Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008187.1 Hibiscus syriacus cultivar Beakdansim tig00110794_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: 1300289
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 3 of 5
Found at i:697439 original size:27 final size:26
Alignment explanation
Indices: 697409--697459 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
697399 TTAGGAGGAC
697409 AAAAAACATATTATCAATTGAAAATAT
1 AAAAAACATA-TATCAATTGAAAATAT
* * *
697436 AAAAAATATATATTAATTTAAAAT
1 AAAAAACATATATCAATTGAAAAT
697460 TCTGAAGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (26 bp):
AAAAAACATATATCAATTGAAAATAT
Found at i:698078 original size:17 final size:18
Alignment explanation
Indices: 698056--698089 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
698046 TTAATTCGTT
698056 ATTTTTA-AAAAATTTAA
1 ATTTTTATAAAAATTTAA
*
698073 ATTTTTATATAAATTTA
1 ATTTTTATAAAAATTTA
698090 TTTTCTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTATAAAAATTTAA
Found at i:709451 original size:21 final size:21
Alignment explanation
Indices: 709425--709471 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
709415 GATTCACAAC
709425 GCGAACTTCGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
709446 GCGAACTTGGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
709467 GCGAA
1 GCGAA
709472 TATGTAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (21 bp):
GCGAACTTCGACTATCGCAAT
Found at i:710293 original size:23 final size:23
Alignment explanation
Indices: 710257--710421 Score: 155
Period size: 23 Copynumber: 7.8 Consensus size: 23
710247 ATTTTGGACT
710257 ATCGCAA--CGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGAATAA
*
710278 AACGCAACGCGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGAATAA
*
710301 ATCGCAACGCGAACTTGGACT--
1 ATCGCAACGCGAACTTGGAATAA
*
710322 ATCGCAA--CGAACTTGGACT--
1 ATCGCAACGCGAACTTGGAATAA
710341 ATCGCAA--CGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGAATAA
*
710362 ATCGCAACGCGAACTTGGACT--
1 ATCGCAACGCGAACTTGGAATAA
* *
710383 ATCACAATGCGAA-TAT-G--TAA
1 ATCGCAACGCGAACT-TGGAATAA
710403 ATCGCAACGCGAACTTGGA
1 ATCGCAACGCGAACTTGGA
710422 CTATCGCAAT
Statistics
Matches: 123, Mismatches: 9, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.01
19 30 0.24
20 14 0.11
21 34 0.28
23 44 0.36
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (23 bp):
ATCGCAACGCGAACTTGGAATAA
Found at i:710371 original size:61 final size:63
Alignment explanation
Indices: 710250--710385 Score: 222
Period size: 61 Copynumber: 2.2 Consensus size: 63
710240 CGTTGCGATT
710250 TTGGACTATCGCAACGAACTTGGAATAAAACGCAACGCGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAAT-AAACGCAAC-CGAACTTGGAATAAATCGCAACGCGAAC
* *
710315 TTGGACTATCGCAACGAACTTGGACT-ATCGCAA-CGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAACGCAACCGAACTTGGAATAAATCGCAACGCGAAC
710376 TTGGACTATC
1 TTGGACTATC
710386 ACAATGCGAA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
61 38 0.55
63 6 0.09
65 25 0.36
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (63 bp):
TTGGACTATCGCAACGAACTTGGAATAAACGCAACCGAACTTGGAATAAATCGCAACGCGAAC
Found at i:710414 original size:41 final size:41
Alignment explanation
Indices: 710359--710455 Score: 176
Period size: 41 Copynumber: 2.4 Consensus size: 41
710349 GAACTTGGAA
710359 TAAATCGCAACGCGAACTTGGACTATCACAATGCGAATATG
1 TAAATCGCAACGCGAACTTGGACTATCACAATGCGAATATG
*
710400 TAAATCGCAACGCGAACTTGGACTATCGCAATGCGAATATG
1 TAAATCGCAACGCGAACTTGGACTATCACAATGCGAATATG
*
710441 TAAATCGCAATGCGA
1 TAAATCGCAACGCGA
710456 TAGTCGAAGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (41 bp):
TAAATCGCAACGCGAACTTGGACTATCACAATGCGAATATG
Found at i:710449 original size:20 final size:20
Alignment explanation
Indices: 710387--710455 Score: 86
Period size: 20 Copynumber: 3.4 Consensus size: 20
710377 TGGACTATCA
710387 CAATGCGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
* * *
710407 CAACGCGAACT-TGGACTATCG
1 CAATGCGAA-TATGTA-AATCG
710428 CAATGCGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
710448 CAATGCGA
1 CAATGCGA
710456 TAGTCGAAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
20 24 0.60
21 16 0.40
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (20 bp):
CAATGCGAATATGTAAATCG
Found at i:718493 original size:2 final size:2
Alignment explanation
Indices: 718486--718523 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
718476 AAAGCTCAGT
* *
718486 CA CA CA CA CA CA CA CA CA CA CA CG CA CA CG CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
718524 TATATATACC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.50, G:0.05, T:0.00
Consensus pattern (2 bp):
CA
Found at i:718757 original size:24 final size:24
Alignment explanation
Indices: 718730--718834 Score: 86
Period size: 24 Copynumber: 4.1 Consensus size: 24
718720 TATATCAAAA
*
718730 ATCATAACAAAATCCATGTCAAGT
1 ATCATAACAAAATCCAGGTCAAGT
*
718754 ATCAGACTCATAACAAAATCCATGTCAAGT
1 AT------CATAACAAAATCCAGGTCAAGT
* *
718784 ATCAGACCAAAATCCAGGTCAAGT
1 ATCATAACAAAATCCAGGTCAAGT
* *
718808 ATTCA-ATCAGAATCCAGGTCAAGT
1 A-TCATAACAAAATCCAGGTCAAGT
718832 ATC
1 ATC
718835 CAATCAGAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
23 2 0.03
24 40 0.58
25 3 0.04
30 24 0.35
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (24 bp):
ATCATAACAAAATCCAGGTCAAGT
Found at i:718765 original size:30 final size:30
Alignment explanation
Indices: 718731--718790 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
718721 ATATCAAAAA
718731 TCATAACAAAATCCATGTCAAGTATCAGAC
1 TCATAACAAAATCCATGTCAAGTATCAGAC
718761 TCATAACAAAATCCATGTCAAGTATCAGAC
1 TCATAACAAAATCCATGTCAAGTATCAGAC
718791 CAAAATCCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.23, G:0.10, T:0.23
Consensus pattern (30 bp):
TCATAACAAAATCCATGTCAAGTATCAGAC
Found at i:718857 original size:24 final size:24
Alignment explanation
Indices: 718770--718849 Score: 108
Period size: 24 Copynumber: 3.3 Consensus size: 24
718760 CTCATAACAA
* * *
718770 AATCCATGTCAAGTAT-CAGACCAA
1 AATCCAGGTCAAGTATCCA-ATCAG
*
718794 AATCCAGGTCAAGTATTCAATCAG
1 AATCCAGGTCAAGTATCCAATCAG
718818 AATCCAGGTCAAGTATCCAATCAG
1 AATCCAGGTCAAGTATCCAATCAG
718842 AATCCAGG
1 AATCCAGG
718850 CCAGGTATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 49 0.96
25 2 0.04
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCAATCAG
Found at i:719131 original size:6 final size:6
Alignment explanation
Indices: 719122--719174 Score: 97
Period size: 6 Copynumber: 8.8 Consensus size: 6
719112 AGCTCAGTCA
*
719122 CACACA CACACG CACACG CACACG CACACG CACACG CACACG CACACG
1 CACACG CACACG CACACG CACACG CACACG CACACG CACACG CACACG
719170 CACAC
1 CACAC
719175 ATATATACCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.36, C:0.51, G:0.13, T:0.00
Consensus pattern (6 bp):
CACACG
Found at i:719407 original size:24 final size:24
Alignment explanation
Indices: 719380--719484 Score: 77
Period size: 24 Copynumber: 4.1 Consensus size: 24
719370 TATATCAAAA
*
719380 ATCATAACAAAATCCATGTCAAGT
1 ATCATAACAAAATCCAGGTCAAGT
* *
719404 ATCAGACTCATAACAAAATCAATGTCAAGT
1 AT------CATAACAAAATCCAGGTCAAGT
* *
719434 ATCAGATCAAAATCCAGGTCAAGT
1 ATCATAACAAAATCCAGGTCAAGT
* *
719458 ATTCA-ATCAGAATCCAGGTCAAGT
1 A-TCATAACAAAATCCAGGTCAAGT
719482 ATC
1 ATC
719485 CAATCAGAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
23 2 0.03
24 40 0.59
25 3 0.04
30 23 0.34
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (24 bp):
ATCATAACAAAATCCAGGTCAAGT
Found at i:719415 original size:30 final size:30
Alignment explanation
Indices: 719381--719439 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
719371 ATATCAAAAA
*
719381 TCATAACAAAATCCATGTCAAGTATCAGAC
1 TCATAACAAAATCAATGTCAAGTATCAGAC
719411 TCATAACAAAATCAATGTCAAGTATCAGA
1 TCATAACAAAATCAATGTCAAGTATCAGA
719440 TCAAAATCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (30 bp):
TCATAACAAAATCAATGTCAAGTATCAGAC
Found at i:719507 original size:24 final size:24
Alignment explanation
Indices: 719427--719499 Score: 112
Period size: 24 Copynumber: 3.0 Consensus size: 24
719417 CAAAATCAAT
*
719427 GTCAAGTAT-CAGATCAAAATCCAG
1 GTCAAGTATCCA-ATCAGAATCCAG
*
719451 GTCAAGTATTCAATCAGAATCCAG
1 GTCAAGTATCCAATCAGAATCCAG
719475 GTCAAGTATCCAATCAGAATCCAG
1 GTCAAGTATCCAATCAGAATCCAG
719499 G
1 G
719500 CCAGGTATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 44 0.96
25 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (24 bp):
GTCAAGTATCCAATCAGAATCCAG
Found at i:719621 original size:650 final size:634
Alignment explanation
Indices: 718396--719680 Score: 2329
Period size: 650 Copynumber: 2.0 Consensus size: 634
718386 CAACGCCGGA
*
718396 AGAACTCCCTTACTGAAGTCGATAGATGCACTGGAACAATTCTTTTAACCTGAAAAGGTGAGTAA
1 AGAACTCCCTTACTGAAGTCGATAGATGCACTGAAACAATTCTTTTAACCTGAAAAGGTGAGTAA
*
718461 TAGAGTGAGCTTCGGAAAGCTCAGTCACACACACACACACACACACACGCACACGCACACACATA
66 TAGAGTGAGCTTCGGAAAGCTCAGTCACACACACACACACACACACACGCACACGCACACACACA
718526 TATATACCCCCATTCGTCAAGTCCAAAATGTGTAGGTTCCCCAGAACTATACACCCACCATCAAG
131 TATATACCCCCATTCGTCAAGTCCAAAATGTGTAGGTTCCCCAGAACTATACACCCACCATCAAG
718591 TCCAGTAAGGCCCTGAGCACAAAGCCTAGGAACCGCTAAGTAAGGCCCTGAGCACACAGTCGATG
196 TCCAGTAAGGCCCTGAGCACAAAGCCTAGGAACCGCTAAGTAAGGCCCTGAGCACACAGTCGATG
718656 AGCCTACAGGTATACTTCCTCTAACATTACCCCCCAAATGAAACATGTTCCATCCGTAAACGGAT
261 AGCCTACAGGTATACTTCCTCTAACATTACCCCCCAAATGAAACATGTTCCATCCGTAAACGGAT
*
718721 ATATCAAAAATCATAACAAAATCCATGTCAAGTATCAGACTCATAACAAAATCCATGTCAAGTAT
326 ATATCAAAAATCATAACAAAATCCATGTCAAGTATCAGACTCATAACAAAATCAATGTCAAGTAT
718786 CAGACCAAAATCCAGGTCAAGTATTCAATCAGAATCCAGGTCAAGTATCCAATCAGAATCCAGGC
391 CAGACCAAAATCCAGGTCAAGTATTCAATCAGAATCCAGGTCAAGTATCCAATCAGAATCCAGGC
*
718851 CAGGTATTATAATAGAAATCAAATCGGAAATCAAGTAAAATATCCAGGTGATTAGGGAACATACC
456 CAGGTATTATAATAGAAATCAAATCGGAAATCAAGTAAAATATCCAGGTGATTAGGGAACACACC
718916 AGAGTTTACAGAAATTATTCAGAGGTACTGAATAATCTTAACAGGTAGAGGAACACAGATCTTCA
521 AGAGTTTACAGAAATTATTCAGAGGTACTGAATAATCTTAACAGGTAGAGGAACACAGATCTTCA
718981 ATATACCGATAGAATATCGAAATTCAGAATCACTGTTGGAAGAGTTGAT
586 ATATACCGATAGAATATCGAAATTCAGAATCACTGTTGGAAGAGTTGAT
*
719030 AGAACTCCCTTACTGAAGTCGATAGATGCACTGAAACAATTCTTTTAACCTGAAAATGTGAGTAA
1 AGAACTCCCTTACTGAAGTCGATAGATGCACTGAAACAATTCTTTTAACCTGAAAAGGTGAGTAA
719095 TAGAGTGAGCTTCGGAAAGCTCAGTCACACACACACACGCACACGCACACGCACACGCACACGCA
66 TAGAGTGAGCTTCGGAAAGCTCAGT------CACACA--CACA--CACA--CACA--CACACGCA
719160 CACGCACACGCACACATATATACCCCCATTCGTCAAGTCCAAAATGTGTAGGTTCCCCAGAACTA
117 CACGCACA--CACACATATATACCCCCATTCGTCAAGTCCAAAATGTGTAGGTTCCCCAGAACTA
719225 TACACCCACCATCAAGTCCAGTAAGGCCCTGAGCACAAAGCCTAGGAACCGCTAAGTAAGGCCCT
180 TACACCCACCATCAAGTCCAGTAAGGCCCTGAGCACAAAGCCTAGGAACCGCTAAGTAAGGCCCT
719290 GAGCACACAGTCG-TCGAGCCTACAGGTATACTTCCTCTAACATTACCCCCCAAATGAAACATGT
245 GAGCACACAGTCGAT-GAGCCTACAGGTATACTTCCTCTAACATTACCCCCCAAATGAAACATGT
719354 TCCATCCGTAAACGGATATATCAAAAATCATAACAAAATCCATGTCAAGTATCAGACTCATAACA
309 TCCATCCGTAAACGGATATATCAAAAATCATAACAAAATCCATGTCAAGTATCAGACTCATAACA
*
719419 AAATCAATGTCAAGTATCAGATCAAAATCCAGGTCAAGTATTCAATCAGAATCCAGGTCAAGTAT
374 AAATCAATGTCAAGTATCAGACCAAAATCCAGGTCAAGTATTCAATCAGAATCCAGGTCAAGTAT
719484 CCAATCAGAATCCAGGCCAGGTATTATAATAGAAATCAAATCGGAAATCAAGTAAAATATCCAGG
439 CCAATCAGAATCCAGGCCAGGTATTATAATAGAAATCAAATCGGAAATCAAGTAAAATATCCAGG
*
719549 TGATTAGGGAACACACCAGAGTTTACAGAAATTATTCAGATGTACTGAATAATCTTAACAGGTAG
504 TGATTAGGGAACACACCAGAGTTTACAGAAATTATTCAGAGGTACTGAATAATCTTAACAGGTAG
* *
719614 AGGAACACATATCTTCAATATACCGATAGAATATCGAAATTCATAATCACTGTTGGAAGAGTTGA
569 AGGAACACAGATCTTCAATATACCGATAGAATATCGAAATTCAGAATCACTGTTGGAAGAGTTGA
719679 T
634 T
719680 A
1 A
719681 TATCAAAAAT
Statistics
Matches: 625, Mismatches: 9, Indels: 18
0.96 0.01 0.03
Matches are distributed among these distances:
634 88 0.14
640 6 0.01
642 4 0.01
644 4 0.01
646 4 0.01
648 16 0.03
649 1 0.00
650 502 0.80
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.22
Consensus pattern (634 bp):
AGAACTCCCTTACTGAAGTCGATAGATGCACTGAAACAATTCTTTTAACCTGAAAAGGTGAGTAA
TAGAGTGAGCTTCGGAAAGCTCAGTCACACACACACACACACACACACGCACACGCACACACACA
TATATACCCCCATTCGTCAAGTCCAAAATGTGTAGGTTCCCCAGAACTATACACCCACCATCAAG
TCCAGTAAGGCCCTGAGCACAAAGCCTAGGAACCGCTAAGTAAGGCCCTGAGCACACAGTCGATG
AGCCTACAGGTATACTTCCTCTAACATTACCCCCCAAATGAAACATGTTCCATCCGTAAACGGAT
ATATCAAAAATCATAACAAAATCCATGTCAAGTATCAGACTCATAACAAAATCAATGTCAAGTAT
CAGACCAAAATCCAGGTCAAGTATTCAATCAGAATCCAGGTCAAGTATCCAATCAGAATCCAGGC
CAGGTATTATAATAGAAATCAAATCGGAAATCAAGTAAAATATCCAGGTGATTAGGGAACACACC
AGAGTTTACAGAAATTATTCAGAGGTACTGAATAATCTTAACAGGTAGAGGAACACAGATCTTCA
ATATACCGATAGAATATCGAAATTCAGAATCACTGTTGGAAGAGTTGAT
Found at i:719724 original size:30 final size:30
Alignment explanation
Indices: 719690--719749 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
719680 ATATCAAAAA
719690 TCATAACAAAATCCATGCCAAGTATCAGAT
1 TCATAACAAAATCCATGCCAAGTATCAGAT
*
719720 TCATAACAAAATCCATGTCAAGTATCAGAT
1 TCATAACAAAATCCATGCCAAGTATCAGAT
719750 CAAAATCCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (30 bp):
TCATAACAAAATCCATGCCAAGTATCAGAT
Found at i:719816 original size:24 final size:24
Alignment explanation
Indices: 719729--719808 Score: 117
Period size: 24 Copynumber: 3.3 Consensus size: 24
719719 TTCATAACAA
* *
719729 AATCCATGTCAAGTAT-CAGATCAA
1 AATCCAGGTCAAGTATCCA-ATCAG
*
719753 AATCCAGGTCAAGTATTCAATCAG
1 AATCCAGGTCAAGTATCCAATCAG
719777 AATCCAGGTCAAGTATCCAATCAG
1 AATCCAGGTCAAGTATCCAATCAG
719801 AATCCAGG
1 AATCCAGG
719809 CCAGGTATTA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
24 50 0.96
25 2 0.04
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCAATCAG
Found at i:719927 original size:309 final size:309
Alignment explanation
Indices: 719368--719985 Score: 1164
Period size: 309 Copynumber: 2.0 Consensus size: 309
719358 TCCGTAAACG
*
719368 GATATATCAAAAATCATAACAAAATCCATGTCAAGTATCAGACTCATAACAAAATCAATGTCAAG
1 GATATATCAAAAATCATAACAAAATCCATGCCAAGTATCAGACTCATAACAAAATCAATGTCAAG
719433 TATCAGATCAAAATCCAGGTCAAGTATTCAATCAGAATCCAGGTCAAGTATCCAATCAGAATCCA
66 TATCAGATCAAAATCCAGGTCAAGTATTCAATCAGAATCCAGGTCAAGTATCCAATCAGAATCCA
719498 GGCCAGGTATTATAATAGAAATCAAATCGGAAATCAAGTAAAATATCCAGGTGATTAGGGAACAC
131 GGCCAGGTATTATAATAGAAATCAAATCGGAAATCAAGTAAAATATCCAGGTGATTAGGGAACAC
* *
719563 ACCAGAGTTTACAGAAATTATTCAGATGTACTGAATAATCTTAACAGGTAGAGGAACACATATCT
196 ACCAGAGTTTACAGAAATTATTCAGAGGTACTGAATAATCTTAACAGGTAGAGGAACACAGATCT
*
719628 TCAATATACCGATAGAATATCGAAATTCATAATCACTGTTGGAAGAGTT
261 TCAATATACCGATAGAATATCGAAATTCAGAATCACTGTTGGAAGAGTT
* *
719677 GATATATCAAAAATCATAACAAAATCCATGCCAAGTATCAGATTCATAACAAAATCCATGTCAAG
1 GATATATCAAAAATCATAACAAAATCCATGCCAAGTATCAGACTCATAACAAAATCAATGTCAAG
719742 TATCAGATCAAAATCCAGGTCAAGTATTCAATCAGAATCCAGGTCAAGTATCCAATCAGAATCCA
66 TATCAGATCAAAATCCAGGTCAAGTATTCAATCAGAATCCAGGTCAAGTATCCAATCAGAATCCA
719807 GGCCAGGTATTATAATAGAAATCAAATCGGAAATCAAGTAAAATATCCAGGTGATTAGGGAACAC
131 GGCCAGGTATTATAATAGAAATCAAATCGGAAATCAAGTAAAATATCCAGGTGATTAGGGAACAC
719872 ACCAGAGTTTACAGAAATTATTCAGAGGTACTGAATAATCTTAACAGGTAGAGGAACACAGATCT
196 ACCAGAGTTTACAGAAATTATTCAGAGGTACTGAATAATCTTAACAGGTAGAGGAACACAGATCT
* *
719937 TCAATGTACCGATAGAATATCGAAATTCAGAATCACTTTTGGAAGAGTT
261 TCAATATACCGATAGAATATCGAAATTCAGAATCACTGTTGGAAGAGTT
719986 CAATAACTGA
Statistics
Matches: 301, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
309 301 1.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (309 bp):
GATATATCAAAAATCATAACAAAATCCATGCCAAGTATCAGACTCATAACAAAATCAATGTCAAG
TATCAGATCAAAATCCAGGTCAAGTATTCAATCAGAATCCAGGTCAAGTATCCAATCAGAATCCA
GGCCAGGTATTATAATAGAAATCAAATCGGAAATCAAGTAAAATATCCAGGTGATTAGGGAACAC
ACCAGAGTTTACAGAAATTATTCAGAGGTACTGAATAATCTTAACAGGTAGAGGAACACAGATCT
TCAATATACCGATAGAATATCGAAATTCAGAATCACTGTTGGAAGAGTT
Found at i:723289 original size:37 final size:37
Alignment explanation
Indices: 723216--723290 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
723206 GTTGGAAAAT
* *
723216 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
723253 ATTTATATATTTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATATA-TTTTCTTTAAAAAATTGAAAATCATAAA
723290 A
1 A
723291 ATGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 15 0.45
38 18 0.55
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:724977 original size:24 final size:23
Alignment explanation
Indices: 724922--724982 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
724912 AATATAATCC
*
724922 AAATTATA-ATTAAATTTAAATT
1 AAATTATACGTTAAATTTAAATT
724944 AAATTATACGTATAAATTTAATATT
1 AAATTATACGT-TAAATTTAA-ATT
* *
724969 -TATTGTACGTTAAA
1 AAATTATACGTTAAA
724983 ATTATTCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 8 0.24
23 5 0.15
24 17 0.52
25 3 0.09
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (23 bp):
AAATTATACGTTAAATTTAAATT
Found at i:732877 original size:15 final size:17
Alignment explanation
Indices: 732854--732891 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
732844 ATATTGATGT
*
732854 TAATAATTGA-TA-TTA
1 TAATTATTGAGTATTTA
732869 TAATTATTGAGTATTTA
1 TAATTATTGAGTATTTA
732886 TAATTA
1 TAATTA
732892 ATTTTAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 2 0.10
17 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (17 bp):
TAATTATTGAGTATTTA
Found at i:734103 original size:13 final size:13
Alignment explanation
Indices: 734085--734109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
734075 TCTCTTATAT
734085 TTTATATTTTTTC
1 TTTATATTTTTTC
734098 TTTATATTTTTT
1 TTTATATTTTTT
734110 TATTGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATATTTTTTC
Found at i:738385 original size:28 final size:28
Alignment explanation
Indices: 738345--738399 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
738335 ACATATGTAA
738345 ATATAATTATTTAATAATATAATAATAC
1 ATATAATTATTTAATAATATAATAATAC
738373 ATATAATTATTTAATAATATAATAATA
1 ATATAATTATTTAATAATATAATAATA
738400 AGATATAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
ATATAATTATTTAATAATATAATAATAC
Found at i:738778 original size:25 final size:25
Alignment explanation
Indices: 738744--738804 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
738734 ATATGTTTTA
* *
738744 TTAATAAAATTTTTTACTTCTAAAAT
1 TTAAT-AAATTTATCACTTCTAAAAT
* *
738770 TTAATAAATTTATCCCTTCTAATAT
1 TTAATAAATTTATCACTTCTAAAAT
*
738795 TTTATAAATT
1 TTAATAAATT
738805 CTGTCCCTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (25 bp):
TTAATAAATTTATCACTTCTAAAAT
Found at i:738819 original size:25 final size:25
Alignment explanation
Indices: 738760--738813 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
738750 AAATTTTTTA
*
738760 CTTCTAAAATTTAATAAATTTATCC
1 CTTCTAATATTTAATAAATTTATCC
* *
738785 CTTCTAATATTTTATAAATTCTGTCC
1 CTTCTAATATTTAATAAATT-TATCC
738811 CTT
1 CTT
738814 GTATATACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.31, C:0.19, G:0.02, T:0.48
Consensus pattern (25 bp):
CTTCTAATATTTAATAAATTTATCC
Found at i:746545 original size:18 final size:18
Alignment explanation
Indices: 746522--746557 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
746512 TTTCGCTTTG
*
746522 AAAAAAACCAGTTTTTAA
1 AAAAAAAACAGTTTTTAA
*
746540 AAAAAAAACGGTTTTTAA
1 AAAAAAAACAGTTTTTAA
746558 TCCGGTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (18 bp):
AAAAAAAACAGTTTTTAA
Found at i:758595 original size:43 final size:43
Alignment explanation
Indices: 758517--758604 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 43
758507 GTTTTTTTAC
* * *
758517 TATTAAAATATAAGAATAAAATAATAGTAACTATATTTTAACT
1 TATTAAAATATAAGAATAAAATAAGAGTAAATATATCTTAACT
758560 TATT-AAATAATAAGAATAAAATAAGA-TACAATATATCTTAACT
1 TATTAAAAT-ATAAGAATAAAATAAGAGTA-AATATATCTTAACT
758603 TA
1 TA
758605 AAAGTTACGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
42 6 0.15
43 34 0.85
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.35
Consensus pattern (43 bp):
TATTAAAATATAAGAATAAAATAAGAGTAAATATATCTTAACT
Found at i:758765 original size:28 final size:29
Alignment explanation
Indices: 758732--758805 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
758722 TTTTAATTTG
*
758732 AAATAAGAATAAAATATAT-TTTA-AGTA
1 AAATAATAATAAAATATATATTTATAGTA
* * *
758759 AAGATAATAGTAAAATGTATATTTATATTA
1 AA-ATAATAATAAAATATATATTTATAGTA
*
758789 AATTAATAATAAAATAT
1 AAATAATAATAAAATAT
758806 TTAAATATGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
27 2 0.05
28 14 0.38
29 16 0.43
30 5 0.14
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (29 bp):
AAATAATAATAAAATATATATTTATAGTA
Found at i:761335 original size:19 final size:19
Alignment explanation
Indices: 761311--761348 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
761301 ACATAAGACC
761311 CCTCACTGGGACTCTTCGT
1 CCTCACTGGGACTCTTCGT
761330 CCTCACTGGGACTCTTCGT
1 CCTCACTGGGACTCTTCGT
761349 TCACATCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.37, G:0.21, T:0.32
Consensus pattern (19 bp):
CCTCACTGGGACTCTTCGT
Found at i:761765 original size:29 final size:28
Alignment explanation
Indices: 761685--761767 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
761675 TATAAAGAGT
761685 GTCATAGTTTAGGGATGAAATTA-AATG
1 GTCATAGTTTAGGGATGAAATTAGAATG
* * * *** *
761712 TTCACAAGTTTATGGACCTATTTAGAATG
1 GTCA-TAGTTTAGGGATGAAATTAGAATG
761741 AGTCATAGTTTAGGGATGAAATTAGAA
1 -GTCATAGTTTAGGGATGAAATTAGAA
761768 CATTTAAAAT
Statistics
Matches: 39, Mismatches: 14, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
27 3 0.08
28 13 0.33
29 20 0.51
30 3 0.08
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (28 bp):
GTCATAGTTTAGGGATGAAATTAGAATG
Found at i:762641 original size:20 final size:20
Alignment explanation
Indices: 762572--762642 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 20
762562 CCCTATATAT
762572 ATATATTATTTTTTCAATTAA
1 ATATATTATTTTTTCAA-TAA
* *
762593 ATCCTTATT-TTTTATTGAATAA
1 AT--ATATTATTTT-TTCAATAA
*
762615 A-A-A-TATTTTTTTAATAA
1 ATATATTATTTTTTCAATAA
762632 ATATATTATTT
1 ATATATTATTT
762643 CGGATTAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 15
0.67 0.07 0.26
Matches are distributed among these distances:
17 9 0.23
18 6 0.15
19 1 0.03
20 5 0.13
21 2 0.05
22 8 0.21
23 8 0.21
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.56
Consensus pattern (20 bp):
ATATATTATTTTTTCAATAA
Found at i:762763 original size:32 final size:33
Alignment explanation
Indices: 762700--762763 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
762690 GATTCGGGTC
*
762700 GGGTGGAGGATGTATATTTTTCGAGTTGGGTTT
1 GGGTGGAGGATGTATAATTTTCGAGTTGGGTTT
762733 GGGTGGAGGATGTATAATTTT-GAGTTGGGTT
1 GGGTGGAGGATGTATAATTTTCGAGTTGGGTT
762764 GAGTTGACCG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 10 0.33
33 20 0.67
ACGTcount: A:0.17, C:0.02, G:0.41, T:0.41
Consensus pattern (33 bp):
GGGTGGAGGATGTATAATTTTCGAGTTGGGTTT
Found at i:763011 original size:20 final size:16
Alignment explanation
Indices: 762970--763008 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
762960 AATATATTTA
762970 ATTCAATAAAATTTTC
1 ATTCAATAAAATTTTC
762986 ATTCAATAAAATTTTC
1 ATTCAATAAAATTTTC
763002 ATTCAAT
1 ATTCAAT
763009 CAAACAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTCAATAAAATTTTC
Found at i:765444 original size:31 final size:31
Alignment explanation
Indices: 765382--765449 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
765372 GTCGACAATG
* **
765382 AATTGATATTTTATTTAAAATTTGTGAATTA
1 AATTAATATTTTATTTAAAATTCATGAATTA
* *
765413 ATTTAATATTTTATTTACAATTCAT-AGATTA
1 AATTAATATTTTATTTAAAATTCATGA-ATTA
765444 AATTAA
1 AATTAA
765450 AAGTTAACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (31 bp):
AATTAATATTTTATTTAAAATTCATGAATTA
Found at i:766918 original size:21 final size:21
Alignment explanation
Indices: 766888--766941 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
766878 AATTGAGTGC
* *
766888 CCACCACCACCAAAGCCGTCG
1 CCACCACCACCAAAACCGACG
*
766909 CCACCGCCACCAAAACCGACG
1 CCACCACCACCAAAACCGACG
*
766930 CCATCACCACCA
1 CCACCACCACCA
766942 GCATGCCCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.54, G:0.11, T:0.04
Consensus pattern (21 bp):
CCACCACCACCAAAACCGACG
Found at i:770065 original size:31 final size:31
Alignment explanation
Indices: 770008--770066 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
769998 AAATAAAAGA
770008 TTATTAAAATATATATTTAATCAAATTATCC
1 TTATTAAAATATATATTTAATCAAATTATCC
*
770039 TTATTATATATATATATTTAAT-AAATTA
1 TTATTA-AAATATATATTTAATCAAATTA
770067 GAAAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 12 0.46
32 14 0.54
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (31 bp):
TTATTAAAATATATATTTAATCAAATTATCC
Found at i:770518 original size:18 final size:18
Alignment explanation
Indices: 770497--770532 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
770487 CACGTTCCCC
770497 CATCCAAACACCCCTTAA
1 CATCCAAACACCCCTTAA
770515 CATCCAAACACCCCTTAA
1 CATCCAAACACCCCTTAA
770533 GGGGTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (18 bp):
CATCCAAACACCCCTTAA
Found at i:770984 original size:37 final size:36
Alignment explanation
Indices: 770909--770984 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
770899 TTTTTATATT
*
770909 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
770945 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
770982 TTT
1 TTT
770985 GTATTCTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:771158 original size:20 final size:18
Alignment explanation
Indices: 771109--771160 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
771099 CAAAATATAA
771109 TATT-CCTAGTAATC--T
1 TATTCCCTAGTAATCTTT
*
771124 TATTCCCTGGTAATCTTT
1 TATTCCCTAGTAATCTTT
771142 TATTCCCACTAGTAATCTT
1 TATT-CC-CTAGTAATCTT
771161 ACATTCCGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 4 0.13
16 9 0.30
18 5 0.17
19 2 0.07
20 10 0.33
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (18 bp):
TATTCCCTAGTAATCTTT
Found at i:771167 original size:20 final size:17
Alignment explanation
Indices: 771113--771161 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
771103 ATATAATATT
771113 CCTAGTAATCTTATT-C
1 CCTAGTAATCTTATTCC
*
771129 CCTGGTAATCTTTTATTCC
1 CCTAGTAATC--TTATTCC
771148 CACTAGTAATCTTA
1 C-CTAGTAATCTTA
771162 CATTCCGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 9 0.33
18 8 0.30
19 2 0.07
20 8 0.30
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.43
Consensus pattern (17 bp):
CCTAGTAATCTTATTCC
Found at i:772281 original size:21 final size:24
Alignment explanation
Indices: 772251--772295 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
772241 TCTCCAGACA
772251 TTTTAGTAA-T-ATGGTAATATTT
1 TTTTAGTAATTAATGGTAATATTT
*
772273 TTTTA-TAATTAATGTTAATATTT
1 TTTTAGTAATTAATGGTAATATTT
772296 ATTATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 3 0.15
22 6 0.30
23 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (24 bp):
TTTTAGTAATTAATGGTAATATTT
Found at i:774696 original size:22 final size:21
Alignment explanation
Indices: 774662--774707 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
774652 AAATTTTAAA
*
774662 TTATTATACATTTTAGATTTTT
1 TTATAATACATTTT-GATTTTT
* *
774684 TTATAATATATTTTTATTTTT
1 TTATAATACATTTTGATTTTT
774705 TTA
1 TTA
774708 AAATTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATAATACATTTTGATTTTT
Found at i:782536 original size:3 final size:3
Alignment explanation
Indices: 782528--782564 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
782518 GCAGTCCTAC
782528 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
782565 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:784997 original size:38 final size:38
Alignment explanation
Indices: 784946--785027 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 38
784936 TCAGCAACAC
*
784946 CCTTTGGATACTGTGCTGTAACAGCATGATTATGTCAT
1 CCTTTGGATACTGTCCTGTAACAGCATGATTATGTCAT
* *
784984 CCTTTGGATACTGTCCTGTAATAGCATGATTATGTGAT
1 CCTTTGGATACTGTCCTGTAACAGCATGATTATGTCAT
*
785022 TCTTTG
1 CCTTTG
785028 TCAAAGTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (38 bp):
CCTTTGGATACTGTCCTGTAACAGCATGATTATGTCAT
Found at i:790937 original size:59 final size:60
Alignment explanation
Indices: 790824--790937 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 60
790814 TAGTTTGGTA
* * **
790824 ACCATTTTATAAATTTTAATAGTCAAGGGACTCAACAAAGCAATGTTTTATAGTCAGTGG
1 ACCATTTTATAAATTTTAATAGTCAAGGCACTCAACAAAGCAATATCCTATAGTCAGTGG
* *
790884 ACCATTTTATAACTTTTAATAGT-TAGGCACTCAACAAAGCAATATCCTATAGTC
1 ACCATTTTATAAATTTTAATAGTCAAGGCACTCAACAAAGCAATATCCTATAGTC
790938 GGAGTACCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 26 0.54
60 22 0.46
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (60 bp):
ACCATTTTATAAATTTTAATAGTCAAGGCACTCAACAAAGCAATATCCTATAGTCAGTGG
Found at i:791304 original size:28 final size:28
Alignment explanation
Indices: 791272--791326 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
791262 CCGTCATTGC
* *
791272 TTTCAAGCATTGAG-TTGATGACATAATG
1 TTTCAAGCACTG-GCTTGATAACATAATG
791300 TTTCAAGCACTGGCTTGATAACATAAT
1 TTTCAAGCACTGGCTTGATAACATAAT
791327 ATAAACGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (28 bp):
TTTCAAGCACTGGCTTGATAACATAATG
Found at i:793434 original size:30 final size:29
Alignment explanation
Indices: 793388--793445 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
793378 TTTAATGAGC
793388 TTAACGAGCAACGAGTCAAACAATAATTTTT
1 TTAACGAGCAACGAGTCAAA-AA-AATTTTT
793419 TTAACGAGC-ACGAGTCAAAAAAATTTT
1 TTAACGAGCAACGAGTCAAAAAAATTTT
793446 AACGATCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 6 0.22
29 2 0.07
30 10 0.37
31 9 0.33
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (29 bp):
TTAACGAGCAACGAGTCAAAAAAATTTTT
Found at i:793484 original size:54 final size:55
Alignment explanation
Indices: 793412--793515 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
793402 GTCAAACAAT
*
793412 AATTTTTTTAACGAGCACGAG-TCAAAAAAATTTTAACGATCTTAACGAGCAACA
1 AATTTTCTTAACGAGCACGAGTTCAAAAAAATTTTAACGATCTTAACGAGCAACA
* ** **
793466 AATTTTCTTAACGAGCACGAGTTGAGCAAAATTTTAATTATCTTAACGAG
1 AATTTTCTTAACGAGCACGAGTTCAAAAAAATTTTAACGATCTTAACGAG
793516 TAATGAGTCG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
54 20 0.47
55 23 0.53
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (55 bp):
AATTTTCTTAACGAGCACGAGTTCAAAAAAATTTTAACGATCTTAACGAGCAACA
Found at i:793485 original size:26 final size:28
Alignment explanation
Indices: 793387--793487 Score: 86
Period size: 28 Copynumber: 3.6 Consensus size: 28
793377 ATTTAATGAG
793387 CTTAACGAGCAACGAGTCAAACAATAATTTT
1 CTTAACGAGCAACGAGTC-AAC-A-AATTTT
* **
793418 TTTAACGAGC-ACGAGTCAA-AAAAATT
1 CTTAACGAGCAACGAGTCAACAAATTTT
*
793444 -TTAACGATCTTAACGAG-CAACAAATTTT
1 CTTAACGAGC--AACGAGTCAACAAATTTT
793472 CTTAACGAGC-ACGAGT
1 CTTAACGAGCAACGAGT
793488 TGAGCAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
25 8 0.14
26 9 0.16
27 4 0.07
28 10 0.18
29 10 0.18
30 7 0.12
31 9 0.16
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (28 bp):
CTTAACGAGCAACGAGTCAACAAATTTT
Found at i:799728 original size:16 final size:16
Alignment explanation
Indices: 799707--799737 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
799697 TTAGAAGTGG
799707 CATTTTCTCTGCGTTT
1 CATTTTCTCTGCGTTT
799723 CATTTTCTCTGCGTT
1 CATTTTCTCTGCGTT
799738 ACTCTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.26, G:0.13, T:0.55
Consensus pattern (16 bp):
CATTTTCTCTGCGTTT
Found at i:805338 original size:20 final size:21
Alignment explanation
Indices: 805295--805339 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
805285 AATGTATGCG
* *
805295 AAAAATGTACAAAAAATCATA
1 AAAAATGTACAAAAAAGCAGA
*
805316 AAAAATGT-CATAAAAGCAGA
1 AAAAATGTACAAAAAAGCAGA
805336 AAAA
1 AAAA
805340 CACATATTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.16
Consensus pattern (21 bp):
AAAAATGTACAAAAAAGCAGA
Found at i:811156 original size:22 final size:22
Alignment explanation
Indices: 811128--811173 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
811118 AGACTTGTGC
811128 CCTTTTCTTTGTTAAAGATTCA
1 CCTTTTCTTTGTTAAAGATTCA
811150 CCTTTTCTTTGTTAAAGATTCA
1 CCTTTTCTTTGTTAAAGATTCA
811172 CC
1 CC
811174 AAAGATATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.48
Consensus pattern (22 bp):
CCTTTTCTTTGTTAAAGATTCA
Found at i:811804 original size:21 final size:21
Alignment explanation
Indices: 811778--811820 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
811768 ATTTGTTTGT
811778 TTGTCCTGTATATGCAAAAGA
1 TTGTCCTGTATATGCAAAAGA
811799 TTGTCCTGTATATGCAAAAGA
1 TTGTCCTGTATATGCAAAAGA
811820 T
1 T
811821 AGTGACAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (21 bp):
TTGTCCTGTATATGCAAAAGA
Found at i:819134 original size:21 final size:21
Alignment explanation
Indices: 819108--819153 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
819098 TTTTTATTAA
819108 AAAAC-TCAAAAAATAATAATT
1 AAAACTTCAAAAAA-AATAATT
* *
819129 AAAACTTCAAATAAAATCATT
1 AAAACTTCAAAAAAAATAATT
819150 AAAA
1 AAAA
819154 TGTAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAACTTCAAAAAAAATAATT
Found at i:822209 original size:2 final size:2
Alignment explanation
Indices: 822204--822228 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
822194 ACATAAATCT
822204 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 T
822229 TGGTACAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:822529 original size:2 final size:2
Alignment explanation
Indices: 822522--822575 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
822512 AAATGCTCGT
* *
822522 TA TA TA TA TT TA TG TA TA TA TA TA TA 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
822564 TA TA TA TA TA TA
1 TA TA TA TA TA TA
822576 AACATACAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:827939 original size:26 final size:26
Alignment explanation
Indices: 827903--827954 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
827893 ACGGAACAAA
827903 TACGCATGCGTTTTCATAGACGCAAG
1 TACGCATGCGTTTTCATAGACGCAAG
827929 TACGCATGCGTTTTCATAGACGCAAG
1 TACGCATGCGTTTTCATAGACGCAAG
827955 CAGCATCCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
TACGCATGCGTTTTCATAGACGCAAG
Found at i:829285 original size:2 final size:2
Alignment explanation
Indices: 829272--829306 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
829262 CTGGAGTTTA
*
829272 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
829307 AATTTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:830274 original size:23 final size:23
Alignment explanation
Indices: 830244--830289 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
830234 TCTATGCCTA
830244 AAACTGCCATTACTTTTGGCTGG
1 AAACTGCCATTACTTTTGGCTGG
830267 AAACTGCCATTACTTTTGGCTGG
1 AAACTGCCATTACTTTTGGCTGG
830290 GATCTTAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (23 bp):
AAACTGCCATTACTTTTGGCTGG
Found at i:834524 original size:23 final size:23
Alignment explanation
Indices: 834498--834545 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
834488 ATAAAGTACA
*
834498 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
834521 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
834544 AT
1 AT
834546 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:834949 original size:21 final size:22
Alignment explanation
Indices: 834924--834975 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
834914 ACACTTTACA
*
834924 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
834947 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
834970 ATATAA
1 ATATAA
834976 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:834960 original size:23 final size:23
Alignment explanation
Indices: 834934--834996 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
834924 ATATAACCAC
834934 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
834957 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
834980 TACCTATTACATCATAT
1 TACCTATTACATTATAT
834997 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:835329 original size:431 final size:431
Alignment explanation
Indices: 834657--835713 Score: 2034
Period size: 431 Copynumber: 2.5 Consensus size: 431
834647 GGATCGATAC
834657 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
834722 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAA-TT--TAATAATATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
834784 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
834849 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
834914 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
834979 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
835044 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
835085 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
835150 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
835215 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
835280 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
835345 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
*
835410 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATATTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
835475 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
*
835516 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
* * *
835581 AGTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-A-ATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
835644 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
835709 AAGAT
196 AAGAT
835714 GTATATACCT
Statistics
Matches: 621, Mismatches: 5, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
428 111 0.18
429 78 0.13
430 1 0.00
431 431 0.69
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (431 bp):
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
Found at i:835380 original size:21 final size:22
Alignment explanation
Indices: 835355--835406 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
835345 ACACTTTACA
*
835355 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
835378 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
835401 ATATAA
1 ATATAA
835407 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:835391 original size:23 final size:23
Alignment explanation
Indices: 835365--835427 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
835355 ATATAACCAC
835365 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
835388 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
835411 TACCTATTACATCATAT
1 TACCTATTACATTATAT
835428 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:835769 original size:25 final size:25
Alignment explanation
Indices: 835712--835777 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
835702 CACTCAAAAG
*
835712 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
835737 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
835762 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
835778 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:838552 original size:184 final size:183
Alignment explanation
Indices: 838244--838586 Score: 578
Period size: 184 Copynumber: 1.9 Consensus size: 183
838234 TTCAAATTAC
* *
838244 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTCCGACACAATA
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTCCGACACAATA
* *
838309 TTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTA
66 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
*
838374 TATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
131 TATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
*
838427 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGT-CCGACACAAT
*
838492 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * **
838557 ATATTGCAAATTTACCTATTTTATTATAAT
130 ATATTACAAAATTACCTATTACATTATAAT
838587 ATGTTGAAAG
Statistics
Matches: 148, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
183 51 0.34
184 97 0.66
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTCCGACACAATA
TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
TATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
Found at i:840063 original size:3 final size:3
Alignment explanation
Indices: 840055--840132 Score: 66
Period size: 3 Copynumber: 26.0 Consensus size: 3
840045 ACTTGTTTGG
* * * ** * *
840055 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
840103 GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
840133 GTCAGCTTCA
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:840115 original size:42 final size:42
Alignment explanation
Indices: 840056--840144 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
840046 CTTGTTTGGA
* *
840056 TCATCATCTTCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
840098 TCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCATCATCTTCATCGCCAGCT
840140 TCATC
1 TCATC
840145 TTCTGCGACC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (42 bp):
TCATCATCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:840131 original size:18 final size:18
Alignment explanation
Indices: 840055--840132 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 18
840045 ACTTGTTTGG
* *
840055 ATCATCATCTTCATCATC
1 ATCATCATCATCGTCATC
* *
840073 ATCGTCATCATCTTCATC
1 ATCATCATCATCGTCATC
** * *
840091 GCCAGCTTCATCGTCATC
1 ATCATCATCATCGTCATC
840109 ATCATCATCATCGTCATC
1 ATCATCATCATCGTCATC
*
840127 TTCATC
1 ATCATC
840133 GTCAGCTTCA
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (18 bp):
ATCATCATCATCGTCATC
Found at i:840143 original size:18 final size:18
Alignment explanation
Indices: 840063--840147 Score: 59
Period size: 21 Copynumber: 4.6 Consensus size: 18
840053 GGATCATCAT
*
840063 CTTCATCATCATCGTCA-
1 CTTCATCTTCATCGTCAG
*
840080 --TCATCTTCATCGCCAG
1 CTTCATCTTCATCGTCAG
* *
840096 CTTCATCGTCATCATCATCAT
1 CTTCATC-T--TCATCGTCAG
840117 CATCGTCATCTTCATCGTCAG
1 C-T--TCATCTTCATCGTCAG
840138 CTTCATCTTC
1 CTTCATCTTC
840148 TGCGACCGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 17
0.68 0.09 0.22
Matches are distributed among these distances:
15 13 0.25
18 13 0.25
19 1 0.02
20 1 0.02
21 17 0.33
22 1 0.02
23 1 0.02
24 5 0.10
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.36
Consensus pattern (18 bp):
CTTCATCTTCATCGTCAG
Found at i:840147 original size:6 final size:6
Alignment explanation
Indices: 840059--840147 Score: 61
Period size: 6 Copynumber: 14.3 Consensus size: 6
840049 GTTTGGATCA
* * * * * *
840059 TCATCT TCATCA TCATCGT CATCATCT TCATCG CCAGCT TCATCG TCATCA
1 TCATCT TCATCT TCATC-T --TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
840110 TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
840148 TGCGACCGCT
Statistics
Matches: 64, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
6 58 0.91
8 1 0.02
9 5 0.08
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:841940 original size:199 final size:199
Alignment explanation
Indices: 841600--842970 Score: 2636
Period size: 199 Copynumber: 6.9 Consensus size: 199
841590 TTTAAATTAG
841600 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
841665 ATTGTACCGGTTAGATTGAAAATTTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
** *
841730 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
841795 AAAA
196 AAAA
841799 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
841864 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
841929 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
841994 AAAA
196 AAAA
841998 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
842063 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
842128 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
842192 AAAA
196 AAAA
842196 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
842261 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
842326 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
842391 AAAA
196 AAAA
842395 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
842460 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
842525 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
842590 AAAA
196 AAAA
842594 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
842659 ATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
842724 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
842789 AAAA
196 AAAA
842793 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
842858 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
842923 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
842971 GGCCATATTG
Statistics
Matches: 1159, Mismatches: 10, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
198 198 0.17
199 901 0.78
200 21 0.02
201 39 0.03
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAA
Found at i:842732 original size:596 final size:597
Alignment explanation
Indices: 841600--842970 Score: 2636
Period size: 596 Copynumber: 2.3 Consensus size: 597
841590 TTTAAATTAG
841600 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
841665 ATTGTACCGGTTAGATTGAAAATTTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
841730 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGGAAAA
841795 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
841860 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
841925 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
841990 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
391 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
842055 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
456 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
842120 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATT
521 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATT
842185 CTGG-AAAAAAA
586 CTGGAAAAAAAA
842196 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
842261 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
842326 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGGAAAA
842391 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
842456 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
842521 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
842586 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
391 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
*
842651 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTTTTGGGTTCGATGAT
456 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
842716 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATT
521 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATT
842781 CTGGAAAAAAAA
586 CTGGAAAAAAAA
842793 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
842858 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
842923 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
842971 GGCCATATTG
Statistics
Matches: 763, Mismatches: 9, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
596 584 0.77
597 119 0.16
598 21 0.03
599 39 0.05
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (597 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGGAAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATT
CTGGAAAAAAAA
Found at i:843135 original size:19 final size:19
Alignment explanation
Indices: 843089--843137 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
843079 TTATATTCAC
*
843089 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
843108 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
843127 ATACAAAATTA
1 ATACAAAATTA
843138 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:844967 original size:33 final size:33
Alignment explanation
Indices: 844930--844995 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
844920 CATCTTAATA
*
844930 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
844963 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
844996 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:845069 original size:21 final size:21
Alignment explanation
Indices: 845029--845093 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
845019 CCCCTTATGC
* *
845029 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
845050 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
845071 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
845092 CT
1 CT
845094 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:847346 original size:17 final size:18
Alignment explanation
Indices: 847324--847366 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
847314 ATATATCCGG
847324 TATCATT-TTACCGGTTT
1 TATCATTGTTACCGGTTT
847341 TATCATTTTGTTACCGGTTT
1 TATCA--TTGTTACCGGTTT
847361 TATCAT
1 TATCAT
847367 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (18 bp):
TATCATTGTTACCGGTTT
Found at i:847356 original size:20 final size:20
Alignment explanation
Indices: 847329--847375 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
847319 TCCGGTATCA
847329 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
847348 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
847369 TTTTACC
1 TTTTACC
847376 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:847523 original size:20 final size:20
Alignment explanation
Indices: 847497--847542 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
847487 CACTTTTAAA
847497 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
847516 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
847537 TTTACC
1 TTTACC
847543 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:855064 original size:21 final size:21
Alignment explanation
Indices: 855039--855084 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
855029 TTGCAGCGTT
855039 AATTAAGTTGTTGCATGCAAC
1 AATTAAGTTGTTGCATGCAAC
855060 AATTAAGTTGTTGCATGCAAC
1 AATTAAGTTGTTGCATGCAAC
855081 AATT
1 AATT
855085 GATTGCAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATTAAGTTGTTGCATGCAAC
Found at i:855292 original size:18 final size:17
Alignment explanation
Indices: 855259--855292 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
855249 GAGGTAATTT
*
855259 TTTATTATTTAAATTAG
1 TTTATTATTGAAATTAG
855276 TTTATTATATGAAATTA
1 TTTATTAT-TGAAATTA
855293 TTAGTATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTATTATTGAAATTAG
Found at i:855406 original size:43 final size:43
Alignment explanation
Indices: 855359--855458 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
855349 AGTATAAATT
* *
855359 ATTAGTTTGTTATTTTAAGTTA-TACTATATAAAAAATTAGTTA
1 ATTAGTTTGTTAGTTAAAGTTATTA-TATATAAAAAATTAGTTA
* * *
855402 ATTAGTTTTTTAGTTAAAGTTATTATATGTAAAAAATTATTTA
1 ATTAGTTTGTTAGTTAAAGTTATTATATATAAAAAATTAGTTA
855445 ATT-GATTTGTTAGT
1 ATTAG-TTTGTTAGT
855459 GTGTTTAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.02
43 46 0.94
44 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (43 bp):
ATTAGTTTGTTAGTTAAAGTTATTATATATAAAAAATTAGTTA
Found at i:855881 original size:17 final size:17
Alignment explanation
Indices: 855859--855919 Score: 77
Period size: 17 Copynumber: 3.4 Consensus size: 17
855849 AAGTTTTTCA
855859 TGTTTAAAAAAATATTG
1 TGTTTAAAAAAATATTG
*
855876 TGTTTAAAAATATTTATTG
1 TGTTTAAAAA-A-ATATTG
*
855895 TTGTTTAAAAAAATATTT
1 -TGTTTAAAAAAATATTG
855913 TGTTTAA
1 TGTTTAA
855920 TTTATATTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
17 17 0.45
18 5 0.13
19 6 0.16
20 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (17 bp):
TGTTTAAAAAAATATTG
Found at i:858031 original size:30 final size:30
Alignment explanation
Indices: 857997--858069 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
857987 CCCGAAGGAC
857997 CTATCCAGAGGTCATAAAGATACTCGGTAA
1 CTATCCAGAGGTCATAAAGATACTCGGTAA
*
858027 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATACTCGGTAA
* *
858057 CTGTCCATAGGTC
1 CTATCCAGAGGTC
858070 CCGAAGAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATACTCGGTAA
Found at i:858127 original size:62 final size:62
Alignment explanation
Indices: 858052--858180 Score: 181
Period size: 63 Copynumber: 2.1 Consensus size: 62
858042 AAAGATCCTC
* *
858052 GGTAACTGTCCATAGGTCCCG-AAGAACCTAGGT-AAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATAGGTCCCGAAAG-ACATAGGTAAAACTGTCCATATGTTCCGTAGAACATA
* *
858113 GGTATACTGTCCATATGTCTCGAAAGACATAGGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGTA-ACTGTCCATAGGTCCCGAAAGACATAGGTAAAACTGTCCATATGTTCCGTAGAACATA
*
858176 AGTAA
1 GGTAA
858181 ACCCTCGACT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
61 4 0.07
62 23 0.38
63 33 0.55
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (62 bp):
GGTAACTGTCCATAGGTCCCGAAAGACATAGGTAAAACTGTCCATATGTTCCGTAGAACATA
Found at i:858175 original size:32 final size:31
Alignment explanation
Indices: 858055--858182 Score: 143
Period size: 31 Copynumber: 4.1 Consensus size: 31
858045 GATCCTCGGT
* * * *
858055 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
*
858086 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* *
858117 TACTGTCCATATG-TCTCG-AAAGACATAGGTAA
1 AACTGTCCATATGTTC-CGTAGA-ACATAGGT-A
*
858149 AACTGTCCATATGTTCCGTAGAACATAAGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
858180 AAC
1 AAC
858183 CCTCGACTCT
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
30 4 0.05
31 51 0.63
32 22 0.27
33 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:859194 original size:16 final size:16
Alignment explanation
Indices: 859173--859203 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
859163 TGTAATACAG
*
859173 ATAATCACATATAATT
1 ATAATCACACATAATT
859189 ATAATCACACATAAT
1 ATAATCACACATAAT
859204 CATGTCCATG
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATCACACATAATT
Found at i:859582 original size:21 final size:21
Alignment explanation
Indices: 859558--859602 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
859548 CCATGTTCGT
* *
859558 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
* *
859579 TTGAATGTGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
859600 TTG
1 TTG
859603 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:861230 original size:44 final size:41
Alignment explanation
Indices: 861173--861290 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 41
861163 CTTAACTATT
*
861173 TAACTAAC-TACAAACTAATTAAATATTTTTTATAAATA-A
1 TAACTAACAAACAAACTAATTAAATATTTTTTATAAATATA
* *
861212 CTAACGACTAACAAACAAACTAATTAATTATTTTTT-TTAATATA
1 -T-A--ACTAACAAACAAACTAATTAAATATTTTTTATAAATATA
*
861256 TAACTATCAAACAAACTAATTAAATAATTTTTTAT
1 TAACTAACAAACAAACTAATTAAAT-ATTTTTTAT
861291 TTATGTATGA
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
40 22 0.33
41 8 0.12
42 2 0.03
43 12 0.18
44 22 0.33
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (41 bp):
TAACTAACAAACAAACTAATTAAATATTTTTTATAAATATA
Found at i:861353 original size:21 final size:21
Alignment explanation
Indices: 861300--861339 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
861290 TTTATGTATG
861300 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
861321 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
861340 ATTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:868811 original size:23 final size:23
Alignment explanation
Indices: 868785--868846 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
868775 TGGTTTATTA
* **
868785 TTAAACGAACATGTTCATGAACG
1 TTAAACGAATATGTTCACAAACG
* *
868808 TTAACCGAATATGTTCGCAAACG
1 TTAAACGAATATGTTCACAAACG
*
868831 TTAAAAGAATATGTTC
1 TTAAACGAATATGTTC
868847 TTTAACATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (23 bp):
TTAAACGAATATGTTCACAAACG
Found at i:879548 original size:7 final size:7
Alignment explanation
Indices: 879536--879572 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
879526 GTCAAAGAAA
879536 GTCAACG
1 GTCAACG
879543 GTCAACG
1 GTCAACG
879550 GTC-ACG
1 GTCAACG
*
879556 GTCAACA
1 GTCAACG
879563 GTCAACG
1 GTCAACG
879570 GTC
1 GTC
879573 GGGCCGGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:879558 original size:13 final size:14
Alignment explanation
Indices: 879535--879572 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
879525 AGTCAAAGAA
879535 AGTCAACGGTCAAC
1 AGTCAACGGTCAAC
*
879549 GGTC-ACGGTCAAC
1 AGTCAACGGTCAAC
879562 AGTCAACGGTC
1 AGTCAACGGTC
879573 GGGCCGGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (14 bp):
AGTCAACGGTCAAC
Found at i:879585 original size:17 final size:17
Alignment explanation
Indices: 879563--879619 Score: 96
Period size: 17 Copynumber: 3.4 Consensus size: 17
879553 ACGGTCAACA
* *
879563 GTCAACGGTCGGGCCGG
1 GTCAACAGTCGGGTCGG
879580 GTCAACAGTCGGGTCGG
1 GTCAACAGTCGGGTCGG
879597 GTCAACAGTCGGGTCGG
1 GTCAACAGTCGGGTCGG
879614 GTCAAC
1 GTCAAC
879620 CCGGTTCAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.18, C:0.26, G:0.40, T:0.16
Consensus pattern (17 bp):
GTCAACAGTCGGGTCGG
Found at i:879637 original size:19 final size:19
Alignment explanation
Indices: 879613--879702 Score: 128
Period size: 19 Copynumber: 4.7 Consensus size: 19
879603 AGTCGGGTCG
*
879613 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
879632 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
879651 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAG-ACC
* *
879670 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
879690 GGTCAAACCGGTT
1 GGTCAAACCGGTT
879703 TTCCAGCAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
18 1 0.02
19 49 0.75
20 15 0.23
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:879685 original size:10 final size:10
Alignment explanation
Indices: 879615--879702 Score: 94
Period size: 9 Copynumber: 9.1 Consensus size: 10
879605 TCGGGTCGGG
*
879615 TCAACCCGGT
1 TCAAACCGGT
*
879625 TCAGACCGG-
1 TCAAACCGGT
879634 TCAAACCGGT
1 TCAAACCGGT
*
879644 TCAGACCGG-
1 TCAAACCGGT
879653 TCAAACCGGT
1 TCAAACCGGT
*
879663 TCGAACCGG-
1 TCAAACCGGT
879672 TCAAACCGGT
1 TCAAACCGGT
*
879682 TCAAAACTGG-
1 TC-AAACCGGT
879692 TCAAACCGGT
1 TCAAACCGGT
879702 T
1 T
879703 TTCCAGCAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
9 30 0.47
10 28 0.44
11 6 0.09
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:886867 original size:7 final size:7
Alignment explanation
Indices: 886855--886891 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
886845 GTCAAAGAAA
886855 GTCAACG
1 GTCAACG
886862 GTCAACG
1 GTCAACG
886869 GTC-ACG
1 GTCAACG
886875 GTCAACG
1 GTCAACG
886882 GTCAACG
1 GTCAACG
886889 GTC
1 GTC
886892 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:886877 original size:13 final size:14
Alignment explanation
Indices: 886855--886891 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
886845 GTCAAAGAAA
886855 GTCAACGGTCAACG
1 GTCAACGGTCAACG
886869 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
886882 GTCAACGGTC
1 GTCAACGGTC
886892 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:886903 original size:17 final size:17
Alignment explanation
Indices: 886881--886921 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
886871 CACGGTCAAC
*
886881 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
886898 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
886915 GGTCAAC
1 GGTCAAC
886922 CCGGTTCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:886939 original size:19 final size:19
Alignment explanation
Indices: 886915--886985 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
886905 AGTCGGGTCG
* *
886915 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAAACC
886934 GGTCAAACCGGTTCAAACC
1 GGTCAAACCGGTTCAAACC
*
886953 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AAACC
886973 GGTCAAACCGGTT
1 GGTCAAACCGGTT
886986 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 31 0.65
20 17 0.35
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAAACC
Found at i:886949 original size:10 final size:10
Alignment explanation
Indices: 886917--886985 Score: 81
Period size: 9 Copynumber: 7.1 Consensus size: 10
886907 TCGGGTCGGG
*
886917 TCAACCCGGT
1 TCAAACCGGT
*
886927 TCAGACCGG-
1 TCAAACCGGT
886936 TCAAACCGGT
1 TCAAACCGGT
886946 TCAAACCGG-
1 TCAAACCGGT
886955 TCAAACCGGT
1 TCAAACCGGT
*
886965 TCAAAACTGG-
1 TC-AAACCGGT
886975 TCAAACCGGT
1 TCAAACCGGT
886985 T
1 T
886986 TTCCAGCAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
9 23 0.46
10 21 0.42
11 6 0.12
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:888746 original size:43 final size:43
Alignment explanation
Indices: 888683--888777 Score: 163
Period size: 43 Copynumber: 2.2 Consensus size: 43
888673 CCTCCAACCA
*
888683 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1 AACACACCATAATGTATAGGTTCCCCAGAACCATACACCCACC
* *
888726 AACACACCATAATGTATAGGTTCCCCAGAATCATACATCCACC
1 AACACACCATAATGTATAGGTTCCCCAGAACCATACACCCACC
888769 AACACACCA
1 AACACACCA
888778 AGTAAGGCCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.38, C:0.36, G:0.09, T:0.17
Consensus pattern (43 bp):
AACACACCATAATGTATAGGTTCCCCAGAACCATACACCCACC
Found at i:888899 original size:24 final size:24
Alignment explanation
Indices: 888872--888923 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
888862 AACGGATATA
*
888872 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
888896 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
888920 TCAA
1 TCAA
888924 GTAACATATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:888924 original size:24 final size:24
Alignment explanation
Indices: 888892--889010 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 24
888882 AAACATAAAT
888892 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCATATCAG-AATC
*
888916 CAGGTCAAGTAACATATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
* *
888940 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
* *
888964 CATGT-TAGATATCATATCAGAATC
1 CAGGTCAAG-TATCATATCAGAATC
* *
888988 CATGTCAAGTATCAGATCAGAAT
1 CAGGTCAAGTATCATATCAGAAT
889011 TCAAATCGAA
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
23 5 0.06
24 76 0.92
25 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.25
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAGAATC
Found at i:890810 original size:43 final size:43
Alignment explanation
Indices: 890747--890841 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
890737 CCTCCAACCA
*
890747 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1 AACACACCATAATGTATAGGTTCCCCAGAACCATACACCCACC
*
890790 AACACACCATAATGTATAGGTTCCCCAGAACCATACATCCACC
1 AACACACCATAATGTATAGGTTCCCCAGAACCATACACCCACC
890833 AACACACCA
1 AACACACCA
890842 AGTAAGGCCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.38, C:0.37, G:0.09, T:0.16
Consensus pattern (43 bp):
AACACACCATAATGTATAGGTTCCCCAGAACCATACACCCACC
Found at i:890963 original size:24 final size:24
Alignment explanation
Indices: 890936--890987 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
890926 AACGGATATA
*
890936 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
890960 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
890984 TCAA
1 TCAA
890988 GTAACATATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:890988 original size:24 final size:24
Alignment explanation
Indices: 890956--891074 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
890946 AAACATAAAT
890956 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCATATCAG-AATC
*
890980 CAGGTCAAGTAACATATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
* *
891004 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
* *
891028 CATGTC-AGATATCAGATCAGAATC
1 CAGGTCAAG-TATCATATCAGAATC
*
891052 CATGTCAAGTATCATATCAGAAT
1 CAGGTCAAGTATCATATCAGAAT
891075 TCAAATCGAA
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
23 5 0.06
24 79 0.92
25 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.24
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAGAATC
Found at i:891090 original size:48 final size:47
Alignment explanation
Indices: 890959--891092 Score: 144
Period size: 48 Copynumber: 2.8 Consensus size: 47
890949 CATAAATCAG
* * *
890959 GTCAAGTATCATATCAGAAATCAGGTCAAGTAA-CATATCAGAATCCAA
1 GTCAAGTATCATATCAGAATTCAAGTCAA--AATCAGATCAGAATCCAA
* * * * *
891007 GTCAAGTATCAGATCAGAATCCATGTCAGATATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATTCAAGTCA-AAATCAGATCAGAATCCAA
*
891055 GTCAAGTATCATATCAGAATTCAAATCGAAAATCAGAT
1 GTCAAGTATCATATCAGAATTCAAGTC-AAAATCAGAT
891093 AAAATATTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 68 0.96
49 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (47 bp):
GTCAAGTATCATATCAGAATTCAAGTCAAAATCAGATCAGAATCCAA
Found at i:897495 original size:30 final size:29
Alignment explanation
Indices: 897438--897497 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
897428 AGGTTGTTTG
*
897438 TTTTCTATTTTTTATTTTGTTTAATTATA
1 TTTTCTATTTTTCATTTTGTTTAATTATA
*
897467 TTTTTTATTTTTCATTTT-TTAATAATTATA
1 TTTTCTATTTTTCATTTTGTT--TAATTATA
897497 T
1 T
897498 CTTTATGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 16 0.59
30 9 0.33
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (29 bp):
TTTTCTATTTTTCATTTTGTTTAATTATA
Found at i:897524 original size:22 final size:23
Alignment explanation
Indices: 897499--897549 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
897489 TAATTATATC
*
897499 TTTATGACAT-GTTTCTTTTATT
1 TTTATGACATAGTTTCATTTATT
*
897521 TTTATGACATATTTTCATTTATT
1 TTTATGACATAGTTTCATTTATT
897544 TTTATG
1 TTTATG
897550 GTACGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.63
Consensus pattern (23 bp):
TTTATGACATAGTTTCATTTATT
Found at i:912124 original size:23 final size:23
Alignment explanation
Indices: 912071--912129 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
912061 ATTTTTTTAA
* * *
912071 AATTAATGAATTATTAATTTATC
1 AATTAATTAATAATTAATATATC
912094 AATTAATTAATAATTAATATATC
1 AATTAATTAATAATTAATATATC
912117 -ATTAAATTAATAA
1 AATT-AATTAATAA
912130 AATTATATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 3 0.09
23 29 0.91
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (23 bp):
AATTAATTAATAATTAATATATC
Found at i:915089 original size:21 final size:21
Alignment explanation
Indices: 915065--915107 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
915055 AATTTTAAAG
* *
915065 GTACAATTATATGAACAAAAT
1 GTACAATGACATGAACAAAAT
* *
915086 GTACGATGACATGAACAGAAT
1 GTACAATGACATGAACAAAAT
915107 G
1 G
915108 ATACCATTTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.23
Consensus pattern (21 bp):
GTACAATGACATGAACAAAAT
Found at i:916487 original size:3 final size:3
Alignment explanation
Indices: 916479--916509 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
916469 TACTTACCTC
916479 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
916510 ATCTACATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:917305 original size:2 final size:2
Alignment explanation
Indices: 917298--917323 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
917288 TATTTATAAG
917298 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
917324 TACCAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:932843 original size:20 final size:19
Alignment explanation
Indices: 932796--932834 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
932786 ATGACCAACA
**
932796 AAATCGCAATGCGATCTTT
1 AAATCGCAATGCGATCTCC
932815 AAATCGCAATGCGATCTCC
1 AAATCGCAATGCGATCTCC
932834 A
1 A
932835 GTATCGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (19 bp):
AAATCGCAATGCGATCTCC
Found at i:933249 original size:18 final size:17
Alignment explanation
Indices: 933230--933266 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
933220 TATGTGATTA
933230 TATAATGTATATATA-T
1 TATAATGTATATATATT
933246 TATAATGTATATATATGT
1 TATAATGTATATATAT-T
933264 TAT
1 TAT
933267 TTACACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.79
18 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (17 bp):
TATAATGTATATATATT
Found at i:933251 original size:16 final size:16
Alignment explanation
Indices: 933230--933261 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
933220 TATGTGATTA
933230 TATAATGTATATATAT
1 TATAATGTATATATAT
933246 TATAATGTATATATAT
1 TATAATGTATATATAT
933262 GTTATTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
TATAATGTATATATAT
Found at i:940068 original size:106 final size:106
Alignment explanation
Indices: 938006--940058 Score: 3617
Period size: 106 Copynumber: 19.4 Consensus size: 106
937996 TACAGCCTTT
938006 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
938071 CGAAGGGACCACTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
* *
938112 AGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
938177 CGAAGGGAACGCTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
* *
938218 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAAAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
938283 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
*
938324 AGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
938389 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
*
938430 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
938495 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
938536 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
938601 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
*
938642 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
938707 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTCC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
938748 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
938813 TGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
* *
938854 AGATCCAATTTCAACTTCACAACGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
938919 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
938960 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
939025 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
*
939066 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAAGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
939131 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
* *
939172 AGAGCTAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
939237 CGAAGGGACCGTTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
939278 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
939343 CGAAGGGACCGCTGGTTATCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
939384 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
939449 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
*
939490 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
939555 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
* * *
939596 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCATGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
939661 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTT
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
939702 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
939767 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
* *
939808 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
939873 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
* * * * * *
939914 AGATCCAATTTCAACTTCACAGCGAAGGATATGGGACTCCAGACAATGCATGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * ** *
939979 CGAAGGGA-CGACTGATTGTCAATAAACAATTTC-CGGGTTCC
66 CGAAGGGACCG-CTGGTTGTCAATAACCAACTTCTC-AATTTC
* *
940020 AGAGCTAATTTCAACTTCACGAC-AGAGGATATTGGACTC
1 AGAGCCAATTTCAACTTCACAACGA-AGGATATTGGACTC
940059 GGAACAATGC
Statistics
Matches: 1870, Mismatches: 74, Indels: 6
0.96 0.04 0.00
Matches are distributed among these distances:
105 4 0.00
106 1866 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
Done.