAAACCT
Statistics
Matches: 84, Mismatches: 24, Indels: 5
0.74 0.21 0.04
Matches are distributed among these distances:
21 67 0.80
22 1 0.01
23 12 0.14
24 4 0.05
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (21 bp):
CCATATATATGTCCCGAATGA
Found at i:4195729 original size:31 final size:30
Alignment explanation
Indices: 4195648--4195739 Score: 87
Period size: 31 Copynumber: 3.0 Consensus size: 30
4195638 AGCTACGTGG
* *
4195648 TATTAACATAAGTGATTATATGAAC-ATGTAA
1 TATTAAC-TACGTGATTATATG-ACTATGTGA
* * * *
4195679 TATTAGCTATGTGTTTATATGTCTATGTGA
1 TATTAACTACGTGATTATATGACTATGTGA
*
4195709 TATTGAACTACGTGATTATATGAATATGTGA
1 TATT-AACTACGTGATTATATGACTATGTGA
4195740 AATGTGTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 1 0.02
30 21 0.43
31 27 0.55
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (30 bp):
TATTAACTACGTGATTATATGACTATGTGA
Found at i:4195870 original size:23 final size:22
Alignment explanation
Indices: 4195816--4195871 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
4195806 AGTCGAGGGT
* * *
4195816 TCTATGCGGTCCTTTGGGACAA
1 TCTATGTGGTCCTTAGGGAAAA
*
4195838 TACTAAGTGGTCCTTAGGGATAAA
1 T-CTATGTGGTCCTTAGGGA-AAA
4195862 TCTATGTGGT
1 TCTATGTGGT
4195872 ATTTCGGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.04
23 23 0.85
24 3 0.11
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (22 bp):
TCTATGTGGTCCTTAGGGAAAA
Found at i:4195917 original size:23 final size:23
Alignment explanation
Indices: 4195832--4195939 Score: 62
Period size: 23 Copynumber: 4.7 Consensus size: 23
4195822 CGGTCCTTTG
* *
4195832 GGACAATACTAAGTGGTCCTT-A
1 GGACAATACTATGTGGTCATTCA
* *
4195854 GGGATAA-ATCTATGTGGT-ATTTCG
1 -GGACAATA-CTATGTGGTCA-TTCA
* *
4195878 GGACAA-ACTTTTTTGGTCATTCA
1 GGACAATAC-TATGTGGTCATTCA
* *
4195901 GGACAATACTATGTGGTTATTCG
1 GGACAATACTATGTGGTCATTCA
* *
4195924 GGACATTTCTATGTGG
1 GGACAATACTATGTGG
4195940 CACTTCGGTA
Statistics
Matches: 65, Mismatches: 14, Indels: 12
0.71 0.15 0.13
Matches are distributed among these distances:
22 2 0.03
23 60 0.92
24 3 0.05
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (23 bp):
GGACAATACTATGTGGTCATTCA
Found at i:4201134 original size:23 final size:23
Alignment explanation
Indices: 4201108--4201202 Score: 95
Period size: 23 Copynumber: 4.1 Consensus size: 23
4201098 GTTCTATGCA
* *
4201108 GTCCTTCGGGACAATA-CTATATG
1 GTCCTTCGAGACAA-ACCTATGTG
* *
4201131 GTCCTTCGGGACAAATCTATGTG
1 GTCCTTCGAGACAAACCTATGTG
*
4201154 GTCCTTCAAGACAAACCTATGTG
1 GTCCTTCGAGACAAACCTATGTG
* *
4201177 GTCATTCGAGATAATA-CTATGTG
1 GTCCTTCGAGACAA-ACCTATGTG
4201200 GTC
1 GTC
4201203 ATTCTAAACA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
22 1 0.02
23 61 0.97
24 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (23 bp):
GTCCTTCGAGACAAACCTATGTG
Found at i:4201219 original size:23 final size:23
Alignment explanation
Indices: 4201118--4201223 Score: 74
Period size: 23 Copynumber: 4.6 Consensus size: 23
4201108 GTCCTTCGGG
* * **
4201118 ACAATACTATATGGTCCTTCGGG
1 ACAATACTATGTGGTCATTCGAA
*
4201141 ACAA-ATCTATGTGGTCCTTC-AA
1 ACAATA-CTATGTGGTCATTCGAA
*
4201163 GACAA-ACCTATGTGGTCATTCGAG
1 -ACAATA-CTATGTGGTCATTCGAA
* *
4201187 ATAATACTATGTGGTCATTCTAA
1 ACAATACTATGTGGTCATTCGAA
* *
4201210 ACATTTCTATGTGG
1 ACAATACTATGTGG
4201224 CACTTCGGTG
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.01
23 64 0.96
24 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (23 bp):
ACAATACTATGTGGTCATTCGAA
Found at i:4201424 original size:12 final size:12
Alignment explanation
Indices: 4201407--4201434 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4201397 TATATGCTTT
4201407 TGTTATATGAGG
1 TGTTATATGAGG
4201419 TGTTATATGAGG
1 TGTTATATGAGG
4201431 TGTT
1 TGTT
4201435 CCATGGTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.46
Consensus pattern (12 bp):
TGTTATATGAGG
Found at i:4206867 original size:20 final size:20
Alignment explanation
Indices: 4206815--4206867 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
4206805 GGTTAAGGGA
* *
4206815 TGCATCGATACACTGTAGAG
1 TGCATCGATACATTATAGAG
4206835 TGCATCGATACATTATAGAG
1 TGCATCGATACATTATAGAG
4206855 TGCATCGATACAT
1 TGCATCGATACAT
4206868 ACCTTCAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCATCGATACATTATAGAG
Found at i:4207433 original size:21 final size:22
Alignment explanation
Indices: 4207407--4207462 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
4207397 GTCTAGGGTT
4207407 TCATAGGTCCTTCGGGACA-AC
1 TCATAGGTCCTTCGGGACATAC
* *
4207428 TCATAGGTCATTCGGGACATAT
1 TCATAGGTCCTTCGGGACATAC
*
4207450 TCACAGGTCCTTC
1 TCATAGGTCCTTC
4207463 AAGACAAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (22 bp):
TCATAGGTCCTTCGGGACATAC
Found at i:4215309 original size:13 final size:13
Alignment explanation
Indices: 4215287--4215316 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4215277 ACTAAGCACC
4215287 TTTC-ACATACCT
1 TTTCAACATACCT
4215299 TTTCAACATACCT
1 TTTCAACATACCT
4215312 TTTCA
1 TTTCA
4215317 TTTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:4218491 original size:30 final size:30
Alignment explanation
Indices: 4218389--4218480 Score: 157
Period size: 30 Copynumber: 3.1 Consensus size: 30
4218379 CCCGAAGGAC
* *
4218389 CTATCCAGAGGTCATAAAGATCATCGGTAA
1 CTATCCAAAGGTCATAAAGATCCTCGGTAA
4218419 CTATCCAAAGGTCATAAAGATCCTCGGTAA
1 CTATCCAAAGGTCATAAAGATCCTCGGTAA
*
4218449 CTATCTAAAGGTCATAAAGATCCTCGGTAA
1 CTATCCAAAGGTCATAAAGATCCTCGGTAA
4218479 CT
1 CT
4218481 GTCCGTAGGT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (30 bp):
CTATCCAAAGGTCATAAAGATCCTCGGTAA
Found at i:4219869 original size:13 final size:13
Alignment explanation
Indices: 4219851--4219885 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
4219841 CTCACGTATG
4219851 AAGAAGAAAAAGA
1 AAGAAGAAAAAGA
*
4219864 AAGAAGAAGAAGA
1 AAGAAGAAAAAGA
4219877 AAGAAGAAA
1 AAGAAGAAA
4219886 GCTCTGGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAAAGA
Found at i:4220650 original size:18 final size:18
Alignment explanation
Indices: 4220605--4220650 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
4220595 TACATAACTA
*
4220605 AATTC-TTAT-TCCAATT
1 AATTCTTTATATCAAATT
*
4220621 AATTTCTCTATATCAAATT
1 AA-TTCTTTATATCAAATT
4220640 AATTCTTTATA
1 AATTCTTTATA
4220651 AATCACCATC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.08
17 3 0.12
18 11 0.46
19 8 0.33
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTCTTTATATCAAATT
Found at i:4221115 original size:2 final size:2
Alignment explanation
Indices: 4221108--4221135 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4221098 CTGATCACAA
4221108 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
4221136 TCCCCAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4223799 original size:31 final size:31
Alignment explanation
Indices: 4223764--4223828 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
4223754 GATCCTCGGT
*
4223764 AACTGTCCATAGGTACCGAAGAACCTAGGTA
1 AACTGTCCATAGGTACCGAAGAACATAGGTA
* * * **
4223795 AACTGTCTATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATAGGTACCGAAGAACATAGGTA
4223826 AAC
1 AAC
4223829 CCTCGACTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATAGGTACCGAAGAACATAGGTA
Found at i:4225898 original size:25 final size:25
Alignment explanation
Indices: 4225870--4225927 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
4225860 ATTTCTTTTC
* *
4225870 TTTTC-TTTCTTTTTGAGTTCTTGAA
1 TTTTCTTTTC-TTTTGAGTGCTTCAA
4225895 TTTTCTTATTCTTTTGAGTGCTTCAA
1 TTTTCTT-TTCTTTTGAGTGCTTCAA
4225921 -TTTCTTT
1 TTTTCTTT
4225928 GCTGAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 1 0.03
25 11 0.38
26 14 0.48
27 3 0.10
ACGTcount: A:0.12, C:0.14, G:0.10, T:0.64
Consensus pattern (25 bp):
TTTTCTTTTCTTTTGAGTGCTTCAA
Found at i:4234549 original size:29 final size:29
Alignment explanation
Indices: 4234511--4234579 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
4234501 TTTTGTTAAG
4234511 TCCTCCGACTATTAAAAGATACAAAATGA
1 TCCTCCGACTATTAAAAGATACAAAATGA
* * *
4234540 TCCTCTGACTATTAGAAGTTACAAAATGA
1 TCCTCCGACTATTAAAAGATACAAAATGA
*
4234569 TCC-CCCACTAT
1 TCCTCCGACTAT
4234580 AGGGAGTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 6 0.17
29 29 0.83
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (29 bp):
TCCTCCGACTATTAAAAGATACAAAATGA
Found at i:4237630 original size:18 final size:18
Alignment explanation
Indices: 4237607--4237646 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
4237597 GATTATCCCC
4237607 CTTTCGAATGTACATTGG
1 CTTTCGAATGTACATTGG
4237625 CTTTCGAATGTACATTGG
1 CTTTCGAATGTACATTGG
4237643 CTTT
1 CTTT
4237647 TGGTTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (18 bp):
CTTTCGAATGTACATTGG
Found at i:4256900 original size:29 final size:29
Alignment explanation
Indices: 4256867--4256929 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
4256857 CTTCCTTCTT
4256867 TTTCTCTCATTTTTCCCTTCAACATTCAA
1 TTTCTCTCATTTTTCCCTTCAACATTCAA
*
4256896 TTTCTCTCCTTTTTCCCTTCAACATTCAA
1 TTTCTCTCATTTTTCCCTTCAACATTCAA
4256925 TTTCT
1 TTTCT
4256930 TCTCTATTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.17, C:0.32, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTCTCTCATTTTTCCCTTCAACATTCAA
Found at i:4265759 original size:24 final size:24
Alignment explanation
Indices: 4265732--4265849 Score: 166
Period size: 24 Copynumber: 4.9 Consensus size: 24
4265722 TTCGATTTGA
4265732 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
4265756 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* *
4265780 ATTTTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
4265804 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* * *
4265828 ATTTTGTTATGATACTTGACAT
1 ATTCTGATCTGATACTTGACAT
4265850 TAAATTATGT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 82 0.98
25 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:4266030 original size:43 final size:43
Alignment explanation
Indices: 4265969--4266061 Score: 168
Period size: 43 Copynumber: 2.2 Consensus size: 43
4265959 GCCTTACTTT
*
4265969 GTGTGTTGGTGGGTGTATGGTTCTGGGGAACCTACACATTATG
1 GTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTATG
4266012 GTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTATG
1 GTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTATG
*
4266055 GCGTGTT
1 GTGTGTT
4266062 CGGTTGGAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.16, C:0.12, G:0.37, T:0.35
Consensus pattern (43 bp):
GTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTATG
Found at i:4292960 original size:17 final size:18
Alignment explanation
Indices: 4292921--4292968 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
4292911 TGTTTCTAAG
4292921 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
4292939 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
4292956 GGAATTGGAATCT
1 GGAATTGGAATCT
4292969 AATTTCATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:4293700 original size:240 final size:230
Alignment explanation
Indices: 4293387--4293825 Score: 673
Period size: 240 Copynumber: 1.9 Consensus size: 230
4293377 TTAGAAATCT
* *
4293387 GACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAATAGTGACTTAATTAAAAATATATATA
1 GACCCAAAATAATAAAAAAATATTTTTATTCAATAAAAACAG-GACTTAATTAAAAATATATATA
* * *
4293452 TAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTACAATTATATATTTTTTGGGTCGGGTC
65 AAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA-TATTT---TCGGGTC
*
4293517 GGGTATTTTTCACCCTAAACCCGAACCCTACCCGACCCCGAATATCACACTTAAAAAAACCAACC
126 GGGTATTTTTCACCCTAAACCCGAACCCGACCCGA-CCCGAATATCACACTTAAAAAAA-CAACC
*
4293582 TGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCC
189 CGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCC
4293624 GACCCAAAATAATAAAAAAATTATTTTTATTCAATAAAAACA-GACTTAATTGAAAAAAATTATA
1 GACCCAAAATAATAAAAAAA-TATTTTTATTCAATAAAAACAGGACTTAATT---AAAAA-TATA
*
4293688 TATAAAGGGGTATTATTGTAATTATTCTTAAATATATAAGGTAAAATTATATATATTTTCGGGTC
61 TATAAAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTC
* *
4293753 GGGTATTTTTCACCCTAAACCCGAACTCGACCCGACCCGAATATCACACTTAAAAAAACGACCCG
126 GGGTATTTTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAAAACAACCCG
4293818 ACCCGACC
191 ACCCGACC
4293826 AAAATAAAGT
Statistics
Matches: 187, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
234 13 0.07
235 23 0.12
236 49 0.26
237 19 0.10
238 20 0.11
239 9 0.05
240 54 0.29
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (230 bp):
GACCCAAAATAATAAAAAAATATTTTTATTCAATAAAAACAGGACTTAATTAAAAATATATATAA
AGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTA
TTTTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAAAACAACCCGACCCG
ACCCGAATATATGAATTAGAAATCCGACCCGACCC
Found at i:4296698 original size:19 final size:20
Alignment explanation
Indices: 4296671--4296711 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
4296661 GTCCGCCTAT
4296671 TGAAACTAT-T-CTTATAACA
1 TGAAACTATGTACTT-TAACA
*
4296690 TGAATCTATGTACTTTAACA
1 TGAAACTATGTACTTTAACA
4296710 TG
1 TG
4296712 TAATAACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 8 0.42
20 8 0.42
21 3 0.16
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (20 bp):
TGAAACTATGTACTTTAACA
Found at i:4298070 original size:61 final size:60
Alignment explanation
Indices: 4297963--4298151 Score: 152
Period size: 61 Copynumber: 3.1 Consensus size: 60
4297953 CATATGTTCT
* * * * * * * * *
4297963 CAAAGTATGACTTTTATTTTAAATTGGTTCCTAAACTTTTAAATATTCTACTTTTATCCC
1 CAAACTATGACTATCATTCTAAATTAGTTCCTAAACATTCAAATATTCTAATTTCATCCC
* *
4298023 TAAACATATGACTATCATTCTAAATTAG-TCCTCAAACATTCAAATATTTTAATTTCATCCC
1 CAAAC-TATGACTATCATTCTAAATTAGTTCCT-AAACATTCAAATATTCTAATTTCATCCC
* ** * * *
4298084 CAAACTATAAC-ATTCATTCTAAATTAGCCCCCCAAACATTTTAAACATTCTAATTTCAT--C
1 CAAACTATGACTA-TCATTCTAAATTAG-TTCCTAAACA-TTCAAATATTCTAATTTCATCCC
4298144 CAAACTAT
1 CAAACTAT
4298152 ACGTAATATA
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
59 1 0.01
60 35 0.33
61 50 0.48
62 19 0.18
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.39
Consensus pattern (60 bp):
CAAACTATGACTATCATTCTAAATTAGTTCCTAAACATTCAAATATTCTAATTTCATCCC
Found at i:4298109 original size:60 final size:60
Alignment explanation
Indices: 4298037--4298152 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 60
4298027 CATATGACTA
* * * *
4298037 TCATTCTAAATTAG-TCCTCAAACA-TTCAAATATTTTAATTTCATCCCCAAACTATAACAT
1 TCATTCTAAATTAGCCCCCCAAACATTTCAAACATTCTAATTTCAT--CCAAACTATAACAT
*
4298097 TCATTCTAAATTAGCCCCCCAAACATTTTAAACATTCTAATTTCATCCAAACTATA
1 TCATTCTAAATTAGCCCCCCAAACATTTCAAACATTCTAATTTCATCCAAACTATA
4298153 CGTAATATAC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 24 0.49
61 8 0.16
62 17 0.35
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (60 bp):
TCATTCTAAATTAGCCCCCCAAACATTTCAAACATTCTAATTTCATCCAAACTATAACAT
Found at i:4298370 original size:60 final size:59
Alignment explanation
Indices: 4298301--4298453 Score: 166
Period size: 60 Copynumber: 2.5 Consensus size: 59
4298291 AAAGTTTGGG
* * *
4298301 GACCGATTTAGAAAAAGAGTCATAGTTTAGGGATGAAA-TT-GAAATATTTAAAAGTTTAAA
1 GACCAATTTA-AAAAAGAGTTATAGTTTAGGGAT-AAAGTTAG-AATATGTAAAAGTTTAAA
* * * * *
4298361 GACTAATTTAAAATGAGAGTTGTAATTTAAGGATAAAGTTAGAATATGTAAAAGTTTAAA
1 GACCAATTTAAAA-AAGAGTTATAGTTTAGGGATAAAGTTAGAATATGTAAAAGTTTAAA
*
4298421 GACCAATTTTAAAAAAGAGTTATAGTTCAGGGA
1 GACCAA-TTTAAAAAAGAGTTATAGTTTAGGGA
4298454 CATATGATCA
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
59 6 0.08
60 61 0.81
61 8 0.11
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.31
Consensus pattern (59 bp):
GACCAATTTAAAAAAGAGTTATAGTTTAGGGATAAAGTTAGAATATGTAAAAGTTTAAA
Found at i:4299120 original size:2 final size:2
Alignment explanation
Indices: 4299109--4299155 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
4299099 CGTAAAAGTA
4299109 AT AT -T 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 AT AT
4299150 AT AT AT
1 AT AT AT
4299156 TTAGGTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4299285 original size:18 final size:19
Alignment explanation
Indices: 4299264--4299306 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
4299254 TATTTTTAAA
*
4299264 TATATTTTTAACAT-TTTT
1 TATATTTTTAAAATATTTT
*
4299282 TATAATTTTAAAATATTTT
1 TATATTTTTAAAATATTTT
4299301 TA-ATTT
1 TATATTT
4299307 CTTTACGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TATATTTTTAAAATATTTT
Found at i:4299297 original size:29 final size:29
Alignment explanation
Indices: 4299247--4299303 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
4299237 CGTTACGAAG
*
4299247 ATTTTTTTATTTTTAAATATATTTTTAAC
1 ATTTTTTTAATTTTAAATATATTTTTAAC
4299276 ATTTTTTATAATTTTAAA-ATATTTTTAA
1 ATTTTTT-TAATTTTAAATATATTTTTAA
4299304 TTTCTTTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (29 bp):
ATTTTTTTAATTTTAAATATATTTTTAAC
Found at i:4301354 original size:34 final size:32
Alignment explanation
Indices: 4301298--4301367 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
4301288 TTATAAAATT
* *
4301298 ATAAATATAATTCAATATTAATTAAAAATAAC
1 ATAAATATAATTAAATATTAATTAAAAATAAA
4301330 ATAAATATAATTTTAAATATTAATTAAAAATAAA
1 ATAAATATAA--TTAAATATTAATTAAAAATAAA
4301364 ATAA
1 ATAA
4301368 TAATAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 10 0.29
34 24 0.71
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (32 bp):
ATAAATATAATTAAATATTAATTAAAAATAAA
Found at i:4304583 original size:16 final size:16
Alignment explanation
Indices: 4304562--4304600 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4304552 GGTATTACTC
* *
4304562 GACCTGTTTTCAACCT
1 GACCTGTTATCAACAT
*
4304578 GACCTGTTATGAACAT
1 GACCTGTTATCAACAT
4304594 GACCTGT
1 GACCTGT
4304601 AATTGACTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (16 bp):
GACCTGTTATCAACAT
Found at i:4304645 original size:16 final size:16
Alignment explanation
Indices: 4304624--4304654 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4304614 TGTAAATGAC
*
4304624 CTGATTTGTTATTTAA
1 CTGATTTGGTATTTAA
4304640 CTGATTTGGTATTTA
1 CTGATTTGGTATTTA
4304655 CTTGACTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.55
Consensus pattern (16 bp):
CTGATTTGGTATTTAA
Found at i:4304834 original size:18 final size:18
Alignment explanation
Indices: 4304813--4304851 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4304803 TAATTGAAAT
*
4304813 TATTAAATTA-GATTCTTA
1 TATT-AATTATGATTATTA
4304831 TATTAATTATGATTATTA
1 TATTAATTATGATTATTA
4304849 TAT
1 TAT
4304852 AAAAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
TATTAATTATGATTATTA
Found at i:4305186 original size:18 final size:18
Alignment explanation
Indices: 4305165--4305262 Score: 87
Period size: 18 Copynumber: 5.3 Consensus size: 18
4305155 ATATGTAAAC
4305165 TATATAGTT-TATATAGTT
1 TATATA-TTATATATAGTT
*
4305183 TATATA-TAAATTATAGTT
1 TATATATTATA-TATAGTT
4305201 TATATATTATATATA-TAT
1 TATATATTATATATAGT-T
*
4305219 ATATATATATATATATAGTA
1 -TATATAT-TATATATAGTT
*
4305239 TATAGTA-TATAAATAGTT
1 TATA-TATTATATATAGTT
4305257 TATATA
1 TATATA
4305263 ATTCATTAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.01
17 4 0.06
18 37 0.55
19 14 0.21
20 10 0.15
21 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
TATATATTATATATAGTT
Found at i:4305188 original size:2 final size:2
Alignment explanation
Indices: 4305183--4305437 Score: 86
Period size: 2 Copynumber: 124.0 Consensus size: 2
4305173 TTATATAGTT
* *
4305183 TA TA TA TA AA T- TA TA GTT TA TA TA T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
4305224 TA TA TA TA TA TA GTA TA TA GTA TA TA AA TA GTT TA TA TA -A T-
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA
* ** *
4305265 TCA T- TA -A TA AA CTA TA TA TA TA TA GT- TCA TA GG TA AA CTA TA
1 T-A TA TA TA TA TA -TA TA TA TA TA TA -TA T-A TA TA TA TA -TA TA
* * * *
4305307 TA GTT TA TA TA TA TA GT- TCA TA TG TA -A TA -A TG TA AA CTA TA
1 TA -TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA TA -TA TA
* *
4305348 TA TA T- TA TA TA GTA TA TA AA TA TGA -A CTA TA GTA TA TA GTT TA
1 TA TA TA TA TA TA -TA TA TA TA TA T-A TA -TA TA -TA TA TA -TA TA
* * *
4305391 TA TA TA AA T- TA TA GTT TA TA TA TA GTA TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
4305434 TA TA
1 TA TA
4305438 GTTCATATGT
Statistics
Matches: 186, Mismatches: 34, Indels: 66
0.65 0.12 0.23
Matches are distributed among these distances:
1 13 0.07
2 148 0.80
3 25 0.13
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4305358 original size:7 final size:7
Alignment explanation
Indices: 4305346--4305439 Score: 51
Period size: 7 Copynumber: 14.1 Consensus size: 7
4305336 ATGTAAACTA
*
4305346 TATATAT
1 TATATAG
4305353 TATATAG
1 TATATAG
4305360 TATATA-
1 TATATAG
*
4305366 AATAT-G
1 TATATAG
*
4305372 AACTATAG
1 TA-TATAG
4305380 TATATAG
1 TATATAG
*
4305387 TTTATA-
1 TATATAG
*
4305393 TATA-AA
1 TATATAG
4305399 T-TATAG
1 TATATAG
*
4305405 TTTATA-
1 TATATAG
4305411 TATAGTATG
1 TATA-TA-G
4305420 TATATA-
1 TATATAG
4305426 TATATA-
1 TATATAG
4305432 TATATAG
1 TATATAG
4305439 T
1 T
4305440 TCATATGTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
5 3 0.04
6 27 0.39
7 32 0.46
8 4 0.06
9 4 0.06
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.47
Consensus pattern (7 bp):
TATATAG
Found at i:4305396 original size:11 final size:11
Alignment explanation
Indices: 4305380--4305445 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
4305370 TGAACTATAG
4305380 TATATAGTTTA
1 TATATAGTTTA
*
4305391 TATATA---AA
1 TATATAGTTTA
4305399 T-TATAGTTTA
1 TATATAGTTTA
4305409 TATATAGTATGTA
1 TATATAGT-T-TA
*
4305422 TATATA-TATA
1 TATATAGTTTA
*
4305432 TATATAGTTCA
1 TATATAGTTTA
4305443 TAT
1 TAT
4305446 GTAAACTACT
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
7 4 0.09
8 2 0.05
10 10 0.23
11 17 0.40
12 2 0.05
13 8 0.19
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.50
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:4305437 original size:27 final size:27
Alignment explanation
Indices: 4305344--4305437 Score: 65
Period size: 27 Copynumber: 3.5 Consensus size: 27
4305334 TAATGTAAAC
*
4305344 TATATA-TAT-TATATAGTA-TATAAA
1 TATATACTATATATATAGTATTATATA
4305368 TATGA-ACTATAGTATATAGT-TTATATA
1 TAT-ATACTATA-TATATAGTATTATATA
* *
4305395 TAAATTATAGTTTATATATAGTATGTATATA
1 T--A-TATACTATATATATAGTAT-TATATA
4305426 TATATA-TATATA
1 TATATACTATATA
4305438 GTTCATATGT
Statistics
Matches: 55, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
24 4 0.07
25 4 0.07
27 19 0.35
28 4 0.07
29 11 0.20
30 6 0.11
31 7 0.13
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.47
Consensus pattern (27 bp):
TATATACTATATATATAGTATTATATA
Found at i:4305543 original size:11 final size:11
Alignment explanation
Indices: 4305471--4305570 Score: 77
Period size: 11 Copynumber: 9.4 Consensus size: 11
4305461 ATTTATATAT
4305471 TATATAG-TT-
1 TATATAGTTTA
* *
4305480 TACATAGTTTT
1 TATATAGTTTA
4305491 TATATA-TATT-
1 TATATAGT-TTA
4305501 TATATAGTTTA
1 TATATAGTTTA
*
4305512 TACATATAGTTCA
1 T--ATATAGTTTA
*
4305525 TATGTAGTTTA
1 TATATAGTTTA
*
4305536 CATATAG--TA
1 TATATAGTTTA
*
4305545 TATATGGTTTA
1 TATATAGTTTA
4305556 TATATAGTTTA
1 TATATAGTTTA
4305567 TATA
1 TATA
4305571 CTACTATCTA
Statistics
Matches: 72, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
9 13 0.18
10 11 0.15
11 38 0.53
13 10 0.14
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:4305648 original size:2 final size:2
Alignment explanation
Indices: 4305637--4305889 Score: 70
Period size: 2 Copynumber: 135.0 Consensus size: 2
4305627 ACCTTAAACC
*
4305637 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT -T AT AGT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * *
4305678 AT A- AT TT AT -T A- AA AT AA ACT AT A- AT AT AT AT AGT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT
* * * * * * *
4305718 AGT TT A- AG GT -T A- AT GT AT GT A- AT TT AT AT AT AA AT -T AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
4305756 AT AT GA- AT -T AT AT AT AA ACT AT AC A- ACT -T AT AT TT AT AT
1 AT AT -AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT
* * *
4305795 AT -T AT GT AT A- AT -T AT AA AT -T AT AT AT AT AT -T 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
* * * *
4305832 AA AT -T AT AT A- AT TT AT -T A- AT AT AA ACT AT AT A- AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
4305870 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
4305890 TTAAATTAGA
Statistics
Matches: 180, Mismatches: 38, Indels: 66
0.63 0.13 0.23
Matches are distributed among these distances:
1 25 0.14
2 147 0.82
3 8 0.04
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4305766 original size:22 final size:21
Alignment explanation
Indices: 4305741--4305897 Score: 91
Period size: 22 Copynumber: 7.7 Consensus size: 21
4305731 TGTATGTAAT
4305741 TTATATATAAATTATATATGAA
1 TTATATATAAATTATATAT-AA
* * *
4305763 TTATATATAAACTATACA-AC
1 TTATATATAAATTATATATAA
* *
4305783 TTATATTTATATATTATGTAT-A
1 TTATA--TATAAATTATATATAA
4305805 --AT-TATAAATTATATATATA
1 TTATATATAAATTATATATA-A
* *
4305824 TTATGTATAAATTATATA-AT
1 TTATATATAAATTATATATAA
* *
4305844 TTATTAATATAAACTATATA-AT
1 TTA-T-ATATAAATTATATATAA
*
4305866 TTATATATATA-TATATAT-A
1 TTATATATAAATTATATATAA
*
4305885 -TATATTTAAATTA
1 TTATATATAAATTA
4305898 GAATTCCAAT
Statistics
Matches: 106, Mismatches: 17, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
17 12 0.11
18 8 0.08
19 9 0.08
20 17 0.16
21 5 0.05
22 55 0.52
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (21 bp):
TTATATATAAATTATATATAA
Found at i:4305854 original size:83 final size:82
Alignment explanation
Indices: 4305649--4305897 Score: 221
Period size: 83 Copynumber: 3.0 Consensus size: 82
4305639 ATTATATATA
**
4305649 TATATATATATATATATTATAGTTTATATAT-AATT-TAT-TAAA--ATA-AAC-TATA-ATATA
1 TATATATATAT-TATA-TATAAATTATATATGAATTATATATAAACTATACAACTTATATATATA
*
4305706 TATAGTATATATAGTTTAAGGT
64 TATA-TATATATA-TTTAA-AT
* * *
4305728 TAATGTATGTAATTTATATATAAATTATATATGAATTATATATAAACTATACAACTTATATTTAT
1 T-ATATATAT-A-TTATATATAAATTATATATGAATTATATATAAACTATACAACTTATATATAT
*
4305793 ATAT-TATGTATAATTATAAAT
63 ATATATATATAT-ATT-TAAAT
* ** * *
4305814 TATATATATATTATGTATAAATTATATAATTTATTA-ATATAAACTATATAATTTATATATATAT
1 TATATATATATTATATATAAATTATAT-ATGAATTATATATAAACTATACAACTTATATATATAT
4305878 ATATATATATATTTAAAT
65 ATATATATATATTTAAAT
4305896 TA
1 TA
4305898 GAATTCCAAT
Statistics
Matches: 139, Mismatches: 16, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
79 1 0.01
80 18 0.13
81 9 0.06
82 11 0.08
83 50 0.36
84 13 0.09
85 9 0.06
86 13 0.09
87 8 0.06
88 7 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (82 bp):
TATATATATATTATATATAAATTATATATGAATTATATATAAACTATACAACTTATATATATATA
TATATATATATTTAAAT
Found at i:4305879 original size:61 final size:62
Alignment explanation
Indices: 4305737--4305897 Score: 154
Period size: 61 Copynumber: 2.6 Consensus size: 62
4305727 TTAATGTATG
* * * * *
4305737 TAATTTATATATAAATTATATATGAATTATATATAAACTATACAACTTATATTTATATATTATGT
1 TAATTTATATATATA-TATATAT--ATTAT-TATAAATTATACAACTTATATTAATATATAATAT
4305802 A
62 A
* *
4305803 TAA-TTATAAAT-TATATATATATTATGTATAAATTATATAA-TT-TATTAATATA-AACTATA
1 TAATTTATATATATATATATATATTAT-TATAAATTATACAACTTATATTAATATATAA-TATA
4305862 TAATTTATATATATATATATATATATATT-TAAATTA
1 TAATTTATATATATATATATATAT-TATTATAAATTA
4305898 GAATTCCAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
58 1 0.01
59 15 0.18
60 16 0.20
61 29 0.35
62 3 0.04
63 7 0.09
64 1 0.01
65 7 0.09
66 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (62 bp):
TAATTTATATATATATATATATATTATTATAAATTATACAACTTATATTAATATATAATATA
Found at i:4309386 original size:19 final size:19
Alignment explanation
Indices: 4309348--4309391 Score: 54
Period size: 22 Copynumber: 2.2 Consensus size: 19
4309338 ACAATTGAAT
4309348 TTGCCATGACATTTTATTCAA
1 TTGCCATGACA--TTATTCAA
4309369 CTTGCCATGACA-TATTCAA
1 -TTGCCATGACATTATTCAA
4309388 TTGC
1 TTGC
4309392 AACCATACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
22 11 0.50
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (19 bp):
TTGCCATGACATTATTCAA
Found at i:4320444 original size:11 final size:11
Alignment explanation
Indices: 4320425--4320454 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4320415 AGTCAAGGAA
4320425 TTTTT-CTATG
1 TTTTTCCTATG
4320435 TTTTTCCTATG
1 TTTTTCCTATG
4320446 TTTTTCCTA
1 TTTTTCCTA
4320455 AAGAGTTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.67
Consensus pattern (11 bp):
TTTTTCCTATG
Found at i:4325762 original size:11 final size:11
Alignment explanation
Indices: 4325743--4325790 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
4325733 ATATAAGTTG
*
4325743 TATAGTTTATA
1 TATAATTTATA
4325754 TATAATTTATA
1 TATAATTTATA
**
4325765 T-TAATAAACTA
1 TATAATTTA-TA
4325776 TATAATTTATA
1 TATAATTTATA
4325787 TATA
1 TATA
4325791 GTTCAATAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
10 5 0.17
11 20 0.67
12 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:4325884 original size:15 final size:15
Alignment explanation
Indices: 4325866--4325899 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4325856 ATAGATTATC
4325866 TATAGTATACAATAA
1 TATAGTATACAATAA
*
4325881 TATAGTATGCAATAA
1 TATAGTATACAATAA
4325896 TATA
1 TATA
4325900 AATATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (15 bp):
TATAGTATACAATAA
Found at i:4325923 original size:11 final size:10
Alignment explanation
Indices: 4325909--4326091 Score: 69
Period size: 11 Copynumber: 17.8 Consensus size: 10
4325899 AAATATAAAT
4325909 TATATAGTTTA
1 TATATA-TTTA
*
4325920 TATATATAATA
1 TATATAT-TTA
4325931 TATATACTTTA
1 TATATA-TTTA
**
4325942 TATATACACTA
1 TATATA-TTTA
4325953 TATAT-TTTA
1 TATATATTTA
**
4325962 TAT-TAATAAA
1 TATAT-ATTTA
4325972 CTATATAATTTA
1 -TATAT-ATTTA
*
4325984 TATATA-ATA
1 TATATATTTA
4325993 TATATAATTTA
1 TATAT-ATTTA
*
4326004 TATATA-GTA
1 TATATATTTA
*
4326013 TATA-ATAATA
1 TATATAT-TTA
* **
4326023 TAAATATAAA
1 TATATATTTA
4326033 CTATATAGTTTA
1 -TATATA-TTTA
4326045 TATATACTTTA
1 TATATA-TTTA
*
4326056 TATATA--AA
1 TATATATTTA
4326064 CTATATAGTTTA
1 -TATATA-TTTA
4326076 TATATA-TTA
1 TATATATTTA
4326085 TAT-TATT
1 TATATATT
4326092 ATTATTATTA
Statistics
Matches: 132, Mismatches: 22, Indels: 38
0.69 0.11 0.20
Matches are distributed among these distances:
8 5 0.04
9 31 0.23
10 13 0.10
11 74 0.56
12 9 0.07
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (10 bp):
TATATATTTA
Found at i:4325931 original size:9 final size:9
Alignment explanation
Indices: 4325842--4326039 Score: 79
Period size: 9 Copynumber: 20.7 Consensus size: 9
4325832 ATATATAGTT
*
4325842 TATACATAA
1 TATATATAA
4325851 TATATATAGA
1 TATATATA-A
* *
4325861 TTATCTATAG
1 -TATATATAA
*
4325871 TATACAATAA
1 TATA-TATAA
4325881 TATAGTATGCAA
1 TATA-TAT--AA
4325893 TA-ATATAA
1 TATATATAA
4325901 -ATATA-AA
1 TATATATAA
*
4325908 TTATATAGTTTA
1 -TATATA--TAA
4325920 TATATATAA
1 TATATATAA
*
4325929 TATATATACTT
1 TATATATA--A
4325940 TATATATACA
1 TATATATA-A
**
4325950 CTATATATTT
1 -TATATATAA
4325960 TATAT-TAA
1 TATATATAA
4325968 TAAACTATATAA
1 T--A-TATATAA
4325980 TTTATATATAA
1 --TATATATAA
4325991 TATATATAA
1 TATATATAA
*
4326000 TTTATAT-A
1 TATATATAA
4326008 TAGTATATAA
1 TA-TATATAA
4326018 TA-ATATAA
1 TATATATAA
4326026 -ATATA-AA
1 TATATATAA
4326033 CTATATA
1 -TATATA
4326040 GTTTATATAT
Statistics
Matches: 145, Mismatches: 19, Indels: 50
0.68 0.09 0.23
Matches are distributed among these distances:
7 6 0.04
8 18 0.12
9 55 0.38
10 17 0.12
11 39 0.27
12 9 0.06
14 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (9 bp):
TATATATAA
Found at i:4326059 original size:20 final size:20
Alignment explanation
Indices: 4325752--4326050 Score: 134
Period size: 20 Copynumber: 14.8 Consensus size: 20
4325742 GTATAGTTTA
*
4325752 TATATAATTTATATTAATAAAC
1 TATATAATTTATA-T-ATAATC
*
4325774 TATATAATTTATATATAGT-
1 TATATAATTTATATATAATC
* * *
4325793 TCA-ATAGTTCATATATAAAC
1 T-ATATAATTTATATATAATC
* ** *
4325813 TATATAGTTTATATATGGTA
1 TATATAATTTATATATAATC
* * *
4325833 TATATAGTTTATACATAATA
1 TATATAATTTATATATAATC
* *
4325853 TATATAGA-TTATCTAT-A-G
1 TATATA-ATTTATATATAATC
* *
4325871 TATACAA-TAATATAGT-ATGC
1 TATATAATTTATATA-TAAT-C
* *
4325891 -A-ATAATATAAATATAAAT-
1 TATATAATTTATATAT-AATC
* *
4325909 TATATAGTTTATATATATAATA
1 TATATA-ATT-TATATATAATC
*
4325931 TATATACTTTATATATACA-C
1 TATATAATTTATATATA-ATC
* *
4325951 TATATATTTTATATTAATAAAC
1 TATATAATTTATA-T-ATAATC
*
4325973 TATATAATTTATATATAATA
1 TATATAATTTATATATAATC
* *
4325993 TATATAATTTATATATAGTA
1 TATATAATTTATATATAATC
* * *
4326013 TATAATAATATAAATATAAAC
1 TAT-ATAATTTATATATAATC
*
4326034 TATATAGTTTATATATA
1 TATATAATTTATATATA
4326051 CTTTATATAT
Statistics
Matches: 213, Mismatches: 44, Indels: 42
0.71 0.15 0.14
Matches are distributed among these distances:
17 6 0.03
18 11 0.05
19 21 0.10
20 108 0.51
21 26 0.12
22 41 0.19
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (20 bp):
TATATAATTTATATATAATC
Found at i:4326068 original size:20 final size:19
Alignment explanation
Indices: 4325901--4326081 Score: 122
Period size: 20 Copynumber: 9.3 Consensus size: 19
4325891 AATAATATAA
*
4325901 ATATAAATTATATAGTTTATAT
1 ATATAAA-TATATA-CTT-TAT
4325923 ATATAATATATATACTTTAT
1 ATATAA-ATATATACTTTAT
* *
4325943 ATATACACTATATATTTTAT
1 ATATA-AATATATACTTTAT
*
4325963 ATTAATAAACTATATAATTTAT
1 A-T-ATAAA-TATATACTTTAT
*
4325985 ATATAATATATATAATTTAT
1 ATATAA-ATATATACTTTAT
* *
4326005 ATAT-AGTATATA--ATA-
1 ATATAAATATATACTTTAT
*
4326020 ATATAAATATAAAC--TAT
1 ATATAAATATATACTTTAT
**
4326037 ATAGTTTATATATACTTTAT
1 ATA-TAAATATATACTTTAT
*
4326057 ATATAAACTATATAGTTTAT
1 ATATAAA-TATATACTTTAT
4326077 ATATA
1 ATATA
4326082 TTATATTATT
Statistics
Matches: 131, Mismatches: 15, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
15 4 0.03
16 10 0.08
17 3 0.02
18 14 0.11
19 3 0.02
20 62 0.47
21 7 0.05
22 27 0.21
23 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (19 bp):
ATATAAATATATACTTTAT
Found at i:4326085 original size:9 final size:9
Alignment explanation
Indices: 4325901--4326116 Score: 81
Period size: 9 Copynumber: 24.3 Consensus size: 9
4325891 AATAATATAA
*
4325901 ATATAAATT
1 ATATATATT
4325910 ATATAGT-TT
1 ATATA-TATT
4325919 ATATATATAAT
1 ATATATAT--T
4325930 ATATATACTT
1 ATATATA-TT
*
4325940 -TATATATAC
1 ATATATAT-T
4325949 ACTATATATT
1 A-TATATATT
4325959 -T-TATATT
1 ATATATATT
* *
4325966 A-ATAAACT
1 ATATATATT
4325974 ATATA-ATTT
1 ATATATA-TT
*
4325983 ATATATAAT
1 ATATATATT
4325992 ATATATAATT
1 ATATAT-ATT
4326002 -TATATA-T
1 ATATATATT
*
4326009 AGTATATAAT
1 A-TATATATT
*
4326019 A-ATATA-A
1 ATATATATT
* *
4326026 ATATAAACT
1 ATATATATT
4326035 ATATAGT-TT
1 ATATA-TATT
4326044 ATATATACTT
1 ATATATA-TT
*
4326054 -TATATATAA
1 ATATATAT-T
4326063 ACTATATAGTT
1 A-TATATA-TT
4326074 -TATATA-T
1 ATATATATT
4326081 AT-TATATT
1 ATATATATT
4326089 AT-TATTATT
1 ATATA-TATT
4326098 AT-TATATT
1 ATATATATT
4326106 A-ATATATT
1 ATATATATT
4326114 ATA
1 ATA
4326117 ATTGTTTTAA
Statistics
Matches: 161, Mismatches: 15, Indels: 62
0.68 0.06 0.26
Matches are distributed among these distances:
7 13 0.08
8 39 0.24
9 78 0.48
10 8 0.05
11 21 0.13
12 2 0.01
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (9 bp):
ATATATATT
Found at i:4340409 original size:37 final size:37
Alignment explanation
Indices: 4340360--4340430 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
4340350 TTCATTTGAA
4340360 TATTATTTATATTTTATTATAATTATTATAATAATAAT
1 TATTATTTATATTTTATTATAATTATTA-AATAATAAT
* *
4340398 TATTA-TTATATTTTTTTATTATTATTAAATAAT
1 TATTATTTATATTTTATTATAATTATTAAATAAT
4340431 TACAAATAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 6 0.19
37 20 0.65
38 5 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (37 bp):
TATTATTTATATTTTATTATAATTATTAAATAATAAT
Found at i:4341795 original size:19 final size:17
Alignment explanation
Indices: 4341771--4341806 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
4341761 GTATTTAATC
4341771 ATAAATATATATAATTTTA
1 ATAAATA-ATAT-ATTTTA
4341790 ATAAATAATATATTTTA
1 ATAAATAATATATTTTA
4341807 CATGTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 4 0.24
19 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAAATAATATATTTTA
Found at i:4342861 original size:108 final size:108
Alignment explanation
Indices: 4342666--4342863 Score: 249
Period size: 108 Copynumber: 1.8 Consensus size: 108
4342656 AGATAATAAG
* * *
4342666 TTTAAAATTAATAACTCTAATCTTGTGTATTTTTAAGATAATCTGTTAATGGAATCATAATAAAT
1 TTTAAAATTAATAACTATAATCTTATGTATTTTTAAGATAATCTGTTAATGAAATCATAATAAAT
*
4342731 TTCTTGTAAACATAATGGATTAAAATGTTACTTATCTGATGAT
66 TTCTTGTAAACATAATGAATTAAAATGTTACTTATCTGATGAT
* * * *
4342774 TTTAAAATTAATAATTATAAT-TTATGTATATTTTAAAGATAATCTGTTAATTAAATTTATATTA
1 TTTAAAATTAATAACTATAATCTTATGTAT-TTTT-AAGATAATCTGTTAATGAAA-TCATAATA
* * *
4342838 TATTTCTT-TTAACA-AATTAATTAAAA
63 AATTTCTTGTAAACATAATGAATTAAAA
4342864 AAATTATTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
107 7 0.09
108 33 0.43
109 23 0.30
110 13 0.17
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (108 bp):
TTTAAAATTAATAACTATAATCTTATGTATTTTTAAGATAATCTGTTAATGAAATCATAATAAAT
TTCTTGTAAACATAATGAATTAAAATGTTACTTATCTGATGAT
Found at i:4344303 original size:60 final size:59
Alignment explanation
Indices: 4344217--4344390 Score: 161
Period size: 60 Copynumber: 2.9 Consensus size: 59
4344207 ATGAATTTGG
* * *
4344217 GGATGAAATTGGAAGATTTACAAGTTT-GGGAATCAATTTAGAATGAGGGTCTTAATTTAA
1 GGATGAAATTGGAAG-TTCAAAAGTTTAGGG-ATCAATTTAGAATGAGGGTCATAATTTAA
* * * * ** * *
4344277 TGATGAAATTGGAACGTTCAAAAGTTTAAGGATTAATTTAAAATGAGTATCATAGTTTGA
1 GGATGAAATTGGAA-GTTCAAAAGTTTAGGGATCAATTTAGAATGAGGGTCATAATTTAA
* ** * *
4344337 GGGTGAAATTAAAATATTCAAAAGTTTAGGGACCAATTTAGAATGAGGGTCATA
1 GGATGAAATTGGAA-GTTCAAAAGTTTAGGGATCAATTTAGAATGAGGGTCATA
4344391 GTTTTGGGGA
Statistics
Matches: 89, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
60 86 0.97
61 3 0.03
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (59 bp):
GGATGAAATTGGAAGTTCAAAAGTTTAGGGATCAATTTAGAATGAGGGTCATAATTTAA
Found at i:4346311 original size:2 final size:2
Alignment explanation
Indices: 4346304--4346339 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4346294 TTAAAATTTA
4346304 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
4346340 CATTAAGGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4347610 original size:18 final size:19
Alignment explanation
Indices: 4347575--4347611 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4347565 CACGGAATGT
4347575 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
4347595 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
4347612 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:4348784 original size:4 final size:4
Alignment explanation
Indices: 4348775--4348818 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
4348765 CCTATATTCC
* * *
4348775 ATAT ATAT ATAT ATAT ATAT ATAT ATTT ATTT ATAT TTAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
4348819 TATCATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (4 bp):
ATAT
Found at i:4348784 original size:6 final size:6
Alignment explanation
Indices: 4348775--4348818 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
4348765 CCTATATTCC
* * *
4348775 ATATAT ATATAT ATATAT ATATAT ATTTAT TTATAT TTATAT AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT AT
4348819 TATCATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (6 bp):
ATATAT
Found at i:4348790 original size:10 final size:10
Alignment explanation
Indices: 4348775--4348818 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
4348765 CCTATATTCC
4348775 ATATATATAT
1 ATATATATAT
4348785 ATATATATAT
1 ATATATATAT
*
4348795 ATATATTTAT
1 ATATATATAT
* *
4348805 TTATATTTAT
1 ATATATATAT
4348815 ATAT
1 ATAT
4348819 TATCATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
ATATATATAT
Found at i:4348975 original size:62 final size:62
Alignment explanation
Indices: 4348909--4349051 Score: 277
Period size: 62 Copynumber: 2.3 Consensus size: 62
4348899 ATTTTATTTG
*
4348909 AATTATCTATCTTCATTGATAAATCAGCTTAATTTAATTTCTTTAAGTTAATTTTAATTCAA
1 AATTATCTATCGTCATTGATAAATCAGCTTAATTTAATTTCTTTAAGTTAATTTTAATTCAA
4348971 AATTATCTATCGTCATTGATAAATCAGCTTAATTTAATTTCTTTAAGTTAATTTTAATTCAA
1 AATTATCTATCGTCATTGATAAATCAGCTTAATTTAATTTCTTTAAGTTAATTTTAATTCAA
4349033 AATTATCTATCGTCATTGA
1 AATTATCTATCGTCATTGA
4349052 ATAATCTATC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 80 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (62 bp):
AATTATCTATCGTCATTGATAAATCAGCTTAATTTAATTTCTTTAAGTTAATTTTAATTCAA
Found at i:4349487 original size:33 final size:32
Alignment explanation
Indices: 4349450--4349512 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 32
4349440 GGGGGAACTC
4349450 ACCTTCGATTCTGAAAATGTGGGGGGGGGGGCA
1 ACCTTCGATTCTGAAAATG-GGGGGGGGGGGCA
4349483 ACCTTCGATTCTGAAAATGGGGGGGGGGGG
1 ACCTTCGATTCTGAAAATGGGGGGGGGGGG
4349513 TTGGCAGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 11 0.37
33 19 0.63
ACGTcount: A:0.21, C:0.14, G:0.44, T:0.21
Consensus pattern (32 bp):
ACCTTCGATTCTGAAAATGGGGGGGGGGGGCA
Found at i:4349854 original size:15 final size:15
Alignment explanation
Indices: 4349821--4349854 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4349811 AAAACCTTAG
* *
4349821 AATTGAAACAATCTG
1 AATTGAAACAATATC
4349836 AATTGAAACAATATC
1 AATTGAAACAATATC
4349851 AATT
1 AATT
4349855 CTAAGGTTTC
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:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (15 bp):
AATTGAAACAATATC
Found at i:4350126 original size:4 final size:4
Alignment explanation
Indices: 4350117--4350154 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
4350107 TTAATTCCTT
*
4350117 TTTA TTTA TTTA TTTA TTTA GTTA TTTA -TTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
4350155 TCATGTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:4350254 original size:17 final size:17
Alignment explanation
Indices: 4350232--4350335 Score: 61
Period size: 17 Copynumber: 5.9 Consensus size: 17
4350222 TAATTTATTT
4350232 TTTTATTTTTATTTTTA
1 TTTTATTTTTATTTTTA
* *
4350249 TTTTATTTTCATTATTA
1 TTTTATTTTTATTTTTA
4350266 TTATT-TTTACTTATCTATTTA
1 TT-TTATTT--TTAT-T-TTTA
* * *
4350287 ATTTA-ATTTATTATTA
1 TTTTATTTTTATTTTTA
*
4350303 TTATATTTTTTATTTTT-
1 TTTTA-TTTTTATTTTTA
* *
4350320 TTCTATGTTTATTTTT
1 TTTTATTTTTATTTTT
4350336 TTCTTTTGAT
Statistics
Matches: 66, Mismatches: 13, Indels: 17
0.69 0.14 0.18
Matches are distributed among these distances:
16 16 0.24
17 25 0.38
18 14 0.21
19 3 0.05
20 4 0.06
21 4 0.06
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (17 bp):
TTTTATTTTTATTTTTA
Found at i:4350270 original size:40 final size:39
Alignment explanation
Indices: 4350194--4350319 Score: 102
Period size: 40 Copynumber: 3.3 Consensus size: 39
4350184 ATATTTAACT
* * * *
4350194 TTTTTTTCTTTTTCTTTTTAATTTAA---ATTAAT-TTA
1 TTTTTTTATTTTTATATTTAATTTAATTTATTATTATTA
* * *
4350229 TTTTTTTATTTTTAT-TTTTATTTTATTT-TCATTATTA
1 TTTTTTTATTTTTATATTTAATTTAATTTATTATTATTA
* * *
4350266 TTATTTTTACTTATCTATTTAATTTAATTTATTATTATTA
1 TT-TTTTTATTTTTATATTTAATTTAATTTATTATTATTA
4350306 TATTTTTTATTTTT
1 T-TTTTTTATTTTT
4350320 TTCTATGTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
34 8 0.12
35 13 0.19
36 3 0.04
37 5 0.07
38 10 0.14
39 11 0.16
40 18 0.26
41 1 0.01
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (39 bp):
TTTTTTTATTTTTATATTTAATTTAATTTATTATTATTA
Found at i:4350285 original size:34 final size:32
Alignment explanation
Indices: 4350221--4350304 Score: 86
Period size: 34 Copynumber: 2.7 Consensus size: 32
4350211 TTAATTTAAA
*
4350221 TTAATTT-ATTT-TT-TTATTTTTATTTTTATT
1 TTAATTTAATTTATTATTATTTTTATTTCTA-T
* *
4350251 TTATTTTCA-TTATTATTATTTTTACTTATCTAT
1 TTAATTTAATTTATTATTATTTTTA-TT-TCTAT
4350284 TTAATTTAATTTATTATTATT
1 TTAATTTAATTTATTATTATT
4350305 ATATTTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 8 0.18
31 3 0.07
32 9 0.20
33 10 0.23
34 14 0.32
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (32 bp):
TTAATTTAATTTATTATTATTTTTATTTCTAT
Found at i:4350355 original size:21 final size:19
Alignment explanation
Indices: 4350327--4350400 Score: 60
Period size: 21 Copynumber: 3.7 Consensus size: 19
4350317 TTTTTCTATG
* *
4350327 TTTATT-TTTTTCTTTTGA
1 TTTATTCTTTTTTTTTTTA
4350345 TTTATTCTTTTTTTTTTCTCA
1 TTTATTCTTTTTTTTTT-T-A
* *
4350366 TTTTTTCTTTAATTTTTTTA
1 TTTATTCTTT-TTTTTTTTA
*
4350386 TTCAATTCTTTTTTT
1 TT-TATTCTTTTTTT
4350401 CCTTTTAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
18 6 0.14
19 9 0.20
20 6 0.14
21 17 0.39
22 6 0.14
ACGTcount: A:0.12, C:0.09, G:0.01, T:0.77
Consensus pattern (19 bp):
TTTATTCTTTTTTTTTTTA
Found at i:4352415 original size:43 final size:43
Alignment explanation
Indices: 4352368--4352480 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
4352358 AATAGGCAAC
* *
4352368 GAGATATAGCGGCGTTTGTCCCACCAACG-CAGCAATAGGTGTT
1 GAGATTTAGCGGCGTTTGTCCCACAAACGTC-GCAATAGGTGTT
** * *
4352411 GAGATTTAATGACGTTTTTCCCACAAACGTCGCAATAGGTGTT
1 GAGATTTAGCGGCGTTTGTCCCACAAACGTCGCAATAGGTGTT
* *
4352454 GAGATTTAGCGGCATTT-CCCCACAAAC
1 GAGATTTAGCGGCGTTTGTCCCACAAAC
4352481 ACCGCAAAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 9 0.16
43 48 0.83
44 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (43 bp):
GAGATTTAGCGGCGTTTGTCCCACAAACGTCGCAATAGGTGTT
Found at i:4352609 original size:44 final size:44
Alignment explanation
Indices: 4352551--4352763 Score: 257
Period size: 44 Copynumber: 4.8 Consensus size: 44
4352541 TTTGTGGCAC
* *
4352551 TTTTTGGATACAAATGCCACAAAAGGTCTGGTATATAGCGGCGT
1 TTTTTGGATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGT
* * * *
4352595 TTTTTTGATACAAATGCCGCGAAAGGTCTGGTATATAGCGACGT
1 TTTTTGGATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGT
* *
4352639 TTTTTGGATACAAACACCGCGAAAGGTCTGGTATATAGCGGCGT
1 TTTTTGGATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGT
* * * * * * *
4352683 TTGTCGGATATAAACGTCGCTAAAA-GTGTGATATATAGCTGCGT
1 TTTTTGGATACAAACGCCGC-AAAAGGTCTGGTATATAGCGGCGT
* *
4352727 TTTTAGGATACAAACGCCGCAAAAGGTATGGTATATA
1 TTTTTGGATACAAACGCCGCAAAAGGTCTGGTATATA
4352764 AACGGTATTT
Statistics
Matches: 144, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
43 4 0.03
44 137 0.95
45 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
TTTTTGGATACAAACGCCGCAAAAGGTCTGGTATATAGCGGCGT
Found at i:4352786 original size:88 final size:85
Alignment explanation
Indices: 4352551--4352789 Score: 230
Period size: 88 Copynumber: 2.7 Consensus size: 85
4352541 TTTGTGGCAC
* * * *
4352551 TTTTTGGATACAAATGCCACAAAAGGTCTGGTATATAGCGGCGTTTTTTTGATACAAATGCCGCG
1 TTTTTGGATACAAACGCCGCAAAAGGTCTGGTATATAGC-G-GTTTTCTTGATACAAACGCCGCG
* *
4352616 AAAGGTCTGGTATATAGCGACG
64 AAAAGTCTGATATATAGCGACG
* * * * *
4352638 TTTTTTGGATACAAACACCGCGAAAGGTCTGGTATATAGCGGCGTTTGTC-GGATATAAACGTCG
1 -TTTTTGGATACAAACGCCGCAAAAGGTCTGGTATATAGC-G-GTTT-TCTTGATACAAACGCCG
* *
4352702 CTAAAAGTGTGATATATAGCTG-CG
62 CGAAAAGTCTGATATATAGC-GACG
* * *
4352726 TTTTTAGGATACAAACGCCGCAAAAGGTATGGTATATAAACGGTATTTCTTGTTACAAACGCCG
1 TTTTT-GGATACAAACGCCGCAAAAGGTCTGGTATAT-AGCGGT-TTTCTTGATACAAACGCCG
4352790 ATATTGTTTT
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
87 9 0.07
88 111 0.90
89 4 0.03
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (85 bp):
TTTTTGGATACAAACGCCGCAAAAGGTCTGGTATATAGCGGTTTTCTTGATACAAACGCCGCGAA
AAGTCTGATATATAGCGACG
Found at i:4356338 original size:41 final size:41
Alignment explanation
Indices: 4356283--4356379 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
4356273 GGTATTTTTT
* * * *
4356283 ACAAACGTCGCTAAAGTA-TATGGATATTGCGGCGTTTGGTC
1 ACAAACGCCACTAAAGTACAAT-GATATTGCGGCGTTTGCTC
* *
4356324 ACAAACGCCACTAAAGTACAATGCTATTGCGGCGTTTTCTC
1 ACAAACGCCACTAAAGTACAATGATATTGCGGCGTTTGCTC
4356365 ACAAACGCCACTAAA
1 ACAAACGCCACTAAA
4356380 TTAAGAGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 47 0.96
42 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (41 bp):
ACAAACGCCACTAAAGTACAATGATATTGCGGCGTTTGCTC
Found at i:4357783 original size:27 final size:27
Alignment explanation
Indices: 4357737--4357790 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4357727 CGTTTTCAAA
* *
4357737 ATCTATTATTTCCCTTTTCGGAAGCAG
1 ATCTATTATTTCCCTATTCGAAAGCAG
**
4357764 ATCTATTATTTTTCTATTCGAAAGCAG
1 ATCTATTATTTCCCTATTCGAAAGCAG
4357791 TAAAACACTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (27 bp):
ATCTATTATTTCCCTATTCGAAAGCAG
Found at i:4363688 original size:18 final size:18
Alignment explanation
Indices: 4363659--4363705 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
4363649 TTCCGAGAAG
4363659 TATAAGGGATGATGAATCA
1 TATAA-GGATGATGAATCA
4363678 TATAAGGATGATGAATCA
1 TATAAGGATGATGAATCA
4363696 TATAAGGATG
1 TATAAGGATG
4363706 CCTTGTTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.28
Consensus pattern (18 bp):
TATAAGGATGATGAATCA
Found at i:4370058 original size:95 final size:96
Alignment explanation
Indices: 4369878--4370080 Score: 279
Period size: 95 Copynumber: 2.1 Consensus size: 96
4369868 GATTCAATCA
4369878 GTATCGATACCGAT-G-A-GGTAGTATCGATACCATGATAAGGGGTATCGATACCAAGCAACATC
1 GTATCGATACC-ATAGTATGGTAGTATCGATACCATGATAAGGGGTATCGATACCAAGCAACATC
* *
4369940 GAATCTAATTTTGGTATCCATACCGAAAGGGG
65 GAACCTAATTTTGGTATCCATACCGAAAGAGG
* * * ** *
4369972 GTATCGGTACCATAGTATGGTAGTATCGATACCATGGTAA-GGGTATCGGTTTCAGGCAACATCG
1 GTATCGATACCATAGTATGGTAGTATCGATACCATGATAAGGGGTATCGATACCAAGCAACATCG
* *
4370036 AACCTAATTTTGGTATCGATACCGAATGAGG
66 AACCTAATTTTGGTATCCATACCGAAAGAGG
4370067 GTATCGATACCATA
1 GTATCGATACCATA
4370081 ATATAGAAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
93 2 0.02
94 11 0.12
95 61 0.64
96 21 0.22
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (96 bp):
GTATCGATACCATAGTATGGTAGTATCGATACCATGATAAGGGGTATCGATACCAAGCAACATCG
AACCTAATTTTGGTATCCATACCGAAAGAGG
Found at i:4370106 original size:95 final size:95
Alignment explanation
Indices: 4369899--4370106 Score: 245
Period size: 95 Copynumber: 2.2 Consensus size: 95
4369889 GATGAGGTAG
* * * ** * *
4369899 TATCGATACCATGATAAGGGGTATCGATACCAAGCAACATCGAATCTAATTTTGGTATCCATACC
1 TATCGATACCAAGGTAA-GGGTATCGGTTTCAGGCAACATCGAACCTAATTTTGGTATCCATACC
* * * * * *
4369964 GAAAGGGGGTATCGGTACCATAGTATGGTAG
65 GAAAGAGGGTATCGATACCATAATATAGAAA
* *
4369995 TATCGATACCATGGTAAGGGTATCGGTTTCAGGCAACATCGAACCTAATTTTGGTATCGATACCG
1 TATCGATACCAAGGTAAGGGTATCGGTTTCAGGCAACATCGAACCTAATTTTGGTATCCATACCG
*
4370060 AATGAGGGTATCGATACCATAATATAGAAA
66 AAAGAGGGTATCGATACCATAATATAGAAA
* *
4370090 TATCGGTACTAAGGTAA
1 TATCGATACCAAGGTAA
4370107 TAGTATCGAT
Statistics
Matches: 95, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
95 79 0.83
96 16 0.17
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (95 bp):
TATCGATACCAAGGTAAGGGTATCGGTTTCAGGCAACATCGAACCTAATTTTGGTATCCATACCG
AAAGAGGGTATCGATACCATAATATAGAAA
Found at i:4370534 original size:55 final size:55
Alignment explanation
Indices: 4370443--4370767 Score: 445
Period size: 55 Copynumber: 5.9 Consensus size: 55
4370433 ACTATGTGAC
* * *
4370443 TACATGCACTTTGTGTGCATATTAACAAAATTCATCATGGGTTGATGAATCACCG
1 TACATGCACTTTGTGTGCATATTCACGAAATTTATCATGGGTTGATGAATCACCG
* * * *
4370498 TACAGGTACTTTGTGTGCATATTCACAAAATTCATCATGGGTTGATGAATCACCG
1 TACATGCACTTTGTGTGCATATTCACGAAATTTATCATGGGTTGATGAATCACCG
* *
4370553 TACATGCACTTCT-TGTGCATATTCACGGAATTTATCATGGGTTGATGAATCATCG
1 TACATGCACTT-TGTGTGCATATTCACGAAATTTATCATGGGTTGATGAATCACCG
* *
4370608 TACATGAACTTTGTGTGCATATTCCCGAAATTTATCATGGGTTGATGAATCACCG
1 TACATGCACTTTGTGTGCATATTCACGAAATTTATCATGGGTTGATGAATCACCG
* * *
4370663 TACACGCACTTTGTGTGCATATTTACGAAATTTATTATGGGTTGATGAATCACCG
1 TACATGCACTTTGTGTGCATATTCACGAAATTTATCATGGGTTGATGAATCACCG
* * ** * * *
4370718 TACAAGCACTTTGTGTGCAAAACCACGGAATTTGTCATGAGTTGATGAAT
1 TACATGCACTTTGTGTGCATATTCACGAAATTTATCATGGGTTGATGAAT
4370768 TTTCGTATAG
Statistics
Matches: 241, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
54 1 0.00
55 239 0.99
56 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (55 bp):
TACATGCACTTTGTGTGCATATTCACGAAATTTATCATGGGTTGATGAATCACCG
Found at i:4376958 original size:20 final size:20
Alignment explanation
Indices: 4376909--4376964 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
4376899 TACTGAAAGG
*
4376909 GGGTATCGGTACCATAGTAT
1 GGGTATCGGTACCATAGTAA
* *
4376929 GGTAGTATCGATACCATGGTAA
1 GG--GTATCGGTACCATAGTAA
4376951 GGGTATCGGTACCA
1 GGGTATCGGTACCA
4376965 GGCAACATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (20 bp):
GGGTATCGGTACCATAGTAA
Found at i:4376988 original size:95 final size:96
Alignment explanation
Indices: 4376833--4377019 Score: 263
Period size: 95 Copynumber: 2.0 Consensus size: 96
4376823 ATACCGACGA
*
4376833 GGTAGTATCGATACCATGATAAGGGGTATCAATACCTAGCAACATCGAATCTAATTTTGGTA-TC
1 GGTAGTATCGATACCATGATAAGGGGTATCAATACCTAGCAACATCGAACCTAATTTTGGTATTC
* * *
4376897 GATACTGAAAGGGGGTATCGGTACCATAGTAT
66 -ATACCGAAAGGGCGTATCAGTACCATAGTAT
* **
4376929 GGTAGTATCGATACCATGGTAA-GGGTATCGGTACC-AGGCAACATCGAACCTAATTTTGGTATT
1 GGTAGTATCGATACCATGATAAGGGGTATCAATACCTA-GCAACATCGAACCTAATTTTGGTATT
*
4376992 CATACCGAATGGGCGTATCAGTACCATA
65 CATACCGAAAGGGCGTATCAGTACCATA
4377020 TTATAAAAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
94 1 0.01
95 57 0.70
96 23 0.28
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (96 bp):
GGTAGTATCGATACCATGATAAGGGGTATCAATACCTAGCAACATCGAACCTAATTTTGGTATTC
ATACCGAAAGGGCGTATCAGTACCATAGTAT
Found at i:4377033 original size:95 final size:96
Alignment explanation
Indices: 4376838--4377045 Score: 242
Period size: 95 Copynumber: 2.2 Consensus size: 96
4376828 GACGAGGTAG
* * *
4376838 TATCGATACCATGATAAGGGGTATCAATACCTAGCAACATCGAATCTAATTTTGGTATCGATACT
1 TATCGATACCATGGTAAGGGGTATCAATACCTAGCAACATCGAACCTAATTTTGGTATCGATACC
* * *** *
4376903 GAAAGGGGGTATCGGTACCATAGTATGGTAG
66 GAAAGGGCGTATCAGTACCATAGTATAAAAA
**
4376934 TATCGATACCATGGTAA-GGGTATCGGTACC-AGGCAACATCGAACCTAATTTTGGTATTC-ATA
1 TATCGATACCATGGTAAGGGGTATCAATACCTA-GCAACATCGAACCTAATTTTGGTA-TCGATA
* *
4376996 CCGAATGGGCGTATCAGTACCATATTATAAAAA
64 CCGAAAGGGCGTATCAGTACCATAGTATAAAAA
* *
4377029 TATCGGTACCAAGGTAA
1 TATCGATACCATGGTAA
4377046 TAGTATCGAT
Statistics
Matches: 95, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
94 1 0.01
95 76 0.80
96 18 0.19
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (96 bp):
TATCGATACCATGGTAAGGGGTATCAATACCTAGCAACATCGAACCTAATTTTGGTATCGATACC
GAAAGGGCGTATCAGTACCATAGTATAAAAA
Found at i:4377451 original size:55 final size:55
Alignment explanation
Indices: 4377384--4377673 Score: 427
Period size: 55 Copynumber: 5.3 Consensus size: 55
4377374 TATGTGTACC
* *
4377384 ACAGGCACTTTGTGTGCATATTCACGGAATTCACCATGGGTTGATGAATCACCAT
1 ACAGGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCGT
* * *
4377439 ACAGGTACTTTGTGTGCATATTAATGGAATTCATCATGGGTTGATGAATCACCGT
1 ACAGGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCGT
* * * *
4377494 ACAGACACTTCGTGTGCATATTCACGAAATTCATCATAGGTTGATGAATCACCGT
1 ACAGGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCGT
* * * * *
4377549 AGATGCACTTTGTGTGCATATTAACGGAATTCATCTTGGATTGATGAATCACCGT
1 ACAGGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCGT
* *
4377604 AGAGGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCAT
1 ACAGGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCGT
*
4377659 ACAAGCACTTTGTGT
1 ACAGGCACTTTGTGT
4377674 ACAAAACCAC
Statistics
Matches: 207, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 207 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (55 bp):
ACAGGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCGT
Found at i:4377702 original size:55 final size:55
Alignment explanation
Indices: 4377423--4377707 Score: 137
Period size: 55 Copynumber: 5.2 Consensus size: 55
4377413 TTCACCATGG
* * * * *** ** * *
4377423 GTTGATGAATCACCATACAGGTACTTTGTGTGCATATTAATGGAATTCATCATGG
1 GTTGATGAATCACCATACAAGCACTTTGTGTACAAAACCACAGAATTCATCACGA
* * * * ** *
4377478 GTTGATGAATCACCGTAC-AGACACTTCGTGTGCATATTCAC-GAAATTCATCA-TA
1 GTTGATGAATCACCATACAAG-CACTTTGTGTACAAAACCACAG-AATTCATCACGA
* * * * * *** * **
4377532 GGTTGATGAATCACCGTAGATGCACTTTGTGTGCATATTAACGGAATTCATCTTG-
1 -GTTGATGAATCACCATACAAGCACTTTGTGTACAAAACCACAGAATTCATCACGA
* * * * * ** * * *
4377587 GATTGATGAATCACCGTAGAGGCACTTTGTGTGCATATTCACGGAATTCATCATGG
1 G-TTGATGAATCACCATACAAGCACTTTGTGTACAAAACCACAGAATTCATCACGA
* *
4377643 GTTGATGAATCACCATACAAGCACTTTGTGTACAAAACCACATAATTTATCACGA
1 GTTGATGAATCACCATACAAGCACTTTGTGTACAAAACCACAGAATTCATCACGA
4377698 GTTGATGAAT
1 GTTGATGAAT
4377708 TTCCGTATAG
Statistics
Matches: 193, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
54 3 0.02
55 187 0.97
56 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (55 bp):
GTTGATGAATCACCATACAAGCACTTTGTGTACAAAACCACAGAATTCATCACGA
Found at i:4377704 original size:165 final size:165
Alignment explanation
Indices: 4377388--4377707 Score: 439
Period size: 165 Copynumber: 1.9 Consensus size: 165
4377378 TGTACCACAG
* * *
4377388 GCACTTTGTGTGCATATTCACGGAATTCACCATGGGTTGATGAATCACCATACAGGTACTTTGTG
1 GCACTTTGTGTGCATATTAACGGAATTCACCATGGATTGATGAATCACCATACAGGCACTTTGTG
* * * * **
4377453 TGCATATTAATGGAATTCATCATGGGTTGATGAATCACCGTACAGACACTTCGTGTGCATATTCA
66 TGCATATTAACGGAATTCATCATGGGTTGATGAATCACCATACAGACACTTCGTGTACAAAACCA
*
4377518 CGAAATTCATCATAGGTTGATGAATCACCGTAGAT
131 CGAAATTCATCAGAGGTTGATGAATCACCGTAGAT
* * * *
4377553 GCACTTTGTGTGCATATTAACGGAATTCATCTTGGATTGATGAATCACCGTAGAGGCACTTTGTG
1 GCACTTTGTGTGCATATTAACGGAATTCACCATGGATTGATGAATCACCATACAGGCACTTTGTG
* *
4377618 TGCATATTCACGGAATTCATCATGGGTTGATGAATCACCATACA-AGCACTTTGTGTACAAAACC
66 TGCATATTAACGGAATTCATCATGGGTTGATGAATCACCATACAGA-CACTTCGTGTACAAAACC
*
4377682 AC-ATAATTTATCACGA-GTTGATGAAT
130 ACGA-AATTCATCA-GAGGTTGATGAAT
4377708 TTCCGTATAG
Statistics
Matches: 135, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
164 2 0.01
165 132 0.98
166 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (165 bp):
GCACTTTGTGTGCATATTAACGGAATTCACCATGGATTGATGAATCACCATACAGGCACTTTGTG
TGCATATTAACGGAATTCATCATGGGTTGATGAATCACCATACAGACACTTCGTGTACAAAACCA
CGAAATTCATCAGAGGTTGATGAATCACCGTAGAT
Found at i:4377714 original size:110 final size:109
Alignment explanation
Indices: 4377384--4377707 Score: 387
Period size: 110 Copynumber: 2.9 Consensus size: 109
4377374 TATGTGTACC
* * *
4377384 ACAGGCACTTTGTGTGCATATTCACGGAATTCACCATGGGTTGATGAATCACCATACAGGTACTT
1 ACAGGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCATACAAGCACTT
* * ***
4377449 TGTGTGCATATTAATGGAATTCATCATGGGTTGATGAATCACCGT
66 TGTGTGCAAAATAACATAATTCATCAT-GGTTGATGAATCACCGT
* * * * * * *
4377494 ACAGACACTTCGTGTGCATATTCACGAAATTCATCATAGGTTGATGAATCACCGTAGATGCACTT
1 ACAGGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCATACAAGCACTT
* * ** *
4377559 TGTGTGCATATTAACGGAATTCATCTTGGATTGATGAATCACCGT
66 TGTGTGCAAAATAACATAATTCATCATGG-TTGATGAATCACCGT
*
4377604 AGAGGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCATACAAGCACTT
1 ACAGGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCATACAAGCACTT
* ** * *
4377669 TGTGTACAAAACCACATAATTTATCACGAGTTGATGAAT
66 TGTGTGCAAAATAACATAATTCATCATG-GTTGATGAAT
4377708 TTCCGTATAG
Statistics
Matches: 183, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
109 2 0.01
110 180 0.98
111 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (109 bp):
ACAGGCACTTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCATACAAGCACTT
TGTGTGCAAAATAACATAATTCATCATGGTTGATGAATCACCGT
Found at i:4398669 original size:33 final size:33
Alignment explanation
Indices: 4398619--4398730 Score: 133
Period size: 33 Copynumber: 3.3 Consensus size: 33
4398609 CGAACCTGAC
4398619 CCCGACCCG--TATCACACTTTAAAAAACCCGA
1 CCCGACCCGAATATCACACTTTAAAAAACCCGA
*
4398650 CCCGACCCGAATATCACACTTAAAAAAACCCGA
1 CCCGACCCGAATATCACACTTTAAAAAACCCGA
4398683 CCCAACTCGACCCGAATATCA-A-TCTTAAAAAACCCGA
1 --C--C-CGACCCGAATATCACACT-TTAAAAAACCCGA
4398720 CCCGACCCGAA
1 CCCGACCCGAA
4398731 CAAAATAAAG
Statistics
Matches: 71, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
31 9 0.13
32 9 0.13
33 22 0.31
35 2 0.03
36 1 0.01
37 14 0.20
38 14 0.20
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.13
Consensus pattern (33 bp):
CCCGACCCGAATATCACACTTTAAAAAACCCGA
Found at i:4399050 original size:330 final size:330
Alignment explanation
Indices: 4398427--4399027 Score: 805
Period size: 330 Copynumber: 1.8 Consensus size: 330
4398417 TTTATTCAAC
4398427 ATATGAATTAGAAACCCGACCCGACCCAACACAAAATAATAAAAAAATTATTTTTATTCAATAAA
1 ATATGAATTAGAAACCCGACCCGA-CC-ACACAAAATAATAAAAAAATTATTTTTATTCAATAAA
* *
4398492 AACATTGACTTAATTGAAAAAAATTATATATAGAGCGGTATTATTGTAATTATTCCTAAATATAC
64 AACAGTGACTTAATTGAAAAAAATTATATATAGAGCGGTATTATTGAAATTATTCCTAAATATAC
* * *
4398557 AATGTAAAATTATATTTTTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCTGACCCC
129 AAGGTAAAATTATATTTTTTTCAGGT--GTCCGGTATTTTTCACCCTAAACCCGAACCTGACCCC
* **
4398622 GACCCGTATCACACTTTAAAAAACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGACCCA
192 GACCCGTATCACACTTTAAAAAAACCGACCCGACCCG-A-ATCACAAATAAAAAAACCCGACCCA
* * *
4398687 ACTCGACCCGAATATCAATCTTAAAAAACCCGACCCGACCCGAACAAAATAAAGTTTCACCCGAC
255 ACCCGACCCAAATATCAATATTAAAAAACCCGACCCGACCCGAACAAAATAAAGTTTCACCCGAC
4398752 CCGACCCGAAT
320 CCGACCCGAAT
*
4398763 ATATGAATTAGAAATCCGACCCGA-C-C-CAAAATAAT-AAAAAATTATTTTTATTCAATAAAAA
1 ATATGAATTAGAAACCCGACCCGACCACACAAAATAATAAAAAAATTATTTTTATTCAATAAAAA
* *
4398824 CAGTGACTTAATTG-AAAAAATATATATATAGAGAGGGTATTATTGAAATTATTCCTAAATATAT
66 CAGTGACTTAATTGAAAAAAAT-TATATATAGAG-CGGTATTATTGAAATTATTCCTAAATATAC
*
4398888 AAGGTAAAATTATATATATTTTTCAGGT-T-GGGTATTTTTCACCCTAAACCCGAA-CTCGA-CC
129 AAGGTAAAATTATAT-T-TTTTTCAGGTGTCCGGTATTTTTCACCCTAAACCCGAACCT-GACCC
***
4398949 CGACCCGAATATCACAC-TTAAAAAAACCGACCCGACCCG-A-C-CAAATAAAGTTTCACCCGAC
191 CGACCCG--TATCACACTTTAAAAAAACCGACCCGACCCGAATCACAAATAAA--AAAACCCGAC
*
4399010 CCGACCCGACCCAAATAT
252 CCAACCCGACCCAAATAT
4399028 ATGAATTAGA
Statistics
Matches: 238, Mismatches: 18, Indels: 28
0.84 0.06 0.10
Matches are distributed among these distances:
324 6 0.03
325 1 0.00
326 23 0.10
328 11 0.05
329 53 0.22
330 59 0.25
331 50 0.21
332 2 0.01
333 9 0.04
334 1 0.00
336 23 0.10
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (330 bp):
ATATGAATTAGAAACCCGACCCGACCACACAAAATAATAAAAAAATTATTTTTATTCAATAAAAA
CAGTGACTTAATTGAAAAAAATTATATATAGAGCGGTATTATTGAAATTATTCCTAAATATACAA
GGTAAAATTATATTTTTTTCAGGTGTCCGGTATTTTTCACCCTAAACCCGAACCTGACCCCGACC
CGTATCACACTTTAAAAAAACCGACCCGACCCGAATCACAAATAAAAAAACCCGACCCAACCCGA
CCCAAATATCAATATTAAAAAACCCGACCCGACCCGAACAAAATAAAGTTTCACCCGACCCGACC
CGAAT
Found at i:4402382 original size:31 final size:31
Alignment explanation
Indices: 4402342--4402429 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
4402332 TAAGGGAGCA
* *
4402342 TCTTGGGGCCTGAGAGCCTACCCAAGAAAGT
1 TCTTCGGGCCTCAGAGCCTACCCAAGAAAGT
* * * *
4402373 TCTTCGGGCCTCTGGGCCTACCCAACAAATT
1 TCTTCGGGCCTCAGAGCCTACCCAAGAAAGT
*
4402404 TC-TCGGGGCCTTAGAGCCTACCCAAG
1 TCTTC-GGGCCTCAGAGCCTACCCAAG
4402430 GGTCACCATA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 2 0.04
31 44 0.96
ACGTcount: A:0.22, C:0.32, G:0.25, T:0.22
Consensus pattern (31 bp):
TCTTCGGGCCTCAGAGCCTACCCAAGAAAGT
Found at i:4406884 original size:33 final size:33
Alignment explanation
Indices: 4406842--4406907 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
4406832 TAGTAAGTGT
4406842 GACAATGAAATAAACCATATAAATGCACTCCAC
1 GACAATGAAATAAACCATATAAATGCACTCCAC
4406875 GACAATGAAATAAACCATATAAATGCACTCCAC
1 GACAATGAAATAAACCATATAAATGCACTCCAC
4406908 CCATACACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.24, G:0.09, T:0.18
Consensus pattern (33 bp):
GACAATGAAATAAACCATATAAATGCACTCCAC
Found at i:4411639 original size:42 final size:41
Alignment explanation
Indices: 4411556--4411787 Score: 248
Period size: 43 Copynumber: 5.5 Consensus size: 41
4411546 GCAAAAATTA
* * *
4411556 TAAGTCTTATCCTTGCACATAGCAAAAGAGCCTGGGGAAACTG
1 TAAGGCTTACCCTTGCACATAGC-AAAGAACCT-GGGAAACTG
* *
4411599 TAAGGCTGACCTTTGCACATAGCAAAGACACCTGGGAAACTG
1 TAAGGCTTACCCTTGCACATAGCAAAGA-ACCTGGGAAACTG
* *
4411641 TAAGGCTTACCCTTGTACATAGCAAAGGGACCTAGGGAAACTG
1 TAAGGCTTACCCTTGCACATAGCAAA-GAACCT-GGGAAACTG
* * * * *
4411684 TAAGGCTTACCCTTGCAAACAACAAATGGGACCTAGGAAACTG
1 TAAGGCTTACCCTTGCACATAGCAAA--GAACCTGGGAAACTG
* * *
4411727 TACGGATTACCCTTGCACACAGCAAAGGAACCTGGGAAACTG
1 TAAGGCTTACCCTTGCACATAGCAAA-GAACCTGGGAAACTG
*
4411769 TAAGGCTTACCCTTACACA
1 TAAGGCTTACCCTTGCACA
4411788 CAGGAAAGGG
Statistics
Matches: 162, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
42 71 0.44
43 84 0.52
44 7 0.04
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (41 bp):
TAAGGCTTACCCTTGCACATAGCAAAGAACCTGGGAAACTG
Found at i:4411765 original size:85 final size:85
Alignment explanation
Indices: 4411566--4411782 Score: 274
Period size: 85 Copynumber: 2.6 Consensus size: 85
4411556 TAAGTCTTAT
* * * * * * * *
4411566 CCTTGCACATAGCAAAAGAGCCTGGGGAAACTGTAAGGCTGACCTTTGCACATAGCAAAGACACC
1 CCTTGCACATAGCAAAGGAACCTAGGGAAACTGTAAGGCTTACCCTTGCAAACAACAAAGACACC
* *
4411631 TGGGAAACTGTAAGGCTTAC
66 TAGGAAACTGTAAGGATTAC
* * **
4411651 CCTTGTACATAGCAAAGGGACCTAGGGAAACTGTAAGGCTTACCCTTGCAAACAACAAATGGGAC
1 CCTTGCACATAGCAAAGGAACCTAGGGAAACTGTAAGGCTTACCCTTGCAAACAACAAA-GACAC
*
4411716 CTAGGAAACTGTACGGATTAC
65 CTAGGAAACTGTAAGGATTAC
*
4411737 CCTTGCACACAGCAAAGGAACCT-GGGAAACTGTAAGGCTTACCCTT
1 CCTTGCACATAGCAAAGGAACCTAGGGAAACTGTAAGGCTTACCCTT
4411783 ACACACAGGA
Statistics
Matches: 113, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
85 72 0.64
86 41 0.36
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (85 bp):
CCTTGCACATAGCAAAGGAACCTAGGGAAACTGTAAGGCTTACCCTTGCAAACAACAAAGACACC
TAGGAAACTGTAAGGATTAC
Found at i:4415371 original size:60 final size:60
Alignment explanation
Indices: 4415298--4415511 Score: 385
Period size: 60 Copynumber: 3.6 Consensus size: 60
4415288 TATTTTCAAT
*
4415298 CCCTCGTATTCAATCAATCACTCATCCATTATCTTGAAATATATATAAAAACAAATCAAAC
1 CCCT-GTATTCAATCAACCACTCATCCATTATCTTGAAATATATATAAAAACAAATCAAAC
4415359 CCCTGTATTCAATCAACCACTCATCCATTATCTTGAAATATATATAAAAACAAATCAAAC
1 CCCTGTATTCAATCAACCACTCATCCATTATCTTGAAATATATATAAAAACAAATCAAAC
*
4415419 CCCTGTATTCAATCAACCACTCATCCATTATCTTGAAATATATATAAAAACAAATCAATC
1 CCCTGTATTCAATCAACCACTCATCCATTATCTTGAAATATATATAAAAACAAATCAAAC
*
4415479 CCCTGTATTCAATCAAGCACTCATCCATT-TCTT
1 CCCTGTATTCAATCAACCACTCATCCATTATCTT
4415512 TCATAATTGA
Statistics
Matches: 150, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
59 4 0.03
60 142 0.95
61 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (60 bp):
CCCTGTATTCAATCAACCACTCATCCATTATCTTGAAATATATATAAAAACAAATCAAAC
Found at i:4416923 original size:42 final size:42
Alignment explanation
Indices: 4416821--4417066 Score: 359
Period size: 42 Copynumber: 5.8 Consensus size: 42
4416811 GCAAAAATGA
* * *
4416821 TAAGGCCTTATCCTTGCACATAGCAAA-AGAGCCTGGGGAAACTG
1 TAAGG-CTTACCCTTGCACACAGCAAAGGGA-CCT-GGGAAACTG
* * *
4416865 TAAGGCTGACCTTTGCACACAGCAAAGGCACCTGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAACTG
*
4416907 TAAGGCTTACACTTGCACACAGCAAAGGGACCTGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCT-GGGAAACTG
4416950 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAACTG
* *
4416992 TAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAACTG
*
4417034 TAAGGCTTACCCTTGTACACAGCAAAGGGACCT
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCT
4417067 ACTGTAACGG
Statistics
Matches: 184, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
42 117 0.64
43 61 0.33
44 6 0.03
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (42 bp):
TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAACTG
Found at i:4416932 original size:85 final size:85
Alignment explanation
Indices: 4416833--4417066 Score: 355
Period size: 85 Copynumber: 2.8 Consensus size: 85
4416823 AGGCCTTATC
* * * *
4416833 CTTGCACATAGCAAAAGAGCCTGGGGAAACTGTAAGGCTGACCTTTGCACACAGCAAAGGCACCT
1 CTTGCACACAGCAAAAGAGCCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT
4416898 GGGAAACTGTAAGGCTTACA
66 GGGAAACTGTAAGGCTTACA
*
4416918 CTTGCACACAGC-AAAGGGACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACC
1 CTTGCACACAGCAAAAGAG-CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACC
*
4416982 TGGGAAACTGTAAGGCTTACC
65 TGGGAAACTGTAAGGCTTACA
* * * *
4417003 CTTGCACACAACAAAGGAACCT-GGGAAACTGTAAGGCTTACCCTTGTACACAGCAAAGGGACCT
1 CTTGCACACAGCAAAAGAGCCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT
4417067 ACTGTAACGG
Statistics
Matches: 136, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
84 46 0.34
85 87 0.64
86 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.17
Consensus pattern (85 bp):
CTTGCACACAGCAAAAGAGCCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT
GGGAAACTGTAAGGCTTACA
Found at i:4417019 original size:127 final size:129
Alignment explanation
Indices: 4416821--4417066 Score: 381
Period size: 127 Copynumber: 1.9 Consensus size: 129
4416811 GCAAAAATGA
* * *
4416821 TAAGGCCTTATCCTTGCACATAGCAAAAGAGCCTGGGGAAACTGTAAGGCTGACCTTTGCACACA
1 TAAGGCCTTACCCTTGCACACAGCAAAAGAGCCTGGGGAAACTGTAAGGCTGACCCTTGCACACA
* *
4416886 GCAAAGGCACCTGGGAAACTGTAAGGCTTACACTTGCACACAGCAAAGGGACCTGGGGAAACTG
66 ACAAAGGAACCTGGGAAACTGTAAGGCTTACACTTGCACACAGCAAAGGGACCTGGGGAAACTG
* *
4416950 TAAGG-CTTACCCTTGCACACAGC-AAAGGGACCT-GGGAAACTGTAAGGCTTACCCTTGCACAC
1 TAAGGCCTTACCCTTGCACACAGCAAAAGAG-CCTGGGGAAACTGTAAGGCTGACCCTTGCACAC
* *
4417012 AACAAAGGAACCTGGGAAACTGTAAGGCTTACCCTTGTACACAGCAAAGGGACCT
65 AACAAAGGAACCTGGGAAACTGTAAGGCTTACACTTGCACACAGCAAAGGGACCT
4417067 ACTGTAACGG
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
127 83 0.78
128 19 0.18
129 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (129 bp):
TAAGGCCTTACCCTTGCACACAGCAAAAGAGCCTGGGGAAACTGTAAGGCTGACCCTTGCACACA
ACAAAGGAACCTGGGAAACTGTAAGGCTTACACTTGCACACAGCAAAGGGACCTGGGGAAACTG
Found at i:4420622 original size:60 final size:60
Alignment explanation
Indices: 4420545--4420762 Score: 359
Period size: 60 Copynumber: 3.7 Consensus size: 60
4420535 TCTTTTATTT
* *
4420545 TCAATCCCC-GTATTCAATCAATCACTCATCCATTATCTTGAAATATATATAAAAACAAA
1 TCAAACCCCTGTATTCAATCAACCACTCATCCATTATCTTGAAATATATATAAAAACAAA
4420604 TCAAACCCCTGTATTCAATCAACCACTCATCCATTATCTTGAAATATATATAAAAACAAA
1 TCAAACCCCTGTATTCAATCAACCACTCATCCATTATCTTGAAATATATATAAAAACAAA
*
4420664 TCAAACCCCTGTATTCAATCAACCACTCATCCATTATCTTGATATATATATAAAAACAAA
1 TCAAACCCCTGTATTCAATCAACCACTCATCCATTATCTTGAAATATATATAAAAACAAA
* * * *
4420724 TCAATCCCTTGTATTCAATCATCCACTCATCGATT-TCTT
1 TCAAACCCCTGTATTCAATCAACCACTCATCCATTATCTT
4420763 TCATAATTGA
Statistics
Matches: 151, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
59 12 0.08
60 139 0.92
ACGTcount: A:0.39, C:0.26, G:0.04, T:0.32
Consensus pattern (60 bp):
TCAAACCCCTGTATTCAATCAACCACTCATCCATTATCTTGAAATATATATAAAAACAAA
Found at i:4422426 original size:20 final size:21
Alignment explanation
Indices: 4422401--4422493 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
4422391 TTTTCCCAAT
*
4422401 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4422421 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
4422442 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4422462 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
4422483 TCGCAATGCGA
1 TCGCAATGCGA
4422494 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:4422507 original size:20 final size:20
Alignment explanation
Indices: 4422482--4422576 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
4422472 AATTGGGAAA
*
4422482 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
4422502 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
4422523 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
4422543 TTCGTAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
4422563 TTCGCAACGCGATA
1 ATCGCAACGCGATA
4422577 ATACATAATC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
20 45 0.76
21 14 0.24
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:4422508 original size:41 final size:41
Alignment explanation
Indices: 4422401--4422493 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
4422391 TTTTCCCAAT
4422401 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
4422442 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
4422483 TCGCAATGCGA
1 TCGCAATGCGA
4422494 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:4422524 original size:41 final size:41
Alignment explanation
Indices: 4422479--4422556 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
4422469 GCGAATTGGG
* * *
4422479 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* * *
4422520 AAAATCGCAACGAGATACTTACTTTCGTAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
4422557 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:4422792 original size:22 final size:22
Alignment explanation
Indices: 4422764--4422807 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4422754 CACTCTCTCA
4422764 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
4422786 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
4422808 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:4423109 original size:20 final size:20
Alignment explanation
Indices: 4423086--4423128 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
4423076 GATAGTCGAA
*
4423086 TTCGCGTTGCGATTTTTATT
1 TTCGCGTTGCGATTTTCATT
*
4423106 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
4423126 TTC
1 TTC
4423129 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.16, G:0.19, T:0.56
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Done.