Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000305.1 Hibiscus syriacus cultivar Beakdansim tig00000574_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: 199618
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:155584 original size:21 final size:21
Alignment explanation
Indices: 155560--155603 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
155550 AAGACAATCA
155560 AGAGTCAAAGAGAAACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
* *
155581 AGAGTCGAAGAGACACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
155602 AG
1 AG
155604 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.32, T:0.14
Consensus pattern (21 bp):
AGAGTCAAAGAGAAACTTGAG
Found at i:155674 original size:33 final size:33
Alignment explanation
Indices: 155637--155786 Score: 179
Period size: 33 Copynumber: 5.0 Consensus size: 33
155627 AAATAGATGG
155637 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
*
155670 AGTGGTGAAAGAAGTTGAGCTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
155703 AGTGGTGAAAG-A----A---GTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
155728 AGTGGTGAAAGAAGTT---G-----AGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
155753 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
155786 A
1 A
155787 CTTAAGATGG
Statistics
Matches: 103, Mismatches: 1, Indels: 26
0.79 0.01 0.20
Matches are distributed among these distances:
25 47 0.46
26 1 0.01
28 2 0.02
32 1 0.01
33 52 0.50
ACGTcount: A:0.29, C:0.01, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
Found at i:155686 original size:25 final size:25
Alignment explanation
Indices: 155658--155772 Score: 158
Period size: 25 Copynumber: 4.3 Consensus size: 25
155648 AAGTTGAGGT
155658 GTTGAGGGGTGAAGTGGTGAAAGAA
1 GTTGAGGGGTGAAGTGGTGAAAGAA
155683 GTTGAGCTGTTGAGGGGTGAAGTGGTGAAAGAA
1 G-T----TG---AGGGGTGAAGTGGTGAAAGAA
155716 GTTGAGGGGTGAAGTGGTGAAAGAA
1 GTTGAGGGGTGAAGTGGTGAAAGAA
155741 GTTGAGGGGTGAAGTGGTGAAAGAA
1 GTTGAGGGGTGAAGTGGTGAAAGAA
155766 GTTGAGG
1 GTTGAGG
155773 TGTTGAGGGG
Statistics
Matches: 82, Mismatches: 0, Indels: 16
0.84 0.00 0.16
Matches are distributed among these distances:
25 54 0.66
26 1 0.01
28 2 0.02
30 2 0.02
32 1 0.01
33 22 0.27
ACGTcount: A:0.30, C:0.01, G:0.48, T:0.22
Consensus pattern (25 bp):
GTTGAGGGGTGAAGTGGTGAAAGAA
Found at i:155778 original size:58 final size:58
Alignment explanation
Indices: 155636--155786 Score: 191
Period size: 58 Copynumber: 2.6 Consensus size: 58
155626 AAAATAGATG
* *
155636 GAGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGCTGTT
1 GAGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGCGGGT
* * * **
155694 GAGGGGTG-AAG-TGGTGAAAGAAGTTGAGGGGTGAAGTGGTGAAAGAAGTTGAG-GGGT
1 GAGTGGTGAAAGAAGTTG--AGGTGTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGCGGGT
155751 GAAGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGAA
1 G-AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGAA
155787 CTTAAGATGG
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
56 3 0.04
57 6 0.08
58 61 0.80
59 3 0.04
60 3 0.04
ACGTcount: A:0.29, C:0.01, G:0.48, T:0.23
Consensus pattern (58 bp):
GAGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGCGGGT
Found at i:155785 original size:50 final size:50
Alignment explanation
Indices: 155691--155786 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
155681 AAGTTGAGCT
*
155691 GTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGGGGTGAAGTGGTGAAAGAA
1 GTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGGGGTGAAGGGGTGAAAGAA
*
155741 GTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGGTGTTG-AGGGGTGAA
1 GTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGG-GGTGAAGGGGTGAA
155787 CTTAAGATGG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 40 0.93
51 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.49, T:0.22
Consensus pattern (50 bp):
GTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGGGGTGAAGGGGTGAAAGAA
Found at i:155786 original size:25 final size:25
Alignment explanation
Indices: 155691--155772 Score: 164
Period size: 25 Copynumber: 3.3 Consensus size: 25
155681 AAGTTGAGCT
155691 GTTGAGGGGTGAAGTGGTGAAAGAA
1 GTTGAGGGGTGAAGTGGTGAAAGAA
155716 GTTGAGGGGTGAAGTGGTGAAAGAA
1 GTTGAGGGGTGAAGTGGTGAAAGAA
155741 GTTGAGGGGTGAAGTGGTGAAAGAA
1 GTTGAGGGGTGAAGTGGTGAAAGAA
155766 GTTGAGG
1 GTTGAGG
155773 TGTTGAGGGG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.30, C:0.00, G:0.49, T:0.21
Consensus pattern (25 bp):
GTTGAGGGGTGAAGTGGTGAAAGAA
Found at i:155997 original size:18 final size:18
Alignment explanation
Indices: 155970--156026 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
155960 GAAAAAATAT
155970 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
155988 GAATAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
* *
156006 GAAGAAGAAAATATAGAG
1 GAAGAAGAAAAGATGGAG
156024 GAA
1 GAA
156027 ATGAGGAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:158681 original size:199 final size:200
Alignment explanation
Indices: 157958--159117 Score: 1440
Period size: 199 Copynumber: 5.8 Consensus size: 200
157948 GTAAGCAGAT
* * *
157958 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* *
158023 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATATGAGAATATGTCTACATAATGT
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATGT
* * * *
158088 ATCGACGCTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
131 ATCGACACTTATGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGC
158153 ATAAA
196 ATAAA
** * *
158158 GTGTAAATACATTTATAAAAAAGTATCGATCCTAGAAACATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTT-TTAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* ** * ** * * * *
158223 AGGTAAATTTACAATGTAACTGAAATAACTATACCGATTTTATAAGAGAATATGTCTACATAATG
65 AGGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATG
* * *
158288 TATCGACACTTATGTAATTTGTGTCGATA-TTGTTTGTCCAGAAGGAATGCCCAAAAGGGTGCAC
130 TATCGACACTTATGAAATTTGTGTCGATACTT-TTTGTCCAGAATGAATGCCCAAAATGGTGCAC
*
158352 CCATAAA
194 GCATAAA
* * * *
158359 GTGTCGATACAGTTTTT-AAAAGTATCGATCACAGAGACATCGAAATCCATAATTATAATATAAT
1 GTGTCGATACA-TTTTTAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* * *
158423 AGGTAATTTTTTAATGTAACCGGTATAAATATACTGGTTTTATGTGAGAATAGGTCTACATAATG
65 AGGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATG
* *
158488 TATCGACACATT-TGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAAC
130 TATCGACAC-TTATGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCAC
158552 GCATAAA
194 GCATAAA
* * *
158559 GTGTTGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCG-AACCCATAATTATAATGTAATA
1 GTGTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
158623 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACAAAATGT
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATGT
* ** * *
158688 ATCGATACTT-TTTAATTATGTGTCGATACATTTTATCCAGAATGAATGCCCAAAAAAATGGTGC
131 ATCGACACTTATGAAATT-TGTGTCGATACTTTTTGTCCAGAATGAATGCCC---AAAATGGTGC
158752 ACGCATAAA
192 ACGCATAAA
* * * * *
158761 GTATTGATACATTTAT-AAAAGTATCAATCCCAGAAACATCGAAACCCATGATTATAATGTAATA
1 GTGTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
158825 GGAAATTTT-TCAATGTAACCGGTATAAATATACCGGTTTTATACGAGAATAGGTCTAGAAAATG
66 GGTAATTTTGT-AATGTAACCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATG
* * * * *
158889 TATCGACACTTCTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CTAAAAGGGTGCACC
130 TATCGACACTTATGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACG
*
158953 CATTAA
195 CATAAA
* * * * ***
158959 GTGTCGATACATTTTTAAAAAATGTCGATCCCAAAAACATTGAAACTGGTAATTATAATGTAATA
1 GTGTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* ** * * *
159024 GGTAAATTTCCAATGTAACCGATATAAATATACCGGTTTTATGA-GAAAATAGGTC-AGCATAAA
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTAT-ATGAGAATAGGTCTA-CATAAT
* * * *
159087 GTATCGACAATTGTTAAATTTGTTTCGATAC
129 GTATCGACACTTATGAAATTTGTGTCGATAC
159118 CATTTTAAAA
Statistics
Matches: 831, Mismatches: 112, Indels: 35
0.85 0.11 0.04
Matches are distributed among these distances:
198 37 0.04
199 238 0.29
200 202 0.24
201 198 0.24
202 151 0.18
203 5 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (200 bp):
GTGTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATGT
ATCGACACTTATGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGC
ATAAA
Found at i:158782 original size:401 final size:398
Alignment explanation
Indices: 157961--159095 Score: 1544
Period size: 401 Copynumber: 2.8 Consensus size: 398
157951 AGCAGATGTG
* *
157961 TCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGT
1 TCGATACATTTAT-AAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
* * *
158026 AATTTTGTAATATAACCGGTATAAATATACCGGTTTTATATGAGAATATGTCTACATAATGTATC
65 AATTTTTTAATGTAACCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATGTATC
*
158091 GACGCTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATA
130 GACAC-TTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATA
* * * *
158156 AAGTGTAAATACATTTATAAAAAAGTATCGATCCTAGAAACATCGAAACCCATAATTATAATGTA
194 AAGTGTAGATACATTT-TTAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTA
* * * * * *
158221 ATAGGTAAATTTACAATGTAACTGAAATAACTATACCGATTTTATAAGAGAATATGTCTACATAA
258 ATAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAGAATATGTCTACAAAA
* *
158286 TGTATCGACACTTATGTAATTTGTGTCGATATTGTTTGTCCAGAAGGAATGCCCAAAAGGGTGCA
323 TGTATCGACACTTATGTAATTTGTGTCGATAATGTTTATCCAGAAGGAATGCCCAAAAGGGTGCA
*
158351 CCCATAAAGTG
388 CCCATAAAGTA
* * * * *
158362 TCGATACAGTTTTTAAAAGTATCGATCACAGAGACATCGAAATCCATAATTATAATATAATAGGT
1 TCGATACA-TTTATAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
* *
158427 AATTTTTTAATGTAACCGGTATAAATATACTGGTTTTATGTGAGAATAGGTCTACATAATGTATC
65 AATTTTTTAATGTAACCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATGTATC
158492 GACACATTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATA
130 GACAC-TTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATA
* *
158557 AAGTGTTGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCG-AACCCATAATTATAATGTAA
194 AAGTGTAGATACATTTTTAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAA
* ** * *
158621 TAGGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACAAAAT
259 TAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAGAATATGTCTACAAAAT
* * * *
158686 GTATCGATACTT-TTTAATTATGTGTCGATACAT-TTTATCCAGAATGAATGCCCAAAAAAATGG
324 GTATCGACACTTATGTAATT-TGTGTCGATA-ATGTTTATCCAGAAGGAATGCCC---AAAAGGG
*
158749 TGCACGCATAAAGTA
384 TGCACCCATAAAGTA
* * * *
158764 TTGATACATTTATAAAAGTATCAATCCCAGAAACATCGAAACCCATGATTATAATGTAATAGGAA
1 TCGATACATTTATAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTA
* * * *
158829 ATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATACGAGAATAGGTCTAGAAAATGTATCG
66 ATTTTTTAATGTAACCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATGTATCG
* * * * * * *
158894 ACACTTCTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CTAAAAGGGTGCACCCATTA
131 ACACTT-TGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATAA
* * * * ***
158958 AGTGTCGATACATTTTTAAAAAATGTCGATCCCAAAAACATTGAAACTGGTAATTATAATGTAAT
195 AGTGTAGATACATTTTTAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* * *
159023 AGGTAAATTTCCAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTC-AGCATAAA
260 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAGAATATGTCTA-CA-AAA
159087 -GTATCGACA
323 TGTATCGACA
159096 ATTGTTAAAT
Statistics
Matches: 647, Mismatches: 77, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
398 6 0.01
399 113 0.17
400 81 0.13
401 414 0.64
402 33 0.05
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (398 bp):
TCGATACATTTATAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTA
ATTTTTTAATGTAACCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATGTATCG
ACACTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATAAA
GTGTAGATACATTTTTAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAGAATATGTCTACAAAATGT
ATCGACACTTATGTAATTTGTGTCGATAATGTTTATCCAGAAGGAATGCCCAAAAGGGTGCACCC
ATAAAGTA
Found at i:159117 original size:600 final size:600
Alignment explanation
Indices: 157958--159117 Score: 1638
Period size: 600 Copynumber: 1.9 Consensus size: 600
157948 GTAAGCAGAT
*
157958 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
*
158023 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATATGAGAATATGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATATGAGAATATGTCTACAAAATGT
* * *
158088 ATCGACGCTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
131 ATCGACACTTTTGAAATTGGTGTCGATACATTTTATCCAGAATGAATGCCCAAAATGGTGAACGC
* * *
158153 ATAAAGTGTAAATACATTTATAAAAAAGTATCGATCCTAGAAACATCGAAACCCATAATTATAAT
196 ATAAAGTATAAATACATTTAT-AAAAAGTATCAATCCCAGAAACATCGAAACCCATAATTATAAT
* * *
158218 GTAATAGGTAAATTTACAATGTAACTGAAATAACTATACCGATTTTATAAGAGAATATGTCTACA
260 GTAATAGGTAAATTTACAATGTAACCGAAATAAATATACCGATTTTATAAGAGAATAGGTCTACA
* *
158283 TAATGTATCGACACTTATGTAATTTGTGTCGATATTGTTTGTCCAGAAGGAATGCCCAAAAGGGT
325 AAATGTATCGACACTTATGGAATTTGTGTCGATATTGTTTGTCCAGAAGGAATGCCCAAAAGGGT
* * *
158348 GCACCCATAAAGTGTCGATACAGTTTTTAAAAGTATCGATCACAGAGACATCGAAATCCATAATT
390 GCACCCATAAAGTGTCGATACAGTTTTTAAAAATATCGATCACAAAAACATCGAAATCCATAATT
* ** * * * *
158413 ATAATATAATAGGTAATTTTTTAATGTAACCGGTATAAATATACTGGTTTTATGTGAGAATAGGT
455 ATAATATAATAGGTAAATTTCCAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGT
*
158478 CTACATAATGTATCGACACATTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
520 CTACATAAAGTATCGACACATTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
158543 ATGGTGAACGCATAAA
585 ATGGTGAACGCATAAA
* * * * *
158559 GTGTTGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCG-AACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
158623 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACAAAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATATGAGAATATGTCTACAAAATGT
* * * *
158688 ATCGATACTTTT-TAATTATGTGTCGATACATTTTATCCAGAATGAATGCCCAAAAAAATGGTGC
131 ATCGACACTTTTGAAATT-GGTGTCGATACATTTTATCCAGAATGAATGCCC---AAAATGGTGA
** *
158752 ACGCATAAAGTATTGATACATTTAT-AAAAGTATCAATCCCAGAAACATCGAAACCCATGATTAT
192 ACGCATAAAGTATAAATACATTTATAAAAAGTATCAATCCCAGAAACATCGAAACCCATAATTAT
* ** * *
158816 AATGTAATAGG-AAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATACGAGAATAGGTC
257 AATGTAATAGGTAAA-TTTACAATGTAACCGAAATAAATATACCGATTTTATAAGAGAATAGGTC
* * * *
158880 TAGAAAATGTATCGACACTTCTGGAATTTGTGTCGATACTT-TTTGTCCAGAATGAATG-CTAAA
321 TACAAAATGTATCGACACTTATGGAATTTGTGTCGATA-TTGTTTGTCCAGAAGGAATGCCCAAA
* * * *
158943 AGGGTGCACCCATTAAGTGTCGATACA-TTTTTAAAAAATGTCGATCCCAAAAACATTGAAA-CT
385 AGGGTGCACCCATAAAGTGTCGATACAGTTTTT-AAAAATATCGATCACAAAAACATCGAAATC-
** *
159006 GGTAATTATAATGTAATAGGTAAATTTCCAATGTAACCGATATAAATATACCGGTTTTATGAGAA
448 CATAATTATAATATAATAGGTAAATTTCCAATGTAACCGATATAAATATACCGGTTTTATGAGAA
* * *
159071 AATAGGTC-AGCATAAAGTATCGACA-ATTGTTAAATTTGTTTCGATAC
513 AATAGGTCTA-CATAAAGTATCGACACATT-TGAAATTGGTGTCGATAC
159118 CATTTTAAAA
Statistics
Matches: 492, Mismatches: 57, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
599 14 0.03
600 271 0.55
601 174 0.35
602 2 0.00
603 31 0.06
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (600 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATATGAGAATATGTCTACAAAATGT
ATCGACACTTTTGAAATTGGTGTCGATACATTTTATCCAGAATGAATGCCCAAAATGGTGAACGC
ATAAAGTATAAATACATTTATAAAAAGTATCAATCCCAGAAACATCGAAACCCATAATTATAATG
TAATAGGTAAATTTACAATGTAACCGAAATAAATATACCGATTTTATAAGAGAATAGGTCTACAA
AATGTATCGACACTTATGGAATTTGTGTCGATATTGTTTGTCCAGAAGGAATGCCCAAAAGGGTG
CACCCATAAAGTGTCGATACAGTTTTTAAAAATATCGATCACAAAAACATCGAAATCCATAATTA
TAATATAATAGGTAAATTTCCAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTC
TACATAAAGTATCGACACATTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA
TGGTGAACGCATAAA
Found at i:161940 original size:24 final size:24
Alignment explanation
Indices: 161913--161959 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
161903 TTTCATATGT
* *
161913 AATTGGAGTTTGAATTTAAATTTC
1 AATTGGAGTTTCAATATAAATTTC
*
161937 AATTTGAGTTTCAATATAAATTT
1 AATTGGAGTTTCAATATAAATTT
161960 TGACTCCACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTGGAGTTTCAATATAAATTTC
Found at i:164217 original size:199 final size:199
Alignment explanation
Indices: 163295--164261 Score: 1228
Period size: 200 Copynumber: 4.8 Consensus size: 199
163285 TAAAGTTTCC
* * **
163295 CATAAAGTGTCGATACATGTTTAAAAAGTATCGATCCCAAAAACATCGAAACAGAAAACAATAAT
1 CATAAAGTGTCGATACAT-TTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * *
163360 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACC-ATTTTTTTAGA-AACTAGAT-ATA
65 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAA-TAGGTCA-A
* * * *
163422 CATTATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACGTG
128 CATAATGTATCGACACTTTTAGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACGGG
163487 GTGCACG
193 GTGCACG
* *
163494 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCACAAAAACATCGAAACCTATAATTATAAT
1 CATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * * *
163559 GTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTATA
65 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAACA
* * * * * * * **
163624 TAATGTGTCGATA-TTTTTGAATTTTGTATCGATACTTTTTGTCCAGAATGATTACCCAAA-ATG
130 TAATGTATCGACACTTTTAGAA-TTTGTGTCGATACTTTTTGTCCAAAATGAAT-GCCAAACGGG
*
163687 GTGAACG
193 GTGCACG
** * *
163694 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCATAGAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTT-TAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * *
163759 GTAATAGGTAAATTTACAATGTAACCGGTATAACTATACCGATTTTATGAGAGAATAGGTCTACA
65 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAACA
** * * * * *
163824 TAATGTATCGACACTAGTGGAATTTGTGTCAATACTTTTTTTCCAAAATGAATGCCAAAAGGGTT
130 TAATGTATCGACACTTTTAGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACGGGGT
*
163889 GTACG
195 GCACG
*
163894 CATAAAGTGTCGATACATTTTTAAAAAGTATTGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * *
163959 GTAATAGGTAAATTTACAATGTAACCGGCATAAATTTACTGGTTTTATGAGAAAATAGGTGAACA
65 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAACA
* * *
164024 TAATGTATCGACACATTTTAG-ATTTGTGTTGATACATTTTGTCCAGAATGAATGCCAAACGGGG
130 TAATGTATCGACAC-TTTTAGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACGGGG
*
164088 TGCAGG
194 TGCACG
* * ** *
164094 CACAAAGTGTCGATACATTTGAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAACG
1 CATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* *
164159 TAATAGGTAAATTTAAAACGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAACAT
66 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAACAT
* *
164224 AATGTATCGACATTTTTA-AATTTATGTCGATACTTTTT
131 AATGTATCGACACTTTTAGAATTTGTGTCGATACTTTTT
164262 AAATAACACG
Statistics
Matches: 662, Mismatches: 94, Indels: 25
0.85 0.12 0.03
Matches are distributed among these distances:
198 21 0.03
199 221 0.33
200 402 0.61
201 18 0.03
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (199 bp):
CATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAACAT
AATGTATCGACACTTTTAGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACGGGGTG
CACG
Found at i:165848 original size:19 final size:19
Alignment explanation
Indices: 165824--165872 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
165814 AATGTAGGGT
*
165824 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTCA
** *
165843 TAATTTTACATACGATTCA
1 TAATTTTGTATAAGATTCA
165862 TAATTTTGTAT
1 TAATTTTGTAT
165873 GTGACTGTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (19 bp):
TAATTTTGTATAAGATTCA
Found at i:169388 original size:18 final size:18
Alignment explanation
Indices: 169365--169419 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
169355 AGATCCGGAC
*
169365 GAGGCGGTTATGGTGGAG
1 GAGGCGGTTACGGTGGAG
* *
169383 GAGGCGGTTACGGTAGCG
1 GAGGCGGTTACGGTGGAG
*
169401 GCGGCGGTTACGGTGGAG
1 GAGGCGGTTACGGTGGAG
169419 G
1 G
169420 TGGATCTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.15, C:0.13, G:0.55, T:0.18
Consensus pattern (18 bp):
GAGGCGGTTACGGTGGAG
Found at i:170798 original size:23 final size:23
Alignment explanation
Indices: 170764--170807 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
170754 TTAAAGTATA
170764 TTTTATTATATTTAAAATTTTGT
1 TTTTATTATATTTAAAATTTTGT
*
170787 TTTTAATT-TATTTAATATTTT
1 TTTT-ATTATATTTAAAATTTT
170808 ATTTAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTATTATATTTAAAATTTTGT
Found at i:173687 original size:47 final size:48
Alignment explanation
Indices: 173589--173772 Score: 239
Period size: 47 Copynumber: 3.9 Consensus size: 48
173579 TTCTCTTAAG
*
173589 AGGTATATAATTGATCATGAAATATATTCCATTACTATTGGTGAGTTT
1 AGGTATATGATTGATCATGAAATATATTCCATTACTATTGGTGAGTTT
* ** *
173637 AGGTGTATGATTGATCATGAAATATATTTGA-TACTATTTGTGAGTTT
1 AGGTATATGATTGATCATGAAATATATTCCATTACTATTGGTGAGTTT
* *
173684 AGGTCTATGATTGACCATGAAATATATTCCATTACTATTGGTGAG--T
1 AGGTATATGATTGATCATGAAATATATTCCATTACTATTGGTGAGTTT
* * * * *
173730 AGGTATTTGATTGATAATGAAATATGTTCCAATCCTATTGGTG
1 AGGTATATGATTGATCATGAAATATATTCCATTACTATTGGTG
173773 GGGTGAAACG
Statistics
Matches: 118, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
46 37 0.31
47 42 0.36
48 39 0.33
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (48 bp):
AGGTATATGATTGATCATGAAATATATTCCATTACTATTGGTGAGTTT
Found at i:174886 original size:3 final size:3
Alignment explanation
Indices: 174878--174932 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
174868 TTTTACTTAA
* *
174878 ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATAT ATAT ATAT ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T AT-T AT-T AT-T
174927 ATT ATT
1 ATT ATT
174933 TAATAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
3 32 0.68
4 15 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:174903 original size:18 final size:18
Alignment explanation
Indices: 174875--174944 Score: 77
Period size: 18 Copynumber: 3.5 Consensus size: 18
174865 TTATTTTACT
174875 TAAATTATTATTATTATTA
1 TAAA-TATTATTATTATTA
174894 TAAATATTATTATTATTA
1 TAAATATTATTATTATTA
174912 TATATATATATATATATTATTTAA
1 TA-A-ATAT-TAT-TATTA-TT-A
174936 TAAATATTA
1 TAAATATTA
174945 CAAACCCAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
18 16 0.36
19 5 0.11
20 4 0.09
21 5 0.11
22 9 0.20
23 3 0.07
24 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAAATATTATTATTATTA
Found at i:175978 original size:29 final size:29
Alignment explanation
Indices: 175946--176001 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
175936 GTCACTGAAA
175946 TTAATTTCTA-ATTATTTTAATTTAGTCTT
1 TTAATTT-TATATTATTTTAATTTAGTCTT
*
175975 TTAATTTTATTTTATTTTAATTTAGTC
1 TTAATTTTATATTATTTTAATTTAGTC
176002 CTTATCAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (29 bp):
TTAATTTTATATTATTTTAATTTAGTCTT
Found at i:176322 original size:2 final size:2
Alignment explanation
Indices: 176310--176342 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
176300 TTATTATTAT
*
176310 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
176343 TTTAAATCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:176619 original size:17 final size:17
Alignment explanation
Indices: 176597--176634 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
176587 ATATTTTATT
176597 TATATTTTATATATAAA
1 TATATTTTATATATAAA
* *
176614 TATATTTTTTATATAAT
1 TATATTTTATATATAAA
176631 TATA
1 TATA
176635 ACTTTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:180679 original size:28 final size:28
Alignment explanation
Indices: 180647--180702 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
180637 GAAATGGGGG
180647 GAAGAAAAGAACCTTGATCCTATTACAT
1 GAAGAAAAGAACCTTGATCCTATTACAT
180675 GAAGAAAAGAACCTTGATCCTATTACAT
1 GAAGAAAAGAACCTTGATCCTATTACAT
180703 ATCATTATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (28 bp):
GAAGAAAAGAACCTTGATCCTATTACAT
Found at i:181478 original size:2 final size:2
Alignment explanation
Indices: 181471--181502 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
181461 TTATCCTTTA
181471 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
181503 CCTTTGTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:184324 original size:114 final size:114
Alignment explanation
Indices: 184124--184341 Score: 339
Period size: 114 Copynumber: 1.9 Consensus size: 114
184114 TGTTCTCGTA
* * *
184124 GTAGAAATAAAGAGACCCAATAGCATCTTCTGGAATTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 GTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGG
* * *
184189 TATGAACCCCAAAACCAATCATTGGATTTGA-AAGATGAATTTGCTCATG
66 TAGGAACCACAAAACCAATCATTGGAATT-ATAAGATGAATTTGCTCATG
* *
184238 GTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGG
1 GTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGG
*
184303 TAGGAACCACAGAACCAATCATTGGAATTATAAGATGAA
66 TAGGAACCACAAAACCAATCATTGGAATTATAAGATGAA
184342 CTGCATGATC
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
113 1 0.01
114 93 0.99
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (114 bp):
GTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGG
TAGGAACCACAAAACCAATCATTGGAATTATAAGATGAATTTGCTCATG
Found at i:186751 original size:22 final size:22
Alignment explanation
Indices: 186722--186776 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
186712 ATCTACACTC
*
186722 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
186744 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
186766 TTCAAAGATGA
1 TTCAAAGATGA
186777 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:187532 original size:76 final size:76
Alignment explanation
Indices: 187450--188196 Score: 1254
Period size: 76 Copynumber: 9.9 Consensus size: 76
187440 CTATTTCCCA
*
187450 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
187515 AGCCTTCGGGT
66 AGCCTTCGGGT
187526 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
187591 AGCCTTCGGGT
66 AGCCTTCGGGT
*
187602 CATCTGTAAGTTCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
187667 AGCCTTCGGGT
66 AGCCTTCGGGT
187678 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
187743 AGCCTTCGGGT
66 AGCCTTCGGGT
*
187754 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
187819 AACCTTAGGGT
66 AGCCTTCGGGT
* *
187830 CATCTGCAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTTGATG-TTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG-CTTTTTGATGTTTTCA
*
187894 AAGCCTTAGGGT
65 AAGCCTTCGGGT
187906 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG-TTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
187969 AGCCTTAGGGT
66 AGCCTTCGGGT
* * *
187980 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGAAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
188045 A-CCCTCAGGGT
66 AGCCTTC-GGGT
* * *
188056 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
188121 A-CCCTCAGGGT
66 AGCCTTC-GGGT
* *
188132 CATTTGTAAGTCCTGCAGTGCATGATGTTT-CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
188196 A
66 A
188197 CCCTCATGAT
Statistics
Matches: 646, Mismatches: 21, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
74 72 0.11
75 44 0.07
76 521 0.81
77 9 0.01
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:188374 original size:17 final size:16
Alignment explanation
Indices: 188364--188397 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
188354 TTATTTTACT
188364 TAAATTATTATTATTA
1 TAAATTATTATTATTA
188380 TAAATATATTATTATTA
1 TAAAT-TATTATTATTA
188397 T
1 T
188398 TTATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAAATTATTATTATTA
Found at i:188393 original size:23 final size:23
Alignment explanation
Indices: 188367--188428 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 23
188357 TTTTACTTAA
188367 ATTATTA-TTATTATAAATATATT
1 ATTATTATTTA-TATAAATATATT
188390 ATTATTATTTATAT--ATATA-T
1 ATTATTATTTATATAAATATATT
188410 ATTATTATTTA-ATAAATAT
1 ATTATTATTTATATAAATAT
188429 TACAAACCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
19 2 0.06
20 12 0.33
21 9 0.25
23 10 0.28
24 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTATTATTTATATAAATATATT
Found at i:189970 original size:111 final size:111
Alignment explanation
Indices: 189848--190068 Score: 254
Period size: 109 Copynumber: 2.0 Consensus size: 111
189838 CATAAATTAC
* * *
189848 TTTTAATAATTATGTTTTAATATATTTATTTA-TTTTTAATAT-TAAGAAATG-GCAGTCTTAAA
1 TTTTAATAATTA--TATTAAT-TATTTATTTATTTTTTAATATCGAAGAAAAGAGCAGTCTTAAA
* * *
189910 ATAACTGGATGTCTATTTTCTGATATTT-TAAATAAATAAATATCTTATTG
63 ACAACTAGAAGTC--TTTTCTGATATTTCTAAATAAATAAATATCTTATTG
* * **
189960 TTTTAA-AATTATATTAATTGTTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGGCA
1 TTTTAATAATTATATTAATTATTTATTTATTTTTTAATATCGAAGAAAAGAGCAGTCTTAAAACA
* *
190024 CCTAGAAGTCTTTTCTGATATTTCTAAATAAATAAATATTTTATT
66 ACTAGAAGTCTTTTCTGATATTTCTAAATAAATAAATATCTTATT
190069 TATATTTTAT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
108 9 0.10
109 29 0.31
110 27 0.29
111 22 0.24
112 6 0.06
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.48
Consensus pattern (111 bp):
TTTTAATAATTATATTAATTATTTATTTATTTTTTAATATCGAAGAAAAGAGCAGTCTTAAAACA
ACTAGAAGTCTTTTCTGATATTTCTAAATAAATAAATATCTTATTG
Found at i:189998 original size:109 final size:109
Alignment explanation
Indices: 189872--190068 Score: 256
Period size: 110 Copynumber: 1.8 Consensus size: 109
189862 TTTTAATATA
* * * * *
189872 TTTATTTATTTTTAATAT-TAAGAAATG-GCAGTCTTAAAATAACTGGATGTCTATTTTCTGATA
1 TTTATTTATTTTTAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTC--TTTTCTGATA
189935 TTT-TAAATAAATAAATATCTTATTGTTTTAAAATTATATTAATTG
64 TTTCTAAATAAATAAATATCTTATTGTTTTAAAATTATATTAATTG
* ** *
189980 TTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCTTTTCTGATAT
1 TTTATTTA-TTTTTAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCTTTTCTGATAT
*
190045 TTCTAAATAAATAAATATTTTATT
65 TTCTAAATAAATAAATATCTTATT
190069 TATATTTTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
108 8 0.11
109 23 0.31
110 27 0.36
111 17 0.23
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (109 bp):
TTTATTTATTTTTAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCTTTTCTGATATT
TCTAAATAAATAAATATCTTATTGTTTTAAAATTATATTAATTG
Found at i:192992 original size:140 final size:139
Alignment explanation
Indices: 192766--193038 Score: 537
Period size: 140 Copynumber: 2.0 Consensus size: 139
192756 AGCACCAAAG
192766 ATGTAAGTCCATGTCCTCTTGTCCAGATTGTCATTTATGTAATATAGTTGCTGTAATAGCAAAAC
1 ATGTAAGTCCATGTCCTCTTGTCCAGATTGTCATTTATGTAATATAGTTGCTGTAATAGCAAAAC
192831 AAAAGATACCCAGCATCAGGGAATTTATTGTCAGGGTGCATGCATGATGATGATTCCTCTCTCTC
66 AAAAGATACCCAGCATCAGGGAATTTATTGTCAGGGTGCATGCATGATGATGATTCCTCTCTCTC
192896 TCTAAATAT
131 TCTAAATAT
192905 ATGTAAGTCCATGTCCTCTTGTCCAGATTGTCATTTATGTAATATATGTTGCTGTAATAGCAAAA
1 ATGTAAGTCCATGTCCTCTTGTCCAGATTGTCATTTATGTAATATA-GTTGCTGTAATAGCAAAA
192970 CAAAAGATACCCAGCATCAGGGAATTTATTGTCAGGGTGCATGCATGATGATGATTCCTCTCTCT
65 CAAAAGATACCCAGCATCAGGGAATTTATTGTCAGGGTGCATGCATGATGATGATTCCTCTCTCT
193035 CTCT
130 CTCT
193039 CTCTCTCTAA
Statistics
Matches: 133, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
139 46 0.35
140 87 0.65
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (139 bp):
ATGTAAGTCCATGTCCTCTTGTCCAGATTGTCATTTATGTAATATAGTTGCTGTAATAGCAAAAC
AAAAGATACCCAGCATCAGGGAATTTATTGTCAGGGTGCATGCATGATGATGATTCCTCTCTCTC
TCTAAATAT
Found at i:193937 original size:2 final size:2
Alignment explanation
Indices: 193932--193960 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
193922 TTGAGGGGGG
193932 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
193961 CATACATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:196757 original size:24 final size:24
Alignment explanation
Indices: 196696--196748 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
196686 AGCTCATTTA
196696 TATATACATCAACATATATTCATG
1 TATATACATCAACATATATTCATG
196720 TATATACATCAACATATATTCATG
1 TATATACATCAACATATATTCATG
196744 TATAT
1 TATAT
196749 TATGTAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (24 bp):
TATATACATCAACATATATTCATG
Found at i:197200 original size:23 final size:23
Alignment explanation
Indices: 197140--197208 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
197130 CACCACAGCT
* * *
197140 CGTATAATTGCACCAAAGTACCA
1 CGTAGAATTGCACCGAAGTGCCA
*
197163 CGTAGAATTGCACCGGAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
197186 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
197209 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:198716 original size:21 final size:21
Alignment explanation
Indices: 198674--198734 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
198664 TTCGCTTGAG
*
198674 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
198696 GGGTACCGATTCCCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
198717 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
198735 CCTAGAAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 24 0.63
22 14 0.37
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.30
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Done.