Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 213 of 313
Found at i:65494826 original size:28 final size:28
Alignment explanation
Indices: 65494786--65495027 Score: 270
Period size: 28 Copynumber: 8.6 Consensus size: 28
65494776 AACACATCAG
* * * *
65494786 GAAAGAATAAGCCTTTCTAGTGAACAAC
1 GAAAGAATAAGCCTTTGTGGCGAACTAC
* * *
65494814 GAAAGAATAAGCCTTTATGGTGAACAAC
1 GAAAGAATAAGCCTTTGTGGCGAACTAC
* * * * *
65494842 AAAAGAATAAGCCTTTATGACGACCTAT
1 GAAAGAATAAGCCTTTGTGGCGAACTAC
* * *
65494870 AAAAGAATAAG-CTTATGTGACGAACTAT
1 GAAAGAATAAGCCTT-TGTGGCGAACTAC
* *
65494898 GAAAGAATAAGCCTTTGTGGAGAACTAT
1 GAAAGAATAAGCCTTTGTGGCGAACTAC
*
65494926 GAAAGAATAAGCCTTTGTGACGAACTAC
1 GAAAGAATAAGCCTTTGTGGCGAACTAC
* * *
65494954 GGAAGATTAAGCCTTTGTGGCAAACTAC
1 GAAAGAATAAGCCTTTGTGGCGAACTAC
*
65494982 GAAAGAATAAGCCTTTGTGGCGAACTAT
1 GAAAGAATAAGCCTTTGTGGCGAACTAC
65495010 GAAAGAATAAGCCTTTGT
1 GAAAGAATAAGCCTTTGT
65495028 AGCAGACTCT
Statistics
Matches: 188, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
27 3 0.02
28 182 0.97
29 3 0.02
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (28 bp):
GAAAGAATAAGCCTTTGTGGCGAACTAC
Found at i:65509999 original size:77 final size:75
Alignment explanation
Indices: 65509858--65510009 Score: 169
Period size: 75 Copynumber: 2.0 Consensus size: 75
65509848 AGTGTGAATG
** * ** * *
65509858 ATATATATATTGTTCGAATATATATGTATACACATATATAGGTTCTTGAATTTAGTTGAAGTATG
1 ATATATATAAGGTCCGAATATATATGTATACACATATATAAATTCTTGAATTGAGTTAAAGTATG
65509923 GAAGTTATAT
66 GAAGTTATAT
* * * *
65509933 ATATATATAAGGTCCGAATATATATGTATATACTTATATAAATTTTTGGAATTGATTTAAAGGTA
1 ATATATATAAGGTCCGAATATATATGTATACACATATATAAATTCTT-GAATTGAGTTAAA-GTA
* *
65509998 TGTATGTTATAT
64 TGGAAGTTATAT
65510010 TTTATATGTG
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
75 39 0.63
76 10 0.16
77 13 0.21
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (75 bp):
ATATATATAAGGTCCGAATATATATGTATACACATATATAAATTCTTGAATTGAGTTAAAGTATG
GAAGTTATAT
Found at i:65510439 original size:40 final size:40
Alignment explanation
Indices: 65510395--65510491 Score: 167
Period size: 40 Copynumber: 2.4 Consensus size: 40
65510385 GGTTCTGTGC
65510395 CTAGCAGGCTTAATGCCAGTGAATTTTTCAGACTTAATGT
1 CTAGCAGGCTTAATGCCAGTGAATTTTTCAGACTTAATGT
** *
65510435 CTAGCAGGCTTAATGCTGGTGAGTTTTTCAGACTTAATGT
1 CTAGCAGGCTTAATGCCAGTGAATTTTTCAGACTTAATGT
65510475 CTAGCAGGCTTAATGCC
1 CTAGCAGGCTTAATGCC
65510492 GGTATTCTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCAGTGAATTTTTCAGACTTAATGT
Found at i:65510939 original size:31 final size:31
Alignment explanation
Indices: 65510899--65510972 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
65510889 ATGCATACAT
*
65510899 TCGGGTATATGCTCTTGATGTATATAAATAC
1 TCGGTTATATGCTCTTGATGTATATAAATAC
* *
65510930 TCGGTTATATGCTCTTGATGTATATCAATAT
1 TCGGTTATATGCTCTTGATGTATATAAATAC
*
65510961 TCAGTTATATGC
1 TCGGTTATATGC
65510973 ATTCGAGGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.42
Consensus pattern (31 bp):
TCGGTTATATGCTCTTGATGTATATAAATAC
Found at i:65519903 original size:16 final size:16
Alignment explanation
Indices: 65519884--65519952 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 16
65519874 TATATTTTAG
65519884 ATTAGATTATTATTAA
1 ATTAGATTATTATTAA
*
65519900 ATTAGATT-TGTGTTAA
1 ATTAGATTAT-TATTAA
*
65519916 AGGTTTATTGATATATTATTAG
1 A---TTA--GAT-TATTATTAA
65519938 ATTAGATTATTATTA
1 ATTAGATTATTATTA
65519953 TTAAGGTATG
Statistics
Matches: 42, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
15 1 0.02
16 22 0.52
17 3 0.07
19 6 0.14
21 3 0.07
22 6 0.14
23 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (16 bp):
ATTAGATTATTATTAA
Found at i:65520122 original size:120 final size:119
Alignment explanation
Indices: 65519969--65520316 Score: 477
Period size: 119 Copynumber: 2.9 Consensus size: 119
65519959 TATGTTAATT
*
65519969 TTTAATATTATA-ATTT-TTTGAATTATTAGAATTGTGTTAAAAGTAATATTAAGATAATTTTAG
1 TTTAATATTATATTTTTGTTTGAATTATTAGAATTGTGTTAAAAGTAATATTAAGATAATTTTAG
* *
65520032 TAGTGTATTTTTTTTATATATTGTAATAATAATTTTTATATTTTAAGATATAGCA
66 TAGTGTATTATTTTT-TATATTGTAATAATAATTTTTATATTTTAAGATATAACA
* *
65520087 TTTAATATTATATTTTTGTTTGAATTATTAGAATTGCGTTAAAAGTAATATTAAGATAATTTTGG
1 TTTAATATTATATTTTTGTTTGAATTATTAGAATTGTGTTAAAAGTAATATTAAGATAATTTTAG
** * *
65520152 TAGTGTATGGTTTTTTATATTCTAATAATAATTTGTATATTTTAAGATATAACA
66 TAGTGTATTATTTTTTATATTGTAATAATAATTTTTATATTTTAAGATATAACA
* * * * ** *
65520206 TTCAACATTATATTTTTGTTTGAATGATTAGATTTGTGTTAAAAGTAATATTAAGATTGGTTTGA
1 TTTAATATTATATTTTTGTTTGAATTATTAGAATTGTGTTAAAAGTAATATTAAGA-TAATTTTA
* * *
65520271 CTATTGTATATATTTTTTATATTGTAATAATAA-TTTTAGATTTTAA
65 GTAGTGTAT-TATTTTTTATATTGTAATAATAATTTTTATATTTTAA
65520317 TATTAAGATA
Statistics
Matches: 202, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
118 12 0.06
119 90 0.45
120 80 0.40
121 20 0.10
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (119 bp):
TTTAATATTATATTTTTGTTTGAATTATTAGAATTGTGTTAAAAGTAATATTAAGATAATTTTAG
TAGTGTATTATTTTTTATATTGTAATAATAATTTTTATATTTTAAGATATAACA
Found at i:65524419 original size:38 final size:39
Alignment explanation
Indices: 65524312--65524434 Score: 105
Period size: 38 Copynumber: 3.2 Consensus size: 39
65524302 CATCGAATGC
** *
65524312 ATATATATA-TTATTCAAATACATATGCCAAA--AG-CAT
1 ATATATATACTTA-TCAACCACATATGCCAAATGCGACAT
* * *
65524348 ATATTTATACTTATCAACCACATGTGCCGAATGC-ACAT
1 ATATATATACTTATCAACCACATATGCCAAATGCGACAT
* *
65524386 ATATATATACTTAT-AATCCACATATGTCAAATGCGTACAC
1 ATATATATACTTATCAA-CCACATATGCCAAATGCG-ACAT
65524426 ATATATATA
1 ATATATATA
65524435 TCCAACAATT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
36 22 0.32
37 5 0.07
38 30 0.43
40 12 0.17
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.33
Consensus pattern (39 bp):
ATATATATACTTATCAACCACATATGCCAAATGCGACAT
Found at i:65524718 original size:41 final size:41
Alignment explanation
Indices: 65524621--65524711 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
65524611 AGCCTGCTAG
* * * *
65524621 GCCTGATTCAGATCATCGGCACTTAGCCTGCTAGGCTTATA
1 GCCTAATTCAGTTCACCAGCACTTAGCCTGCTAGGCTTATA
*
65524662 GCCTAATTCAGTTCACCAGCACTTAGCCTGCTAGGCTTTTA
1 GCCTAATTCAGTTCACCAGCACTTAGCCTGCTAGGCTTATA
65524703 GCCTGAATT
1 GCCT-AATT
65524712 GGTTCACTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 40 0.91
42 4 0.09
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (41 bp):
GCCTAATTCAGTTCACCAGCACTTAGCCTGCTAGGCTTATA
Found at i:65545366 original size:13 final size:13
Alignment explanation
Indices: 65545348--65545372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65545338 GAATTAGTAT
65545348 GTGTGAAAATTTC
1 GTGTGAAAATTTC
65545361 GTGTGAAAATTT
1 GTGTGAAAATTT
65545373 AACCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:65546502 original size:42 final size:42
Alignment explanation
Indices: 65546450--65546566 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 42
65546440 CGATATGTGT
* *
65546450 TTTCGTGTAAGACCACGTCTGGGACATTGGCA-TCATATTTG
1 TTTCATGTAAGACCACGTCTAGGACATTGGCATTCATATTTG
* * * * *
65546491 ATTTCATGTAAGACC-CTGCCTAGGATAATGGAATTGATATTTG
1 -TTTCATGTAAGACCAC-GTCTAGGACATTGGCATTCATATTTG
* *
65546534 TTTACATGTAAGACCATGTCTAGGACGTTGGCA
1 TTT-CATGTAAGACCACGTCTAGGACATTGGCA
65546567 CTGTATGAGC
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
41 1 0.02
42 27 0.47
43 30 0.52
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
TTTCATGTAAGACCACGTCTAGGACATTGGCATTCATATTTG
Found at i:65557588 original size:56 final size:56
Alignment explanation
Indices: 65557502--65557635 Score: 241
Period size: 56 Copynumber: 2.4 Consensus size: 56
65557492 CATGGCATCA
* *
65557502 ATATATGTGTGCGAGTAAGGCCACGTTTTATACATTGGCATCGATATGTGACTCTG
1 ATATATGTGTGCGAGTAAGACCACGTTTTATACATTGGCATCGATATGCGACTCTG
*
65557558 ATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGCGACTCTG
1 ATATATGTGTGCGAGTAAGACCACGTTTTATACATTGGCATCGATATGCGACTCTG
65557614 ATATATGTGTGCGAGTAAGACC
1 ATATATGTGTGCGAGTAAGACC
65557636 CTATCTAGGA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTTATACATTGGCATCGATATGCGACTCTG
Found at i:65559054 original size:18 final size:18
Alignment explanation
Indices: 65559007--65559047 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
65558997 AGATGGATTG
*
65559007 ATATGAT-ATATATATGT
1 ATATGATAAGATATATGT
65559024 ATATGATAAGATATATGT
1 ATATGATAAGATATATGT
65559042 ATATGA
1 ATATGA
65559048 AGTGATAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (18 bp):
ATATGATAAGATATATGT
Found at i:65561832 original size:41 final size:41
Alignment explanation
Indices: 65561781--65561862 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
65561771 GTGTACTTCT
*
65561781 TTCTGAATTCCTCTTGGAAGAAAACCCAAGTAACTCTTTCC
1 TTCTAAATTCCTCTTGGAAGAAAACCCAAGTAACTCTTTCC
* * *
65561822 TTCTAAATTCCTCTTGGAAGAAATCCCACGTAATTCTTTCC
1 TTCTAAATTCCTCTTGGAAGAAAACCCAAGTAACTCTTTCC
65561863 CTCGGTACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (41 bp):
TTCTAAATTCCTCTTGGAAGAAAACCCAAGTAACTCTTTCC
Found at i:65564996 original size:27 final size:27
Alignment explanation
Indices: 65564939--65564996 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
65564929 ACCCTTTAAT
** **
65564939 TGATAAAATGACTGTTATGTCTTTATA
1 TGATAAAATGACTGTTATACCCCTATA
* *
65564966 TGATAAAATGACTGTTTTACCCCTATG
1 TGATAAAATGACTGTTATACCCCTATA
65564993 TGAT
1 TGAT
65564997 GTATGATTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (27 bp):
TGATAAAATGACTGTTATACCCCTATA
Found at i:65566597 original size:46 final size:46
Alignment explanation
Indices: 65566547--65566768 Score: 299
Period size: 46 Copynumber: 4.8 Consensus size: 46
65566537 TGATTGAGCA
65566547 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
65566593 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65566639 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
65566684 CATCCGAGGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65566732 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65566769 GCGGGTTACA
Statistics
Matches: 156, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
45 3 0.02
46 109 0.70
47 27 0.17
48 3 0.02
50 5 0.03
51 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65571107 original size:17 final size:18
Alignment explanation
Indices: 65571085--65571123 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
65571075 ACTATAGACC
65571085 TTAAAG-TAATAATAAAA
1 TTAAAGTTAATAATAAAA
*
65571102 TTAAAGTTAGTAATAAAA
1 TTAAAGTTAATAATAAAA
65571120 TTAA
1 TTAA
65571124 CATTTATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
TTAAAGTTAATAATAAAA
Found at i:65574273 original size:46 final size:45
Alignment explanation
Indices: 65574206--65574373 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 45
65574196 CGCCCCTAAG
*
65574206 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
65574252 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * * *
65574299 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
65574345 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
65574374 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 55 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:65574317 original size:93 final size:93
Alignment explanation
Indices: 65574207--65574377 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
65574197 GCCCCTAAGT
* * *
65574207 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
65574272 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
65574300 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
65574365 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65574378 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65585808 original size:15 final size:15
Alignment explanation
Indices: 65585757--65585810 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
65585747 AGAGGCACGG
*
65585757 GTGTATGTCTCAGCC
1 GTGTGTGTCTCAGCC
* *
65585772 GTGTGTGCCACA-CC
1 GTGTGTGTCTCAGCC
*
65585786 AGTATGTGTCTCAGCC
1 -GTGTGTGTCTCAGCC
65585802 GTGTGTGTC
1 GTGTGTGTC
65585811 ACACGGCCTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 2 0.07
15 26 0.87
16 2 0.07
ACGTcount: A:0.13, C:0.26, G:0.30, T:0.31
Consensus pattern (15 bp):
GTGTGTGTCTCAGCC
Found at i:65590015 original size:28 final size:28
Alignment explanation
Indices: 65589978--65590127 Score: 183
Period size: 28 Copynumber: 5.3 Consensus size: 28
65589968 AAGTCTACAT
* * **
65589978 ACATGCATATGGCCCACTATACCCAATC
1 ACATTCATATGGCCCATTAGCCCCAATC
* ** *
65590006 TCATTCATATGGCCCATTAGGCCTAAATT
1 ACATTCATATGGCCCATTA-GCCCCAATC
**
65590035 ACATTCATATGGCCCATCGGCCCCAATC
1 ACATTCATATGGCCCATTAGCCCCAATC
*
65590063 ACATTCATATGGCCCATTGGCCCCAATC
1 ACATTCATATGGCCCATTAGCCCCAATC
*
65590091 ACATTCATATGGCCCATTGGCCCCAATC
1 ACATTCATATGGCCCATTAGCCCCAATC
65590119 ACATTCATA
1 ACATTCATA
65590128 GTCATGCAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 86 0.81
29 20 0.19
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGCCCCAATC
Found at i:65590115 original size:56 final size:57
Alignment explanation
Indices: 65589999--65590127 Score: 206
Period size: 56 Copynumber: 2.3 Consensus size: 57
65589989 GCCCACTATA
* * *
65589999 CCCAATCTCATTCATATGGCCCATTAGGCCTAAATTACATTCATATGGCCCATCGGC
1 CCCAATCACATTCATATGGCCCATTAGGCCCAAATCACATTCATATGGCCCATCGGC
* *
65590056 CCCAATCACATTCATATGGCCCATT-GGCCCCAATCACATTCATATGGCCCATTGGC
1 CCCAATCACATTCATATGGCCCATTAGGCCCAAATCACATTCATATGGCCCATCGGC
65590112 CCCAATCACATTCATA
1 CCCAATCACATTCATA
65590128 GTCATGCAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
56 43 0.64
57 24 0.36
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.26
Consensus pattern (57 bp):
CCCAATCACATTCATATGGCCCATTAGGCCCAAATCACATTCATATGGCCCATCGGC
Found at i:65593456 original size:36 final size:36
Alignment explanation
Indices: 65593416--65593492 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
65593406 TGATGATTGT
* *
65593416 TGTGAAAG-AGAATATGTGGGTATGTTATTCGTGCCA
1 TGTGAAAGTA-AATATGTGGGTATGATATTCATGCCA
* *
65593452 TGTGACAGTAAATATGTGTGTATGATATTCATGCCA
1 TGTGAAAGTAAATATGTGGGTATGATATTCATGCCA
65593488 TGTGA
1 TGTGA
65593493 TAACAATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 35 0.97
37 1 0.03
ACGTcount: A:0.29, C:0.09, G:0.27, T:0.35
Consensus pattern (36 bp):
TGTGAAAGTAAATATGTGGGTATGATATTCATGCCA
Found at i:65596292 original size:30 final size:30
Alignment explanation
Indices: 65596258--65596319 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
65596248 GACCATATTC
65596258 TAGCCATATCACATAGCATGATATACACAT
1 TAGCCATATCACATAGCATGATATACACAT
*
65596288 TAGCCATATTACATAGCATGATATACACAT
1 TAGCCATATCACATAGCATGATATACACAT
65596318 TA
1 TA
65596320 CAAAACATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (30 bp):
TAGCCATATCACATAGCATGATATACACAT
Found at i:65596317 original size:16 final size:15
Alignment explanation
Indices: 65596263--65596317 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 15
65596253 TATTCTAGCC
65596263 ATATCACATAGCATG
1 ATATCACATAGCATG
65596278 ATATACACATTAGCCAT-
1 ATAT-CACA-TAG-CATG
65596295 AT-T-ACATAGCATG
1 ATATCACATAGCATG
65596308 ATATACACAT
1 ATAT-CACAT
65596318 TACAAAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
12 3 0.09
13 5 0.15
14 4 0.12
15 4 0.12
16 9 0.27
17 5 0.15
18 3 0.09
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (15 bp):
ATATCACATAGCATG
Found at i:65598509 original size:40 final size:40
Alignment explanation
Indices: 65598451--65598667 Score: 244
Period size: 40 Copynumber: 5.5 Consensus size: 40
65598441 AAGCCAGGTA
* * * * *
65598451 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
65598490 CCTTCAGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
65598530 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
65598570 CCTTCGGGGCTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * ** *
65598610 CCTTCGAGACTTAGCCCGGA-ACTAGTCACTAACGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
65598650 CCTTCGGG-CTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
65598668 TTATCATCCG
Statistics
Matches: 153, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
39 22 0.14
40 131 0.86
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:65601528 original size:39 final size:39
Alignment explanation
Indices: 65601485--65601577 Score: 150
Period size: 39 Copynumber: 2.4 Consensus size: 39
65601475 GGTCTTTAAC
* *
65601485 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
* *
65601524 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
65601563 CCGGATATATTTCCA
1 CCGGATATATTTCCA
65601578 ATCTCATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (39 bp):
CCGGATATATTTCCAGCACATAGCCTGCGGACCTCAAGT
Found at i:65609466 original size:39 final size:39
Alignment explanation
Indices: 65609423--65609554 Score: 192
Period size: 39 Copynumber: 3.4 Consensus size: 39
65609413 GGTCTTTAAC
* ** * *
65609423 CCGGATATTTTTCCAGCACGTAGCCTGCGGACATCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
65609462 CCGGATTTATTTCCAGTATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
65609501 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
*
65609540 CCTGATATATTTCCA
1 CCGGATATATTTCCA
65609555 ATCTCATATA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:65614917 original size:7 final size:7
Alignment explanation
Indices: 65614905--65614962 Score: 71
Period size: 7 Copynumber: 8.3 Consensus size: 7
65614895 CATGTTTCAC
65614905 CCCTAAA
1 CCCTAAA
65614912 CCCTAAA
1 CCCTAAA
*
65614919 CCTTAAA
1 CCCTAAA
*
65614926 CCTTAAA
1 CCCTAAA
* *
65614933 CCTTAAG
1 CCCTAAA
65614940 CCCTAAA
1 CCCTAAA
65614947 CCCTAAA
1 CCCTAAA
*
65614954 GCCTAAA
1 CCCTAAA
65614961 CC
1 CC
65614963 TATTGACTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.40, C:0.38, G:0.03, T:0.19
Consensus pattern (7 bp):
CCCTAAA
Found at i:65619122 original size:86 final size:85
Alignment explanation
Indices: 65618958--65619123 Score: 203
Period size: 86 Copynumber: 1.9 Consensus size: 85
65618948 GAAAAACTTG
* * * * *
65618958 TACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACA
1 TACAATGCAAATGTCCCAAACATGGTCTTACACGTAATCAAATATCAATGCCACTATCCCAGACA
65619023 AGATCTTACACGAAATCATA
66 AGATCTTACACGAAATCATA
*
65619043 TACAATGCAAATGTCCCAAACATGGTCTTACACGTAAATTTC-AA-ATCAATGCCAAC-ATCCTA
1 TACAATGCAAATGTCCCAAACATGGTCTTACACGT-AA--TCAAATATCAATGCC-ACTATCCCA
* *
65619105 GACATGGTCTTACACGAAA
62 GACAAGATCTTACACGAAA
65619124 ACACATATCT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 31 0.45
86 32 0.46
87 4 0.06
88 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (85 bp):
TACAATGCAAATGTCCCAAACATGGTCTTACACGTAATCAAATATCAATGCCACTATCCCAGACA
AGATCTTACACGAAATCATA
Found at i:65633443 original size:23 final size:24
Alignment explanation
Indices: 65633400--65633444 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
65633390 TAATCAAAAA
*
65633400 GCTCACGAAGAGCCTATTAATAAT
1 GCTCACGAAAAGCCTATTAATAAT
65633424 GCTCAC-AAAAGCC-ATGTAATA
1 GCTCACGAAAAGCCTAT-TAATA
65633445 GGAGCTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 11 0.58
24 6 0.32
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (24 bp):
GCTCACGAAAAGCCTATTAATAAT
Found at i:65642691 original size:2 final size:2
Alignment explanation
Indices: 65642684--65642722 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
65642674 ACATTAAATC
* *
65642684 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65642723 TTGGTATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
AT
Found at i:65646174 original size:48 final size:48
Alignment explanation
Indices: 65646112--65646340 Score: 166
Period size: 48 Copynumber: 4.8 Consensus size: 48
65646102 GGGTTGATGA
* * * *
65646112 GATCCCGTATAAGACCATATCTGGGATATGGCATTGGAATTGATATAT
1 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATAT
* * *
65646160 GATCCCATGTAAGACAATGTCTGGGACATGGCATTGGCATCG--ATAT
1 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATAT
* * * * * * *
65646206 GAGTACATCATGTAAGACCATAGCTAGGCTAATGGC-TTTG-AT--ATGTGT
1 GA-T-C-CCATGTAAGACCATATCTGGGAT-ATGGCATTGGCATCGATATAT
* * * * * *
65646254 GATCCCACGTAAGACCATGTTTGGGACATGGCCTTGGCATCGATATGT
1 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATAT
* *
65646302 G-GCCCAATGTAAGACCATATCCGGGATATGGCATTGGCA
1 GATCCC-ATGTAAGACCATATCTGGGATATGGCATTGGCA
65646341 CCCTACTATG
Statistics
Matches: 136, Mismatches: 34, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
44 5 0.04
45 18 0.13
46 9 0.07
47 5 0.04
48 75 0.55
49 19 0.14
50 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATAT
Found at i:65647303 original size:14 final size:13
Alignment explanation
Indices: 65647280--65647311 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
65647270 GGGATATCAA
65647280 AACAATAATTAAG
1 AACAATAATTAAG
65647293 AACACATAATTAAG
1 AACA-ATAATTAAG
65647307 AACAA
1 AACAA
65647312 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:65647468 original size:29 final size:29
Alignment explanation
Indices: 65647433--65647490 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
65647423 AAGAATAAAG
65647433 AATACAAAACATAAAGAAAACCCAAAACT
1 AATACAAAACATAAAGAAAACCCAAAACT
* *
65647462 AATACAACACATAAAGAAAACCTAAAACT
1 AATACAAAACATAAAGAAAACCCAAAACT
65647491 CCTGGAGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.64, C:0.21, G:0.03, T:0.12
Consensus pattern (29 bp):
AATACAAAACATAAAGAAAACCCAAAACT
Found at i:65655688 original size:20 final size:20
Alignment explanation
Indices: 65655665--65655715 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
65655655 ATTAAAAAAT
*
65655665 ATTTTTAAAAAAAATTATAA
1 ATTTTTAAAAAAAATAATAA
* **
65655685 ATTTGT-AAATCAATAATAA
1 ATTTTTAAAAAAAATAATAA
65655704 ATTTTATAAAAA
1 ATTTT-TAAAAA
65655716 TATTAAATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
19 14 0.61
20 6 0.26
21 3 0.13
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTTTTAAAAAAAATAATAA
Found at i:65656385 original size:11 final size:11
Alignment explanation
Indices: 65656369--65656407 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
65656359 AAAAAAACTA
65656369 TTGTTTTGTTG
1 TTGTTTTGTTG
* *
65656380 TTGTTTTTTTA
1 TTGTTTTGTTG
65656391 TTGTTTTGTTG
1 TTGTTTTGTTG
65656402 TTGTTT
1 TTGTTT
65656408 CCTACTGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.21, T:0.77
Consensus pattern (11 bp):
TTGTTTTGTTG
Found at i:65657172 original size:28 final size:29
Alignment explanation
Indices: 65657132--65657186 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
65657122 ATCTTAATCT
65657132 TAAAATTTATTTTTA-TTTATTTATTTAA
1 TAAAATTTATTTTTATTTTATTTATTTAA
*
65657160 TAAAATATT-TTTTTATTTTTTTTATTT
1 TAAAAT-TTATTTTTATTTTATTTATTT
65657187 TTTATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (29 bp):
TAAAATTTATTTTTATTTTATTTATTTAA
Found at i:65659052 original size:26 final size:28
Alignment explanation
Indices: 65659006--65659070 Score: 64
Period size: 28 Copynumber: 2.3 Consensus size: 28
65658996 GGAATTTTTA
65659006 TTTATATTTTAAAAA-TCTTT-TTTATTT
1 TTTA-ATTTTAAAAATTCTTTATTTATTT
*
65659033 TTTAATTTTAAATAGTT-TTTATTTATTT
1 TTTAATTTTAAA-AATTCTTTATTTATTT
*
65659061 TCATAATTTT
1 T-TTAATTTT
65659071 TATTTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 8 0.25
27 8 0.25
28 9 0.28
29 7 0.22
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTAATTTTAAAAATTCTTTATTTATTT
Found at i:65659079 original size:28 final size:27
Alignment explanation
Indices: 65659048--65659113 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
65659038 TTTTAAATAG
*
65659048 TTTTTATTTATTTTCATAATTTTTATTT
1 TTTTTATTTATTTT-AAAATTTTTATTT
* *
65659076 TTTTAAATATATTTTAAAATTTTTATTT
1 TTTT-TATTTATTTTAAAATTTTTATTT
*
65659104 TTTATATTTA
1 TTTTTATTTA
65659114 AAATATGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 19 0.61
29 8 0.26
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTTATTTATTTTAAAATTTTTATTT
Found at i:65659090 original size:19 final size:20
Alignment explanation
Indices: 65659028--65659091 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 20
65659018 AAATCTTTTT
*
65659028 TATTTT-TTAATTTTAAATA
1 TATTTTATTTATTTTAAATA
*
65659047 GT-TTTTATTTATTTT-CATA
1 -TATTTTATTTATTTTAAATA
65659066 -ATTTTTATTT-TTTTAAATA
1 TA-TTTTATTTATTTTAAATA
65659085 TATTTTA
1 TATTTTA
65659092 AAATTTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
18 4 0.11
19 23 0.64
20 9 0.25
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TATTTTATTTATTTTAAATA
Found at i:65659630 original size:11 final size:10
Alignment explanation
Indices: 65659609--65659634 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
65659599 ACTAATTGGT
65659609 AAAAAAGAAA
1 AAAAAAGAAA
65659619 AAAAAAGAAA
1 AAAAAAGAAA
65659629 AAAAAA
1 AAAAAA
65659635 CCTCACAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:65663856 original size:24 final size:24
Alignment explanation
Indices: 65663825--65663885 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
65663815 TTCTCAATTC
65663825 AATC-AATTTAAATTGATTAATCT
1 AATCTAATTTAAATTGATTAATCT
* *
65663848 AATTTAATTTAATTTGATTAATCT
1 AATCTAATTTAAATTGATTAATCT
*
65663872 AATCTAATTCAAAT
1 AATCTAATTTAAAT
65663886 AATATTATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 3 0.09
24 29 0.91
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (24 bp):
AATCTAATTTAAATTGATTAATCT
Found at i:65666507 original size:48 final size:48
Alignment explanation
Indices: 65666397--65666611 Score: 226
Period size: 46 Copynumber: 4.6 Consensus size: 48
65666387 TGATATGTGT
* * * *
65666397 GCTAGTATAAGACATGTCTAGGACATGCATCGGCC---ACAT-TACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATGTAC-A-A
* *
65666443 GCTAGTGTAAGACATGTCTGGGATATGCATTGGCCTCGAGATGTACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATGTACAA
* * ** * * *
65666491 GCCACTGTAAGACATGTCTGGGACATGCAACGGCATTGAGACG-A-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATGTACAA
*
65666537 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATGTACAA
* *
65666585 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
65666612 GCATCTGTTT
Statistics
Matches: 139, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
46 68 0.49
47 2 0.01
48 62 0.45
49 4 0.03
50 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATGTACAA
Found at i:65666565 original size:94 final size:92
Alignment explanation
Indices: 65666404--65666611 Score: 292
Period size: 94 Copynumber: 2.2 Consensus size: 92
65666394 TGTGCTAGTA
* *
65666404 TAAGACATGTCTAGGACATGCATCGGCCACATTACGAGAGCTAGTGTAAGACATGTCTGGGATAT
1 TAAGACATGTCTAGGACATGCAACGG-C-CATTACGAGAGCTAGTGTAAGACATGTCTGGGACAT
*
65666469 GCATTGGCCTCGAGATGTACAAGCCACTG
64 GCATTGGCCTCGAGATATACAAGCCACTG
*
65666498 TAAGACATGTCTGGGACATGCAACGG-CATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACA
1 TAAGACATGTCTAGGACATGCAACGGCCATT---ACGAGAGCTAGTGTAAGACATGTCTGGGACA
* * *
65666562 TGCATTGGCCTTGAGATATACAAGCTAGTG
63 TGCATTGGCCTCGAGATATACAAGCCACTG
*
65666592 TAAGACCTGTCTAGGACATG
1 TAAGACATGTCTAGGACATG
65666612 GCATCTGTTT
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
91 4 0.04
94 98 0.96
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (92 bp):
TAAGACATGTCTAGGACATGCAACGGCCATTACGAGAGCTAGTGTAAGACATGTCTGGGACATGC
ATTGGCCTCGAGATATACAAGCCACTG
Found at i:65666695 original size:49 final size:48
Alignment explanation
Indices: 65666631--65666760 Score: 163
Period size: 49 Copynumber: 2.7 Consensus size: 48
65666621 TGTTGTGTGT
*
65666631 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGC
1 CAGTGTAAGA-CTGTCTGGGACATGGCATCGACACCGATAGATGAAAGC
* * * *
65666680 CAGTGTAAGATCTGTCTAGGACATGGCATCGACATCGATATATGAAAGT
1 CAGTGTAAGA-CTGTCTGGGACATGGCATCGACACCGATAGATGAAAGC
* *
65666729 CAGTGCAAGACTTATCTGGGACATGG-ATCGAC
1 CAGTGTAAGAC-TGTCTGGGACATGGCATCGAC
65666761 TTTGATGTGG
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
48 7 0.10
49 64 0.90
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (48 bp):
CAGTGTAAGACTGTCTGGGACATGGCATCGACACCGATAGATGAAAGC
Found at i:65668522 original size:46 final size:46
Alignment explanation
Indices: 65668455--65668673 Score: 266
Period size: 46 Copynumber: 4.7 Consensus size: 46
65668445 AACCCGCCCC
* * * *
65668455 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
65668501 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
65668549 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
65668594 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
65668640 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65668674 TGCTCAACCA
Statistics
Matches: 149, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 1 0.01
45 2 0.01
46 104 0.70
47 28 0.19
48 2 0.01
49 1 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:65673616 original size:66 final size:67
Alignment explanation
Indices: 65673489--65673617 Score: 156
Period size: 66 Copynumber: 1.9 Consensus size: 67
65673479 GGGATGTATC
* **
65673489 CCATGTAGAAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTTTAAGTGAA
1 CCATGTAGAAAGAGAGCTACG-GAGAGA-AAATG-AGCTAGGTCGCATGAGTGATACTAAGTGAA
65673554 GGACA
63 GGACA
*
65673559 CCATGTAGACAAGAGAGCTAC-GAGAG-AAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGA-AAGAGAGCTACGGAGAGAAAAT-GAGCTAGGTCGCATGAGTGATACTAAGTG
65673618 TTCACCATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
66 23 0.43
67 4 0.08
68 1 0.02
69 5 0.09
70 9 0.17
71 11 0.21
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (67 bp):
CCATGTAGAAAGAGAGCTACGGAGAGAAAATGAGCTAGGTCGCATGAGTGATACTAAGTGAAGGA
CA
Found at i:65675036 original size:37 final size:37
Alignment explanation
Indices: 65674986--65675064 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
65674976 TTATTACGAA
* *
65674986 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
65675023 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
65675060 GTCTT
1 GTCTT
65675065 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:65675261 original size:47 final size:47
Alignment explanation
Indices: 65675183--65675345 Score: 227
Period size: 47 Copynumber: 3.5 Consensus size: 47
65675173 CCCTTCGGGA
* * * * * * *
65675183 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65675230 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65675277 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65675324 CTTATCACATATATATACTTTC
1 CTTATCACATATATACACTTTC
65675346 TTGGCTGAAT
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 103 1.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65680429 original size:70 final size:70
Alignment explanation
Indices: 65680316--65680492 Score: 354
Period size: 70 Copynumber: 2.5 Consensus size: 70
65680306 TATTGATTTG
65680316 ATGATTATGTCACCTAAATTAGTGGAGAGGAAGTATTAAGTTCAACATATGAAGATCATAAATAA
1 ATGATTATGTCACCTAAATTAGTGGAGAGGAAGTATTAAGTTCAACATATGAAGATCATAAATAA
65680381 GCCTT
66 GCCTT
65680386 ATGATTATGTCACCTAAATTAGTGGAGAGGAAGTATTAAGTTCAACATATGAAGATCATAAATAA
1 ATGATTATGTCACCTAAATTAGTGGAGAGGAAGTATTAAGTTCAACATATGAAGATCATAAATAA
65680451 GCCTT
66 GCCTT
65680456 ATGATTATGTCACCTAAATTAGTGGAGAGGAAGTATT
1 ATGATTATGTCACCTAAATTAGTGGAGAGGAAGTATT
65680493 TAGTGAACTA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 107 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.31
Consensus pattern (70 bp):
ATGATTATGTCACCTAAATTAGTGGAGAGGAAGTATTAAGTTCAACATATGAAGATCATAAATAA
GCCTT
Found at i:65683844 original size:120 final size:120
Alignment explanation
Indices: 65683631--65683870 Score: 435
Period size: 120 Copynumber: 2.0 Consensus size: 120
65683621 GAAATCCATA
* *
65683631 GTTACGCATTCCCATTTCCAAAGAGGAATCTTAACCGGCTGCAACAAACCCGAAGGTAACTGATG
1 GTTACGCATTCCCATTTCCAAAGAGGAATCTTAACCGGCTACAACAAACCCAAAGGTAACTGATG
*
65683696 CTCAGACTTAACCTGCTGGCAAGTAGACATCTGCCCACAAAATTAGTAACCTCAC
66 CTCAGACTTAACCTACTGGCAAGTAGACATCTGCCCACAAAATTAGTAACCTCAC
* *
65683751 GTTACGCGTTCCCATTTCCAAAGAGGAATCTTAACCGGCTACAGCAAACCCAAAGGTAACTGATG
1 GTTACGCATTCCCATTTCCAAAGAGGAATCTTAACCGGCTACAACAAACCCAAAGGTAACTGATG
65683816 CTCAGACTTAACCTACTGGCAAGTAGACATCTGCCCACAAAATTAGTAACCTCAC
66 CTCAGACTTAACCTACTGGCAAGTAGACATCTGCCCACAAAATTAGTAACCTCAC
65683871 ATTTCAACCT
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (120 bp):
GTTACGCATTCCCATTTCCAAAGAGGAATCTTAACCGGCTACAACAAACCCAAAGGTAACTGATG
CTCAGACTTAACCTACTGGCAAGTAGACATCTGCCCACAAAATTAGTAACCTCAC
Found at i:65689594 original size:343 final size:343
Alignment explanation
Indices: 65688964--65689612 Score: 1034
Period size: 343 Copynumber: 1.9 Consensus size: 343
65688954 CATCGTTCCT
* *
65688964 AGTCGCTCGGTCGTGTGACCCAGTCTCAGTGACAAGCGACACTAGCGTCTCACTAGTGTCTAGAC
1 AGTCGCTCGATCATGTGACCCAGTCTCAGTGACAAGCGACACTAGCGTCTCACTAGTGTCTAGAC
* * *
65689029 TTGGCATACTCTCCAGTGAAGAGGACTTAGCTCGAGCTCCTCTACGACCTCTACCTCGACCTCTA
66 TTGGCATACTCTCCAGTAAAGAGGACTCAGCTCGAGCCCCTCTACGACCTCTACCTCGACCTCTA
* *
65689094 GTACCCCGTCCGCGAGTACCTCATGCGCTCATCGTCTAGTAGTGCTTATCTGTATTAAAAGTTTT
131 GTACCCCGTCCGCCAGTACCTCATGCGCTCATCGTCTAGTAGTGCTTATATGTATTAAAAGTTTT
65689159 ATGAATCAGATTACAATTCAATAGTTATTAGCAGATGTTTTATGGAAACATTTTAGTAGTTCAGA
196 ATGAATCAGATTACAATTCAATAGTTATTAGCAGATGTTTTATGGAAACATTTTAGTAGTTCAGA
*
65689224 GTTTGTTTTCGTACAACGCAATGTCTACCAGTGTTTATCGATTTTATTACAGTATCATTATACAC
261 GTTTGTTTTCATACAACGCAATGTCTACCAGTGTTTATCGATTTTATTACAGTATCATTATACAC
65689289 TAACCTGAGTGTTTCCCC
326 TAACCTGAGTGTTTCCCC
* * * * *
65689307 AGTCGCTCGATCATGTGACCCAGTCTCAGTGACAGGCGACACTGGCGTCTCGCTATTGTCTAGAT
1 AGTCGCTCGATCATGTGACCCAGTCTCAGTGACAAGCGACACTAGCGTCTCACTAGTGTCTAGAC
* * * * *
65689372 TTGGCATATTGC-CCAGTAAAGAGGACTCAGCTCGAGCCCCTCTATGGCCTTTACCTCGGCCTCT
66 TTGGCATACT-CTCCAGTAAAGAGGACTCAGCTCGAGCCCCTCTACGACCTCTACCTCGACCTCT
*
65689436 AGTACCCCGTCC-CCAGTACCTCGTGCGCTCATCGTCTAGTAGTGCTTATATGTATTAAAAGTTT
130 AGTACCCCGTCCGCCAGTACCTCATGCGCTCATCGTCTAGTAGTGCTTATATGTATTAAAAGTTT
* * *
65689500 TATGAATCAGTTTACAGTTCAATAGTTATTAGCAGATGTTTTATGGAAATAGTTTTAGTAGTTCA
195 TATGAATCAGATTACAATTCAATAGTTATTAGCAGATGTTTTATGGAAACA-TTTTAGTAGTTCA
* *
65689565 GAGTTTGTTTTCATA-AGACGCAGTGTCTACCAGTGTTTATCGGTTTTA
259 GAGTTTGTTTTCATACA-ACGCAATGTCTACCAGTGTTTATCGATTTTA
65689613 CCACAGTAAC
Statistics
Matches: 279, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
342 98 0.35
343 180 0.65
344 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (343 bp):
AGTCGCTCGATCATGTGACCCAGTCTCAGTGACAAGCGACACTAGCGTCTCACTAGTGTCTAGAC
TTGGCATACTCTCCAGTAAAGAGGACTCAGCTCGAGCCCCTCTACGACCTCTACCTCGACCTCTA
GTACCCCGTCCGCCAGTACCTCATGCGCTCATCGTCTAGTAGTGCTTATATGTATTAAAAGTTTT
ATGAATCAGATTACAATTCAATAGTTATTAGCAGATGTTTTATGGAAACATTTTAGTAGTTCAGA
GTTTGTTTTCATACAACGCAATGTCTACCAGTGTTTATCGATTTTATTACAGTATCATTATACAC
TAACCTGAGTGTTTCCCC
Found at i:65689964 original size:18 final size:18
Alignment explanation
Indices: 65689940--65689987 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
65689930 TGTCATTCCT
65689940 TTTCAAAACATTATTC-A
1 TTTCAAAACATTATTCAA
* *
65689957 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTCAA
65689976 TTTCAAAACATT
1 TTTCAAAACATT
65689988 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (18 bp):
TTTCAAAACATTATTCAA
Found at i:65695611 original size:16 final size:16
Alignment explanation
Indices: 65695590--65695625 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
65695580 TGGTTCGCTA
*
65695590 TAATGGAATAGAGCTG
1 TAATGGAATAGAACTG
65695606 TAATGGAATAGAACTG
1 TAATGGAATAGAACTG
65695622 TAAT
1 TAAT
65695626 AGTAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (16 bp):
TAATGGAATAGAACTG
Found at i:65695671 original size:45 final size:44
Alignment explanation
Indices: 65695607--65695695 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 44
65695597 ATAGAGCTGT
65695607 AATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
65695652 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
65695696 GATGATGTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
43 1 0.02
44 19 0.45
45 22 0.52
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:65695979 original size:20 final size:20
Alignment explanation
Indices: 65695870--65695980 Score: 60
Period size: 20 Copynumber: 5.8 Consensus size: 20
65695860 TTATTATTAA
*
65695870 ATATAAATTAATAAAATAAT
1 ATATAATTTAATAAAATAAT
*
65695890 ATAAAATTTAATAAAAT--T
1 ATATAATTTAATAAAATAAT
* * *
65695908 CT-TAA--T-AT-AATTATT
1 ATATAATTTAATAAAATAAT
*
65695923 ATATGAA-TTAAAAAATCATAAT
1 ATAT-AATTTAATAAA--ATAAT
*
65695945 ATATAATACT-ATAAAATAAT
1 ATATAAT-TTAATAAAATAAT
65695965 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
65695981 AATTCTTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 24
0.65 0.12 0.23
Matches are distributed among these distances:
13 3 0.04
14 2 0.03
15 3 0.04
16 1 0.01
17 4 0.06
18 3 0.04
19 2 0.03
20 35 0.52
21 2 0.03
22 11 0.16
23 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.38
Consensus pattern (20 bp):
ATATAATTTAATAAAATAAT
Found at i:65697959 original size:32 final size:32
Alignment explanation
Indices: 65697920--65697984 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
65697910 GATGGCATAC
65697920 ACACTATACTTAGCCCAAGCTCTTTCCCTTAT
1 ACACTATACTTAGCCCAAGCTCTTTCCCTTAT
65697952 ACACTATACTTAGCCCAAGCTCTTTCCCTTAT
1 ACACTATACTTAGCCCAAGCTCTTTCCCTTAT
65697984 A
1 A
65697985 TCTTCCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.34
Consensus pattern (32 bp):
ACACTATACTTAGCCCAAGCTCTTTCCCTTAT
Found at i:65705507 original size:18 final size:19
Alignment explanation
Indices: 65705484--65705535 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
65705474 AAATGAAGAA
65705484 ATGGTATCGATATAAAAT-
1 ATGGTATCGATATAAAATC
* *
65705502 ATGGTATTGATA-AAATTC
1 ATGGTATCGATATAAAATC
65705520 AGTAGGTATCGATATA
1 A-T-GGTATCGATATA
65705536 TTTCTAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.15
18 12 0.44
19 1 0.04
20 9 0.33
21 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (19 bp):
ATGGTATCGATATAAAATC
Found at i:65706212 original size:30 final size:31
Alignment explanation
Indices: 65706146--65706215 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
65706136 TTAGTTTTAG
65706146 ATAATTTTATTTAATTTGATTTTTTGTTTAAT
1 ATAATTTTATTTAATTTGATTTTTTG-TTAAT
65706178 -TAA-TTTATTTTAATTTGATTTTTTG-TAAT
1 ATAATTTTA-TTTAATTTGATTTTTTGTTAAT
65706207 ATAATTTTA
1 ATAATTTTA
65706216 AATTACTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
29 4 0.11
30 7 0.20
31 24 0.69
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (31 bp):
ATAATTTTATTTAATTTGATTTTTTGTTAAT
Found at i:65706484 original size:35 final size:35
Alignment explanation
Indices: 65706438--65706523 Score: 136
Period size: 35 Copynumber: 2.5 Consensus size: 35
65706428 GTTCAAGATT
*
65706438 CAGTAGATCATTTCCATGATGCCACTCCGTAGAGC
1 CAGTAGATCATTTCCATGATGCCACTCCGTAGACC
* * *
65706473 CAGTAGATCATTTTCATGATGCCGCTTCGTAGACC
1 CAGTAGATCATTTCCATGATGCCACTCCGTAGACC
65706508 CAGTAGATCATTTCCA
1 CAGTAGATCATTTCCA
65706524 ACCAAACTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (35 bp):
CAGTAGATCATTTCCATGATGCCACTCCGTAGACC
Found at i:65707732 original size:25 final size:25
Alignment explanation
Indices: 65707704--65707751 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
65707694 ATACCATTCA
*
65707704 ATAACAACAA-AATACAATACGTAGT
1 ATAA-AACAATAACACAATACGTAGT
*
65707729 ATAAATCAATAACACAATACGTA
1 ATAAAACAATAACACAATACGTA
65707752 CCATTGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.56, C:0.17, G:0.06, T:0.21
Consensus pattern (25 bp):
ATAAAACAATAACACAATACGTAGT
Found at i:65708621 original size:9 final size:9
Alignment explanation
Indices: 65708603--65708777 Score: 208
Period size: 9 Copynumber: 19.4 Consensus size: 9
65708593 TTTGGTTAAA
65708603 AATTAACCG
1 AATTAACCG
*
65708612 AATTACCCG
1 AATTAACCG
65708621 AATTAACCG
1 AATTAACCG
* *
65708630 GATTAATCG
1 AATTAACCG
* *
65708639 GATTACCCG
1 AATTAACCG
65708648 AATTAACCG
1 AATTAACCG
65708657 AATT-ACCTG
1 AATTAACC-G
*
65708666 AATTAACCA
1 AATTAACCG
65708675 AATTAACCG
1 AATTAACCG
65708684 AATTAACCG
1 AATTAACCG
*
65708693 AATTACCCG
1 AATTAACCG
65708702 AATTAACCG
1 AATTAACCG
*
65708711 GATTAACCG
1 AATTAACCG
*
65708720 GATTAACCG
1 AATTAACCG
* *
65708729 GATTACCCG
1 AATTAACCG
*
65708738 AATTAACTG
1 AATTAACCG
*
65708747 AATTACCCG
1 AATTAACCG
*
65708756 AATTAACCA
1 AATTAACCG
65708765 AATTAACCG
1 AATTAACCG
65708774 AATT
1 AATT
65708778 GAATCACTAC
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
8 3 0.02
9 136 0.96
10 3 0.02
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:65708919 original size:18 final size:18
Alignment explanation
Indices: 65708879--65708922 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
65708869 AATTTTTATG
**
65708879 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
65708897 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
65708915 CTTGGGTT
1 ATTGGGTT
65708923 TGGATTGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:65712412 original size:17 final size:17
Alignment explanation
Indices: 65712387--65712429 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
65712377 TTTATTTAAC
*
65712387 AATACTTTTATCTCAAA
1 AATATTTTTATCTCAAA
65712404 AATATTTTTTTATCTCAAA
1 AATA--TTTTTATCTCAAA
*
65712423 AGTATTT
1 AATATTT
65712430 CTTAAGAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 7 0.32
19 15 0.68
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (17 bp):
AATATTTTTATCTCAAA
Found at i:65712416 original size:19 final size:19
Alignment explanation
Indices: 65712392--65712429 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
65712382 TTAACAATAC
65712392 TTTTATCTCAAAAATATTT
1 TTTTATCTCAAAAATATTT
*
65712411 TTTTATCTCAAAAGTATTT
1 TTTTATCTCAAAAATATTT
65712430 CTTAAGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTATCTCAAAAATATTT
Found at i:65713193 original size:19 final size:19
Alignment explanation
Indices: 65713166--65713202 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
65713156 AAATTTTGGT
65713166 ATTAATATAATATTAAAAA
1 ATTAATATAATATTAAAAA
*
65713185 ATTATTATAATATTAAAA
1 ATTAATATAATATTAAAA
65713203 CTTTAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTAATATAATATTAAAAA
Found at i:65713212 original size:19 final size:19
Alignment explanation
Indices: 65713166--65713212 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
65713156 AAATTTTGGT
*
65713166 ATTAATATAATATTAAAAA
1 ATTAGTATAATATTAAAAA
* *
65713185 ATTATTATAATATTAAAAC
1 ATTAGTATAATATTAAAAA
*
65713204 TTTAGTATA
1 ATTAGTATA
65713213 TCTTTTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTAGTATAATATTAAAAA
Found at i:65717566 original size:24 final size:23
Alignment explanation
Indices: 65717534--65717603 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 23
65717524 GGGTAGGATT
*
65717534 TGATTCTGTATGTGATATTGCATA
1 TGATTCTGTATCTGA-ATTGCATA
* ** *
65717558 TGATTCTGTATTTGAGATTATATT
1 TGATTCTGTATCTGA-ATTGCATA
*
65717582 TGAATCTGTATCTGAATTGCAT
1 TGATTCTGTATCTGAATTGCAT
65717604 TTGAAAACGT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 5 0.14
24 32 0.86
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.47
Consensus pattern (23 bp):
TGATTCTGTATCTGAATTGCATA
Found at i:65741966 original size:20 final size:20
Alignment explanation
Indices: 65741897--65741986 Score: 74
Period size: 20 Copynumber: 4.2 Consensus size: 20
65741887 ATACATGTTA
*
65741897 TGTTCTGTTCTGCTCCATTC
1 TGTTCTGTTCTGCTCTATTC
65741917 TGTTCTGTTCTGCTCTAATCTAC
1 TGTTCTGTTCTGCTCT-AT-T-C
* *
65741940 TCCGTTCTGTTATGTTCTATTC
1 T--GTTCTGTTCTGCTCTATTC
* *
65741962 TGTTCAGTAT-TGCTCTACTC
1 TGTTCTGT-TCTGCTCTATTC
65741982 TGTTC
1 TGTTC
65741987 CATCTTGTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
20 34 0.59
21 3 0.05
22 3 0.05
23 3 0.05
24 2 0.03
25 13 0.22
ACGTcount: A:0.10, C:0.26, G:0.14, T:0.50
Consensus pattern (20 bp):
TGTTCTGTTCTGCTCTATTC
Found at i:65741986 original size:30 final size:29
Alignment explanation
Indices: 65741952--65742025 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 29
65741942 CGTTCTGTTA
65741952 TGTTCTATTCTGTTCAGTAT-TGCTCTACTC
1 TGTTCTATTCTGTTCAGT-TCTGCTCTA-TC
* * *
65741982 TGTTCCA-TCTTGTTCTGTTCTGCTCTATT
1 TGTTCTATTC-TGTTCAGTTCTGCTCTATC
65742011 TGGTTCTATTCTGTT
1 T-GTTCTATTCTGTT
65742026 TGAATTGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
29 5 0.14
30 29 0.81
31 2 0.06
ACGTcount: A:0.09, C:0.22, G:0.15, T:0.54
Consensus pattern (29 bp):
TGTTCTATTCTGTTCAGTTCTGCTCTATC
Found at i:65742003 original size:20 final size:20
Alignment explanation
Indices: 65741953--65742025 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
65741943 GTTCTGTTAT
65741953 GTTCTATTCTGTT-CAGTATT-
1 GTTCTATTCTGTTCCA-T-TTG
* *
65741973 GCTCTACTCTGTTCCATCTT-
1 GTTCTATTCTGTTCCAT-TTG
* * *
65741993 GTTCTGTTCTGCTCTATTTG
1 GTTCTATTCTGTTCCATTTG
65742013 GTTCTATTCTGTT
1 GTTCTATTCTGTT
65742026 TGAATTGCAT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 2 0.05
20 37 0.90
21 2 0.05
ACGTcount: A:0.10, C:0.22, G:0.15, T:0.53
Consensus pattern (20 bp):
GTTCTATTCTGTTCCATTTG
Found at i:65749994 original size:27 final size:27
Alignment explanation
Indices: 65749964--65750124 Score: 187
Period size: 27 Copynumber: 6.0 Consensus size: 27
65749954 TTATCTCCTA
**
65749964 GGGGTATAACAATCATTTTACCCTATG
1 GGGGTATTTCAATCATTTTACCCTATG
*
65749991 GGGGTATTTCAACCATTTTACCCTATG
1 GGGGTATTTCAATCATTTTACCCTATG
** * *
65750018 GGGGTATTTCGGTCATTTTATCTTATG
1 GGGGTATTTCAATCATTTTACCCTATG
* * * **
65750045 AGGTTATTTCGATCATTTTACCCTACA
1 GGGGTATTTCAATCATTTTACCCTATG
*
65750072 GGGGTATTTCAATCATTTTACCTTATG
1 GGGGTATTTCAATCATTTTACCCTATG
* *
65750099 AGGGTATTTCAGTCATTTTACCCTAT
1 GGGGTATTTCAATCATTTTACCCTAT
65750125 AAGGTTCTCG
Statistics
Matches: 110, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCAATCATTTTACCCTATG
Found at i:65750023 original size:54 final size:54
Alignment explanation
Indices: 65749962--65750125 Score: 211
Period size: 54 Copynumber: 3.0 Consensus size: 54
65749952 TTTTATCTCC
** * * *
65749962 TAGGGGTATAACAATCATTTTACCCTATGGGGGTATTTCAACCATTTTACCCTA
1 TAGGGGTATTTCAATCATTTTACCTTATGAGGGTATTTCAATCATTTTACCCTA
* ** * * *
65750016 TGGGGGTATTTCGGTCATTTTATCTTATGAGGTTATTTCGATCATTTTACCCTA
1 TAGGGGTATTTCAATCATTTTACCTTATGAGGGTATTTCAATCATTTTACCCTA
* *
65750070 CAGGGGTATTTCAATCATTTTACCTTATGAGGGTATTTCAGTCATTTTACCCTA
1 TAGGGGTATTTCAATCATTTTACCTTATGAGGGTATTTCAATCATTTTACCCTA
65750124 TA
1 TA
65750126 AGGTTCTCGA
Statistics
Matches: 90, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (54 bp):
TAGGGGTATTTCAATCATTTTACCTTATGAGGGTATTTCAATCATTTTACCCTA
Found at i:65750130 original size:81 final size:81
Alignment explanation
Indices: 65749975--65750130 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
65749965 GGGTATAACA
** * * *
65749975 ATCATTTTACCCTATGGGGGTATTTCAACCATTTTACCCTATGGGGGTATTTCGGTCATTTTATC
1 ATCATTTTACCCTACAGGGGTATTTCAACCATTTTACCCTATGAGGGTATTTCAGTCATTTTACC
* *
65750040 TTATGAGGTTATTTCG
66 CTATAAGGTTATTTCG
* *
65750056 ATCATTTTACCCTACAGGGGTATTTCAATCATTTTACCTTATGAGGGTATTTCAGTCATTTTACC
1 ATCATTTTACCCTACAGGGGTATTTCAACCATTTTACCCTATGAGGGTATTTCAGTCATTTTACC
65750121 CTATAAGGTT
66 CTATAAGGTT
65750131 CTCGATGCAG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.42
Consensus pattern (81 bp):
ATCATTTTACCCTACAGGGGTATTTCAACCATTTTACCCTATGAGGGTATTTCAGTCATTTTACC
CTATAAGGTTATTTCG
Found at i:65752062 original size:22 final size:22
Alignment explanation
Indices: 65752043--65752118 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
65752033 TATCACCCAT
*
65752043 AAAACATAAACAATTTACCCTC
1 AAAACACAAACAATTTACCCTC
* *
65752065 GAAACACAACCAATTTACCCTC
1 AAAACACAAACAATTTACCCTC
** * *
65752087 CGAACACAAGCAAATGTACCCTC
1 AAAACACAAAC-AATTTACCCTC
*
65752110 CAAACACAA
1 AAAACACAA
65752119 CCATATATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 27 0.60
23 18 0.40
ACGTcount: A:0.46, C:0.33, G:0.05, T:0.16
Consensus pattern (22 bp):
AAAACACAAACAATTTACCCTC
Found at i:65752106 original size:23 final size:22
Alignment explanation
Indices: 65752058--65752199 Score: 92
Period size: 23 Copynumber: 6.2 Consensus size: 22
65752048 ATAAACAATT
* *
65752058 TACCCT-CGAAACACAACCAATT
1 TACCCTCCG-AACACAACAAATG
65752080 TACCCTCCGAACACAAGCAAATG
1 TACCCTCCGAACACAA-CAAATG
* *
65752103 TACCCTCCAAACACAACCATATATA
1 TACCCTCCGAACACAA-CA-A-ATG
* *
65752128 TAACCTCTGAACACAACAAA-G
1 TACCCTCCGAACACAACAAATG
* * *
65752149 TATTCCCTCCAAACACAACCAATT
1 TA--CCCTCCGAACACAACAAATG
*
65752173 TACCC-CTCGAACATAACCAAATG
1 TACCCTC-CGAACACAA-CAAATG
65752196 TACC
1 TACC
65752200 TGCAAAACAC
Statistics
Matches: 93, Mismatches: 18, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
21 3 0.03
22 24 0.26
23 46 0.49
24 5 0.05
25 15 0.16
ACGTcount: A:0.41, C:0.35, G:0.06, T:0.18
Consensus pattern (22 bp):
TACCCTCCGAACACAACAAATG
Found at i:65752157 original size:48 final size:45
Alignment explanation
Indices: 65752058--65752199 Score: 155
Period size: 48 Copynumber: 3.1 Consensus size: 45
65752048 ATAAACAATT
* *
65752058 TACCCTCGAAACACAACCAATTTACCCTCCGAACACAAGCAAATG
1 TACCCTCCAAACACAACCAATTTAACCTCCGAACACAAGCAAATG
*
65752103 TACCCTCCAAACACAACCATATATATAACCTCTGAACACAA-CAAA-G
1 TACCCTCCAAACACAACCA-AT-T-TAACCTCCGAACACAAGCAAATG
* * *
65752149 TATTCCCTCCAAACACAACCAATTT-ACCCCTCGAACATAACCAAATG
1 TA--CCCTCCAAACACAACCAATTTAACCTC-CGAACACAAGCAAATG
65752196 TACC
1 TACC
65752200 TGCAAAACAC
Statistics
Matches: 83, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
44 4 0.05
45 28 0.34
46 10 0.12
47 10 0.12
48 31 0.37
ACGTcount: A:0.41, C:0.35, G:0.06, T:0.18
Consensus pattern (45 bp):
TACCCTCCAAACACAACCAATTTAACCTCCGAACACAAGCAAATG
Found at i:65752222 original size:93 final size:94
Alignment explanation
Indices: 65752058--65752270 Score: 263
Period size: 93 Copynumber: 2.3 Consensus size: 94
65752048 ATAAACAATT
* * *
65752058 TACCCTCGAAACACAACCAATTTA-CCCTCCGAACACAAGCAAATGTACCCTCCAAACACAACCA
1 TACCCTCCAAACACAACCAATTTACCCCTCCGAACACAACCAAATGTACCCTCAAAACACAACCA
* **
65752122 TATATATAACCTCTGAACACAA-CAAAGTA
66 TACATATAACCTCCAAACACAATC-AAGTA
* * *
65752151 TTCCCTCCAAACACAACCAATTTACCCCT-CGAACATAACCAAATGTA-CCTGCAAAACACTACC
1 TACCCTCCAAACACAACCAATTTACCCCTCCGAACACAACCAAATGTACCCT-CAAAACACAACC
* *
65752214 ATACATATAATCTCCAAACATAATCAAGTA
65 ATACATATAACCTCCAAACACAATCAAGTA
* *
65752244 TACCCTCCAAACATAACCAATATACCC
1 TACCCTCCAAACACAACCAATTTACCC
65752271 TTTAACATAT
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
92 3 0.03
93 95 0.92
94 5 0.05
ACGTcount: A:0.42, C:0.34, G:0.05, T:0.19
Consensus pattern (94 bp):
TACCCTCCAAACACAACCAATTTACCCCTCCGAACACAACCAAATGTACCCTCAAAACACAACCA
TACATATAACCTCCAAACACAATCAAGTA
Found at i:65752251 original size:23 final size:22
Alignment explanation
Indices: 65752225--65752271 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
65752215 TACATATAAT
*
65752225 CTCCAAACATAATCAAGTATACC
1 CTCCAAACATAACCAA-TATACC
65752248 CTCCAAACATAACCAATATACC
1 CTCCAAACATAACCAATATACC
65752270 CT
1 CT
65752272 TTAACATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.43, C:0.34, G:0.02, T:0.21
Consensus pattern (22 bp):
CTCCAAACATAACCAATATACC
Found at i:65762626 original size:43 final size:43
Alignment explanation
Indices: 65762556--65762732 Score: 221
Period size: 43 Copynumber: 4.1 Consensus size: 43
65762546 TAAAATTCAA
* * *
65762556 GTTCTTTAGTGGCGTTTATGGGGAAAGCGCCGCTAAAGGTCAT
1 GTTCTTTAGTGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCAT
* * *
65762599 GTTCTTTAGTGGCATTTGTGGGAAAAGCATCGCTACAGGTCAT
1 GTTCTTTAGTGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCAT
* * * * *
65762642 ATTCTATAGCT-TCGTTTGTGGGGAAACCACCGCTAAAGGTCAT
1 GTTCTTTAG-TGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCAT
**
65762685 GTTCTTTAACGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCAT
1 GTTCTTTAGTGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCAT
65762728 GTTCT
1 GTTCT
65762733 ACAGCGACGT
Statistics
Matches: 111, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
43 110 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
GTTCTTTAGTGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCAT
Found at i:65762713 original size:86 final size:86
Alignment explanation
Indices: 65762568--65762733 Score: 251
Period size: 86 Copynumber: 1.9 Consensus size: 86
65762558 TCTTTAGTGG
* * ** *
65762568 CGTTTATGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCATTTGTGGGAAAAGCATCGCT
1 CGTTTATGGGGAAACCACCGCTAAAGGTCATGTTCTTTAACGGCATTTGTGGGAAAAGCACCGCT
*
65762633 ACAGGTCATATTCTATAGCTT
66 AAAGGTCATATTCTATAGCTT
* *
65762654 CGTTTGTGGGGAAACCACCGCTAAAGGTCATGTTCTTTAACGGCGTTTGTGGGAAAAGCACCGCT
1 CGTTTATGGGGAAACCACCGCTAAAGGTCATGTTCTTTAACGGCATTTGTGGGAAAAGCACCGCT
*
65762719 AAAGGTCATGTTCTA
66 AAAGGTCATATTCTA
65762734 CAGCGACGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (86 bp):
CGTTTATGGGGAAACCACCGCTAAAGGTCATGTTCTTTAACGGCATTTGTGGGAAAAGCACCGCT
AAAGGTCATATTCTATAGCTT
Found at i:65763654 original size:23 final size:23
Alignment explanation
Indices: 65763623--65763668 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
65763613 ATATAAGAGG
*
65763623 TAATTCCATCAAAATTAGCAACT
1 TAATACCATCAAAATTAGCAACT
* *
65763646 TAATACCATCAACATTCGCAACT
1 TAATACCATCAAAATTAGCAACT
65763669 ACATATTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.28
Consensus pattern (23 bp):
TAATACCATCAAAATTAGCAACT
Found at i:65772361 original size:18 final size:18
Alignment explanation
Indices: 65772327--65772361 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65772317 AGGATTGCAA
* *
65772327 GTTTCCATTTTCGTTTTC
1 GTTTCCATTTCCATTTTC
65772345 GTTTCCATTTCCATTTT
1 GTTTCCATTTCCATTTT
65772362 TGGAAACCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.23, G:0.09, T:0.60
Consensus pattern (18 bp):
GTTTCCATTTCCATTTTC
Found at i:65777372 original size:20 final size:19
Alignment explanation
Indices: 65777335--65777393 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 19
65777325 CTAACTTCAC
*
65777335 AAGTCAAAAAAT-TATAAA
1 AAGTCTAAAAATATATAAA
65777353 AAGTCTAAAGAATATATAAA
1 AAGTCTAAA-AATATATAAA
*
65777373 GAA-TTTAAAAA-ATATAAA
1 -AAGTCTAAAAATATATAAA
65777391 AAG
1 AAG
65777394 ACCCTAAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 2 0.06
18 15 0.43
19 5 0.14
20 11 0.31
21 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.24
Consensus pattern (19 bp):
AAGTCTAAAAATATATAAA
Found at i:65777394 original size:20 final size:19
Alignment explanation
Indices: 65777340--65777394 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
65777330 TTCACAAGTC
65777340 AAAAAATTATAAAAAG-TCT
1 AAAAAA-TATAAAAAGATCT
* * *
65777359 AAAGAATATATAAAGAATTT
1 AAAAAATATAAAAAG-ATCT
65777379 AAAAAATATAAAAAGA
1 AAAAAATATAAAAAGA
65777395 CCCTAAACTC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 8 0.28
19 6 0.21
20 15 0.52
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (19 bp):
AAAAAATATAAAAAGATCT
Found at i:65777625 original size:17 final size:16
Alignment explanation
Indices: 65777603--65777634 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
65777593 ACTTTACTCT
65777603 ATAATTTAAATATAATC
1 ATAATTTAAAT-TAATC
65777620 ATAATTTAAATTAAT
1 ATAATTTAAATTAAT
65777635 AAAACTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTTAAATTAATC
Found at i:65777876 original size:27 final size:27
Alignment explanation
Indices: 65777846--65777898 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
65777836 GTTTAAAATT
65777846 AATCAAAATAAA-ACATAAAAATATGTA
1 AATCAAAATAAATA-ATAAAAATATGTA
*
65777873 AATCAAAATAAATAATAAAAGTATGT
1 AATCAAAATAAATAATAAAAATATGT
65777899 CTACTCAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (27 bp):
AATCAAAATAAATAATAAAAATATGTA
Found at i:65786493 original size:13 final size:13
Alignment explanation
Indices: 65786477--65786507 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
65786467 CCTTCTCCTT
65786477 CCCTTTCCCCTAC
1 CCCTTTCCCCTAC
65786490 CCCTTTCCCCTAC
1 CCCTTTCCCCTAC
65786503 CCCTT
1 CCCTT
65786508 CCCTTTCCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.61, G:0.00, T:0.32
Consensus pattern (13 bp):
CCCTTTCCCCTAC
Found at i:65786494 original size:18 final size:17
Alignment explanation
Indices: 65786459--65786516 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
65786449 CATTCTTCTC
*
65786459 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTAC-CCTT
65786477 CCCTTTCCCCTA--C--
1 CCCTTTCCCCTACCCTT
65786490 CCCTTTCCCCTACCCCTT
1 CCCTTTCCCCTA-CCCTT
65786508 CCCTTTCCC
1 CCCTTTCCC
65786517 GTTTCGAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
13 12 0.35
15 1 0.03
16 1 0.03
18 20 0.59
ACGTcount: A:0.03, C:0.60, G:0.00, T:0.36
Consensus pattern (17 bp):
CCCTTTCCCCTACCCTT
Found at i:65786496 original size:31 final size:31
Alignment explanation
Indices: 65786458--65786516 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
65786448 CCATTCTTCT
* *
65786458 CCCCTTTCCCCTTCTCCTTCCCTTTCCCCTA
1 CCCCTTTCCCCTACCCCTTCCCTTTCCCCTA
65786489 CCCCTTTCCCCTACCCCTTCCCTTTCCC
1 CCCCTTTCCCCTACCCCTTCCCTTTCCC
65786517 GTTTCGAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.03, C:0.61, G:0.00, T:0.36
Consensus pattern (31 bp):
CCCCTTTCCCCTACCCCTTCCCTTTCCCCTA
Found at i:65789036 original size:14 final size:15
Alignment explanation
Indices: 65789014--65789090 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
65789004 CAATCAAACA
65789014 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
65789028 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
65789043 ACAGAAAAGTAGAACATTTT
1 CCAGAAAA-T----CATTTT
65789063 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
65789077 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
65789091 ACTGGTAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:65793365 original size:28 final size:27
Alignment explanation
Indices: 65793305--65793367 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
65793295 TGAAAAGGTG
65793305 AAATTTAATTTTTATATTATAATTTCA
1 AAATTTAATTTTTATATTATAATTTCA
* * *
65793332 AGAATTTAATTTTTATTTTTTAGATTTTA
1 A-AATTTAATTTTTATATTATA-ATTTCA
65793361 AAATTTA
1 AAATTTA
65793368 GATATGTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.77
29 6 0.19
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (27 bp):
AAATTTAATTTTTATATTATAATTTCA
Found at i:65794020 original size:114 final size:113
Alignment explanation
Indices: 65793817--65794165 Score: 619
Period size: 114 Copynumber: 3.1 Consensus size: 113
65793807 CGTTTTCCAA
*
65793817 AAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGATTTAGCGGCGT
1 AAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGATTTAGCGGCGT
65793881 TTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAATGGCGTTTTTGAG
66 TTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAATGGCGTTTTTGAG
*
65793929 AAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGCA
1 AAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTC-GGGATTTAGCGGCG
*
65793994 TTTTTGAGGAAGCGCCGCTAATGCTCAGGGCTTTAATGGCGTTTTTGAG
65 TTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAATGGCGTTTTTGAG
65794043 AAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGATTTAGCGGCGT
1 AAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGATTTAGCGGCGT
**
65794108 TTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
66 TTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAATGGCGTTTTTGAG
* *
65794156 GAAGCGCCGC
1 AAAGCACCGC
65794166 TAATGCTTAG
Statistics
Matches: 226, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
112 9 0.04
113 106 0.47
114 111 0.49
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (113 bp):
AAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGATTTAGCGGCGT
TTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAATGGCGTTTTTGAG
Found at i:65794142 original size:41 final size:41
Alignment explanation
Indices: 65794093--65794206 Score: 183
Period size: 41 Copynumber: 2.8 Consensus size: 41
65794083 CTGAGCATTC
*
65794093 GGGATTTAGCGGCGTTTTTTAGGAAGCGCCGCTAATGCTCA
1 GGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCA
* *
65794134 GGGCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTA
1 GGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCA
* *
65794175 GGGATTTAGCGGCGTTTTTGAGAAAGCACCGC
1 GGGATTTAGCGGCGTTTTTGAGGAAGCGCCGC
65794207 AAAAAACCTA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.28
Consensus pattern (41 bp):
GGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCA
Found at i:65794168 original size:154 final size:154
Alignment explanation
Indices: 65793977--65794319 Score: 562
Period size: 154 Copynumber: 2.2 Consensus size: 154
65793967 TTCTGAGCAT
* * *
65793977 TCAGGGATTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTCAGGGCTTTAATGGCGTTTTTGA
1 TCAGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGATTTAACGGCGTTTTTGA
*
65794042 GAAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTC-GGGATTTAGCGGC
66 GAAAGCACCGC-AAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTAGCGGC
*
65794106 GTTTTTTAGGAAGCGCCGCTAATGC
130 GTTTTTGAGGAAGCGCCGCTAATGC
* * *
65794131 TCAGGGCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGA
1 TCAGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGATTTAACGGCGTTTTTGA
*
65794196 GAAAGCACCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTATCGGCG
66 GAAAGCACCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTAGCGGCG
65794261 TTTTTGAGGAAGCGCCGCTAATGC
131 TTTTTGAGGAAGCGCCGCTAATGC
* * *
65794285 TTAGGGATTTAGCGGCGTTTTTGAGAAAGCACCGC
1 TCAGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGC
65794320 AAAAAACCTA
Statistics
Matches: 175, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
153 38 0.22
154 137 0.78
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (154 bp):
TCAGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGATTTAACGGCGTTTTTGA
GAAAGCACCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTAGCGGCG
TTTTTGAGGAAGCGCCGCTAATGC
Found at i:65794366 original size:267 final size:268
Alignment explanation
Indices: 65793870--65794432 Score: 923
Period size: 267 Copynumber: 2.1 Consensus size: 268
65793860 GCATTCGGGA
* * *
65793870 TTTAGCGGCGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAATGGCGTTTTTGAGAAAGCA
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGATTTAACGGCGTTTTTGAGAAAGCA
*
65793935 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGCATTTTTG
66 CCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCAGGGATTTAGCGGCATTTTTG
* *
65794000 AGGAAGCGCCGCTAATGCTCAGGGCTTTAATGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAA
131 AGGAAGCGCCGCTAATGCTCAGGGATTTAACGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAA
* *
65794065 GCCCAACGACGCCGTTTTCTGAGCATTCGGGATTTAGCGGCGTTTTTTAGGAAGCGCCGCTAATG
196 GCCCAACGACGCCATTTTCTGAGCATTCGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATG
65794130 CTCAGGGC
261 CTCAGGGC
* *
65794138 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCA
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGATTTAACGGCGTTTTTGAGAAAGCA
* * *
65794203 CCGC-AAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTATCGGCGTTTTTG
66 CCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCAGGGATTTAGCGGCATTTTTG
* *
65794267 AGGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCACCGC-AAAAAACCTAA
131 AGGAAGCGCCGCTAATGCTCAGGGATTTAACGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAA
*
65794331 GCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTATCGGCGTTTTTGAGGAAGCGCCGCTAAT
196 GCCCAACGACGCCATTTTCTGAGCATTC-GGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAAT
*
65794396 GCTCTGGGC
260 GCTCAGGGC
* * *
65794405 TTTAGCAGCGTTTTTGAGAAAGTGCCGC
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGC
65794433 CAAAAAACCT
Statistics
Matches: 274, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
266 38 0.14
267 172 0.63
268 64 0.23
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (268 bp):
TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGATTTAACGGCGTTTTTGAGAAAGCA
CCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCAGGGATTTAGCGGCATTTTTG
AGGAAGCGCCGCTAATGCTCAGGGATTTAACGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAA
GCCCAACGACGCCATTTTCTGAGCATTCGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATG
CTCAGGGC
Found at i:65794511 original size:114 final size:113
Alignment explanation
Indices: 65794138--65794609 Score: 685
Period size: 113 Copynumber: 4.2 Consensus size: 113
65794128 TGCTCAGGGC
65794138 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCA
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCA
65794203 CCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGA
66 CCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGA
*
65794251 TTTATCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCA
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCA
65794316 CCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGA
66 CCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGA
* * * *
65794364 TTTATCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCT-GGGCTTTAGCAGCGTTTTTGAGAAAGT
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCT-TAGGGATTTAGCGGCGTTTTTGAGAAAGC
* * * * *
65794428 GCCGCCAAAAAACCTATGTCCAACGACGTCGTTTTCTGAGCATTCGGGGA
65 ACCG-CAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGA
* * * * * ** *
65794478 TTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCTCAAGGCTTTAGCGGTATTTTTGAGAAAGCG
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCA
*** *
65794543 CCGCAAAAAAACCTAAGCCCAACGACGTTGTTTTCTGAGCTTTTCGGGGA
66 CCGC-AAAAAACCTAAGCCCAACGACGCCATTTTCTGAGC-ATTCGGGGA
* *
65794593 TTTTGCAGCGTTTTTGA
1 TTTAGCGGCGTTTTTGA
65794610 CAAAGTGCCG
Statistics
Matches: 329, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
113 175 0.53
114 132 0.40
115 22 0.07
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (113 bp):
TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCA
CCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGA
Found at i:65794537 original size:227 final size:228
Alignment explanation
Indices: 65794138--65794609 Score: 682
Period size: 227 Copynumber: 2.1 Consensus size: 228
65794128 TGCTCAGGGC
* *
65794138 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCA
1 TTTATCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCAGCGTTTTTGAGAAAGCA
* *
65794203 CCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTATCGGCGTTTTTGA
66 CCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTTCA
* * * *
65794268 GGAAGCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCACCGC-AAAAAACCTAAG
131 AGAAGCGCCGCTAATGCTCAAGGATTTAGCGGCATTTTTGAGAAAGCACCGCAAAAAAACCTAAG
65794332 CCCAACGACGCCATTTTCTGAGC-ATTCGGGGA
196 CCCAACGACGCCATTTTCTGAGCTATTCGGGGA
* *
65794364 TTTATCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCT-GGGCTTTAGCAGCGTTTTTGAGAAAGT
1 TTTATCGGCGTTTTTGAGGAAGCGCCGCTAATGCT-TAGGGATTTAGCAGCGTTTTTGAGAAAGC
* * * * *
65794428 GCCGCCAAAAAACCTATGTCCAACGACGTCGTTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTT
65 ACCG-CAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTT
* * *
65794493 CAAGAAGCGCCGCTAATGCTCAAGGCTTTAGCGGTATTTTTGAGAAAGCGCCGCAAAAAAACCTA
129 CAAGAAGCGCCGCTAATGCTCAAGGATTTAGCGGCATTTTTGAGAAAGCACCGCAAAAAAACCTA
*** *
65794558 AGCCCAACGACGTTGTTTTCTGAGCTTTTCGGGGA
194 AGCCCAACGACGCCATTTTCTGAGCTATTCGGGGA
*
65794593 TTT-TGCAGCGTTTTTGA
1 TTTAT-CGGCGTTTTTGA
65794610 CAAAGTGCCG
Statistics
Matches: 218, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
226 61 0.28
227 102 0.47
228 33 0.15
229 22 0.10
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (228 bp):
TTTATCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGGATTTAGCAGCGTTTTTGAGAAAGCA
CCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTTCA
AGAAGCGCCGCTAATGCTCAAGGATTTAGCGGCATTTTTGAGAAAGCACCGCAAAAAAACCTAAG
CCCAACGACGCCATTTTCTGAGCTATTCGGGGA
Found at i:65794650 original size:74 final size:73
Alignment explanation
Indices: 65794529--65794668 Score: 217
Period size: 74 Copynumber: 1.9 Consensus size: 73
65794519 TTTAGCGGTA
* ** *
65794529 TTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTTGTTTTCTGAGCTTTTCGGGGAT
1 TTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA-CCTTTCGGGGAT
65794594 TTTGCAGCG
65 TTTGCAGCG
* *
65794603 TTTTTGACAAAGTGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGACCTTTCGGGGATT
1 TTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCTTTCGGGGATT
65794668 T
66 T
65794669 AACGGCGTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 13 0.22
74 47 0.78
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (73 bp):
TTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCTTTCGGGGATT
TTGCAGCG
Found at i:65794767 original size:188 final size:188
Alignment explanation
Indices: 65794405--65794795 Score: 534
Period size: 188 Copynumber: 2.1 Consensus size: 188
65794395 TGCTCTGGGC
* * * * * *
65794405 TTTAGCAGCGTTTTTGAGAAAGTGCCGCCAAAAAACCTATGTCCAACGACGTCGTTTTCTGAGCA
1 TTTAGCAGCGTTTTTGACAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCA
* * *
65794470 TTCGGGGATTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCTCAAGGCTTTAGCGGTATTTTTG
66 TTCGGGGATTTAACGGCGTTTTTCAAGAAGCACCGCTAATGCTCAAGGCTTTAGCGGCATTTTTG
* *** *
65794535 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTTGTTTTCTGAGCTTTTCG-GGGA
131 AGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCATTTTCTGA-CCTTTCGAGGGA
* * *
65794593 TTTTGCAGCGTTTTTGACAAAGTGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGACCT
1 TTTAGCAGCGTTTTTGACAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCA
* * *
65794658 TTCGGGGATTTAACGGCGTTTTT-AAGAAAGCACTGCTAATGCTCAGGGCTTTAGCGGCGTTTTT
66 TTCGGGGATTTAACGGCGTTTTTCAAG-AAGCACCGCTAATGCTCAAGGCTTTAGCGGCATTTTT
** *
65794722 GATTAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCATTTTCTGACCTTTCGAGGGC
130 GAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCATTTTCTGACCTTTCGAGGGA
*
65794781 TTTAGCGGCGTTTTT
1 TTTAGCAGCGTTTTT
65794796 AATATAGCAC
Statistics
Matches: 176, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
187 9 0.05
188 167 0.95
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (188 bp):
TTTAGCAGCGTTTTTGACAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCA
TTCGGGGATTTAACGGCGTTTTTCAAGAAGCACCGCTAATGCTCAAGGCTTTAGCGGCATTTTTG
AGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCATTTTCTGACCTTTCGAGGGA
Found at i:65794834 original size:115 final size:114
Alignment explanation
Indices: 65794600--65794856 Score: 352
Period size: 115 Copynumber: 2.2 Consensus size: 114
65794590 GGATTTTGCA
* * * *
65794600 GCGTTTTTGACAAAGTGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGACCTTTCGGGG
1 GCGTTTTTGACAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCATTTTCTGACCTTTCGGGG
* **
65794665 ATTTAACGGCGTTTTTAAGAAAGCACTGCTAATGCTCAGGGCTTTAGCG
66 ATTTAACGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGAATTTAGCG
**
65794714 GCGTTTTTGATTAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCATTTTCTGACCTTTCGAGG
1 GCGTTTTTGACAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCATTTTCTGACCTTTCG-GG
* * * * *
65794779 GCTTTAGCGGCGTTTTTAATATAGCACCGCTAATGCTCTGGAATTTAGCG
65 GATTTAACGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGAATTTAGCG
* **
65794829 GCGTTTTCGGGAAAGCGCCGCAAAAAAA
1 GCGTTTTTGACAAAGCGCCGCAAAAAAA
65794857 TTATTTGTCT
Statistics
Matches: 124, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
114 56 0.45
115 68 0.55
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (114 bp):
GCGTTTTTGACAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCATTTTCTGACCTTTCGGGG
ATTTAACGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGAATTTAGCG
Found at i:65799199 original size:21 final size:21
Alignment explanation
Indices: 65799155--65799205 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
65799145 CTACAACTTA
* *
65799155 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* *
65799176 AAGCAGAGGCTGCAATGAGAG
1 AAGCAGAGGCGGCAACGAGAG
*
65799197 AAGTAGAGG
1 AAGCAGAGG
65799206 TTCAAAAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.45, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:65799276 original size:87 final size:87
Alignment explanation
Indices: 65799115--65799276 Score: 261
Period size: 87 Copynumber: 1.9 Consensus size: 87
65799105 GACCACCGTT
* * *
65799115 GAGGTTCAAAGGAAATATGAAGAACTCTAGCTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
**
65799180 AGAGGCTGCAATGAGAGAAGTA
66 AGACACTGCAATGAGAGAAGTA
* *
65799202 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCATCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
65799267 AGACACTGCA
66 AGACACTGCA
65799277 GCGAGGGAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.14
Consensus pattern (87 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
AGACACTGCAATGAGAGAAGTA
Found at i:65799308 original size:87 final size:86
Alignment explanation
Indices: 65799127--65799317 Score: 224
Period size: 87 Copynumber: 2.2 Consensus size: 86
65799117 GGTTCAAAGG
* * ** *
65799127 AAATATGAAGAACTCTAGCTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGCAGAGGCTGCAAT
1 AAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGCAGACACTGCAAC
* *
65799192 GAGAGAAGTAGAGGTTCAAAAG
66 GAGAGAAGCAGAGG-TCAAAAA
* * *
65799214 AAATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCATCGAGAGAAGCAGACACTGCAGC
1 AAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGCAGACACTGCAAC
*
65799279 GAGGGAAGCAGA-G-CAGAGAAA
66 GAGAGAAGCAGAGGTCA-A-AAA
*
65799300 AAAGTATGACGAACTCCA
1 AAA-TATGAAGAACTCCA
65799318 ACAGCAGCTT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
84 2 0.02
85 1 0.01
86 6 0.07
87 80 0.90
ACGTcount: A:0.41, C:0.18, G:0.28, T:0.13
Consensus pattern (86 bp):
AAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGCAGACACTGCAAC
GAGAGAAGCAGAGGTCAAAAA
Found at i:65799725 original size:13 final size:13
Alignment explanation
Indices: 65799707--65799732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65799697 GAAGAAGCCC
65799707 CGCTAAAGAACAT
1 CGCTAAAGAACAT
65799720 CGCTAAAGAACAT
1 CGCTAAAGAACAT
65799733 GATCTTTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
CGCTAAAGAACAT
Found at i:65799750 original size:56 final size:57
Alignment explanation
Indices: 65799663--65799775 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 57
65799653 GTAAAAACGC
* *
65799663 CGCTAAAAGAACATGACCTTTAGTGGCGTTTGCGGAAGAAGCCCCGCTAAAGAACAT
1 CGCTAAAAGAACATGACCTTTAGCGGCGTTTGCGGAAAAAGCCCCGCTAAAGAACAT
* * *
65799720 CGCT-AAAGAACATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACAT
1 CGCTAAAAGAACATGACCTTTAGCGGCGTTTGCGGAAAAAGCCCCGCTAAAGAACAT
65799776 GATCTTTAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 47 0.92
57 4 0.08
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (57 bp):
CGCTAAAAGAACATGACCTTTAGCGGCGTTTGCGGAAAAAGCCCCGCTAAAGAACAT
Found at i:65799781 original size:43 final size:43
Alignment explanation
Indices: 65799720--65799812 Score: 159
Period size: 43 Copynumber: 2.2 Consensus size: 43
65799710 TAAAGAACAT
* *
65799720 CGCTAAAGAACATGATCTTTAGCGGCGTTTGTGGAAAAAGCGC
1 CGCTAAAGAACATGATCTTTAGCGGCATTTGTGGAAAAAACGC
*
65799763 CGCTAAAGAACATGATCTTTAGCGGCATTTGTTGAAAAAACGC
1 CGCTAAAGAACATGATCTTTAGCGGCATTTGTGGAAAAAACGC
65799806 CGCTAAA
1 CGCTAAA
65799813 AACCTGTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (43 bp):
CGCTAAAGAACATGATCTTTAGCGGCATTTGTGGAAAAAACGC
Found at i:65800035 original size:53 final size:53
Alignment explanation
Indices: 65799972--65800823 Score: 1704
Period size: 53 Copynumber: 16.1 Consensus size: 53
65799962 TTCATGAAAT
65799972 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800025 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800078 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800131 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800184 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800237 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800290 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800343 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800396 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800449 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800502 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800555 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800608 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800661 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800714 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800767 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
1 TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
65800820 TCTT
1 TCTT
65800824 ACATTTAATA
Statistics
Matches: 799, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 799 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (53 bp):
TCTTCATCGAATTCTAAAGCTTTGTATTCTCATATTTGTTATAGAAAACTAAA
Found at i:65806892 original size:60 final size:60
Alignment explanation
Indices: 65806795--65806914 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
65806785 TATTTTAGAA
*
65806795 TCTTAACACTATTTGAAATGTAAGATTATCATTTCAAGATAATTTTTGTAAACCAAATGT
1 TCTTAACACTATTTGAAATGTAAGATTATCATCTCAAGATAATTTTTGTAAACCAAATGT
* * * *
65806855 TCTTAACATTGTTTGAAATGTAATATTATCATCTCAAGATAATTTTTGTGAACCAAATGT
1 TCTTAACACTATTTGAAATGTAAGATTATCATCTCAAGATAATTTTTGTAAACCAAATGT
65806915 GAGAATTTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.41
Consensus pattern (60 bp):
TCTTAACACTATTTGAAATGTAAGATTATCATCTCAAGATAATTTTTGTAAACCAAATGT
Found at i:65806934 original size:60 final size:60
Alignment explanation
Indices: 65806799--65806942 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 60
65806789 TTAGAATCTT
* * * * **
65806799 AACACTATTTGAAATGTAAGATTATCATTTCAAGATAATTTTTGTAAACCAAATGTTCTT
1 AACATTATTTAAAATGTAAAATTATCATCTCAAGATAATTTTTGTAAACCAAATGTTCAG
* * * * *
65806859 AACATTGTTTGAAATGTAATATTATCATCTCAAGATAATTTTTGTGAACCAAATG-TGAG
1 AACATTATTTAAAATGTAAAATTATCATCTCAAGATAATTTTTGTAAACCAAATGTTCAG
**
65806918 AATTTTATTTCAAAATGTAAAATTA
1 AACATTATTT-AAAATGTAAAATTA
65806943 CTCTTGAGAA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
59 8 0.11
60 62 0.89
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (60 bp):
AACATTATTTAAAATGTAAAATTATCATCTCAAGATAATTTTTGTAAACCAAATGTTCAG
Found at i:65813215 original size:13 final size:13
Alignment explanation
Indices: 65813197--65813223 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65813187 TTTACAGCAA
65813197 TTATGAATTTATT
1 TTATGAATTTATT
65813210 TTATGAATTTATT
1 TTATGAATTTATT
65813223 T
1 T
65813224 AATGTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:65813548 original size:50 final size:50
Alignment explanation
Indices: 65813464--65813622 Score: 162
Period size: 50 Copynumber: 3.2 Consensus size: 50
65813454 AAAAGCATAA
* * * *
65813464 ATGG-ATTGGCTCCGAGATGAGAGGCT-CCATGTAAGACCATGTCTGGGAC
1 ATGGCATTGGCACCAAGATGAGA-GCTCCCACGTAAGACCATGTCTGGGAT
* * * * *
65813513 ATGGCGTTGGCACCGAGATTAGAGGTCCCCCGTAAGACCATGTCTAGGG-T
1 ATGGCATTGGCACCAAGATGAGAGCTCCCACGTAAGACCATGTCT-GGGAT
* * * *
65813563 ATGGCATGGGCACCAATATGAGAGCTCCCATGTAAGACCATATCTGGGAT
1 ATGGCATTGGCACCAAGATGAGAGCTCCCACGTAAGACCATGTCTGGGAT
65813613 ATGGCATTGG
1 ATGGCATTGG
65813623 TAGTACAGGA
Statistics
Matches: 89, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
49 9 0.10
50 77 0.87
51 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (50 bp):
ATGGCATTGGCACCAAGATGAGAGCTCCCACGTAAGACCATGTCTGGGAT
Found at i:65825057 original size:41 final size:41
Alignment explanation
Indices: 65824950--65825100 Score: 178
Period size: 41 Copynumber: 3.6 Consensus size: 41
65824940 CGAAGATTAA
* ** * * *
65824950 TTTTGA-TTTTTCAACATCAACATGACGAGATGGAAATTAA
1 TTTTGATTTTTTCAACATCAACATGGCGAGGGGGAGATCAG
65824990 TTTTGATTTATTTTTCAACATCAACATGGCGAGGGGGAGATCAG
1 TTTTGA--T-TTTTTCAACATCAACATGGCGAGGGGGAGATCAG
* *
65825034 TTTTGATTTTTTCAACATTAACATAGCGAGGGGGAGATCAG
1 TTTTGATTTTTTCAACATCAACATGGCGAGGGGGAGATCAG
* *
65825075 TTTTGTTTTTTTCAACACCAACATGG
1 TTTTGATTTTTTCAACATCAACATGG
65825101 TGAGACAGAG
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
40 6 0.06
41 54 0.57
42 1 0.01
44 34 0.36
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (41 bp):
TTTTGATTTTTTCAACATCAACATGGCGAGGGGGAGATCAG
Found at i:65826557 original size:22 final size:22
Alignment explanation
Indices: 65826530--65826583 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
65826520 TTCTAGGCCA
* *
65826530 TTTTGGG-CACCTTTCAAACATT
1 TTTTGGGTC-CCTTCCAAAAATT
65826552 TTTTGGGTCCCTTCCAAAAATT
1 TTTTGGGTCCCTTCCAAAAATT
65826574 TTTTGGGTCC
1 TTTTGGGTCC
65826584 AAGCCATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.43
Consensus pattern (22 bp):
TTTTGGGTCCCTTCCAAAAATT
Found at i:65829072 original size:17 final size:17
Alignment explanation
Indices: 65829050--65829091 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
65829040 ACAAAAACTA
65829050 AATTTAATTTCCAATTT
1 AATTTAATTTCCAATTT
65829067 AATTTAATTTCCAATTT
1 AATTTAATTTCCAATTT
65829084 -ATTTAATT
1 AATTTAATT
65829092 AATTATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTAATTTCCAATTT
Found at i:65837641 original size:4 final size:4
Alignment explanation
Indices: 65837632--65837674 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
65837622 ATATTTGCTT
* *
65837632 ATAA ATAA ATAA ATAA ATAA ATAAA ATTA ATAA ATTA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA AT
65837675 GCTCAAGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 30 0.88
5 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (4 bp):
ATAA
Found at i:65837663 original size:21 final size:21
Alignment explanation
Indices: 65837634--65837674 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65837624 ATTTGCTTAT
65837634 AAATAAATAAATAAATAAATA
1 AAATAAATAAATAAATAAATA
* *
65837655 AAATTAATAAATTAATAAAT
1 AAATAAATAAATAAATAAAT
65837675 GCTCAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATAAATAAATAAATAAATA
Found at i:65840349 original size:9 final size:10
Alignment explanation
Indices: 65840333--65840357 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
65840323 TTTTTAAAAT
65840333 ATTTTTTTTA
1 ATTTTTTTTA
65840343 ATTTTTTTTA
1 ATTTTTTTTA
65840353 ATTTT
1 ATTTT
65840358 AAGATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
ATTTTTTTTA
Found at i:65840365 original size:41 final size:41
Alignment explanation
Indices: 65840289--65840505 Score: 215
Period size: 41 Copynumber: 5.0 Consensus size: 41
65840279 CGAATATAAT
* *
65840289 AAATATTTATTTTAA-TTTTTTTAATTTTAAAATATTTTTA
1 AAATATTTTTTTTAATTTTTTTTAATTTTAAAATATTTTAA
*
65840329 AAATATTTTTTTTAATTTTTTTTAATTTTAAGATATTTTAA
1 AAATATTTTTTTTAATTTTTTTTAATTTTAAAATATTTTAA
** *
65840370 AAATATTTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATATTTTTA
1 AAATA-TTTT----T--TTTAATT--TTTTTTAATTTTAAAATATTTTAA
*
65840420 AAATATTTTTTTTAATTTTTTTTAATTTTAAGATATTTTAA
1 AAATATTTTTTTTAATTTTTTTTAATTTTAAAATATTTTAA
**
65840461 AAATA-TTTTTAAAATACTTTTTTTAATTTTTTAAAAT-TTTTAA
1 AAATATTTTTTTTAAT--TTTTTTTAA--TTTTAAAATATTTTAA
65840504 AA
1 AA
65840506 TAAAAATGGG
Statistics
Matches: 149, Mismatches: 14, Indels: 25
0.79 0.07 0.13
Matches are distributed among these distances:
40 22 0.15
41 55 0.37
42 13 0.09
43 13 0.09
44 8 0.05
45 1 0.01
46 1 0.01
48 5 0.03
49 4 0.03
50 27 0.18
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (41 bp):
AAATATTTTTTTTAATTTTTTTTAATTTTAAAATATTTTAA
Found at i:65840378 original size:52 final size:51
Alignment explanation
Indices: 65840312--65840492 Score: 242
Period size: 52 Copynumber: 3.7 Consensus size: 51
65840302 AATTTTTTTA
*
65840312 ATTTTAAAATATTTTTAAAATATTTTTTTTAATTTTTTTTAATTTTAAGAT
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTTAATTTTAAGAT
65840363 ATTTTAAAAATATTTTTAAAATACTTTTTTTAA------TT--TTTT---A-
1 ATTTT-AAAATATTTTTAAAATACTTTTTTTAATTTTTTTTAATTTTAAGAT
*
65840403 ATTTTAAAATATTTTTAAAATATTTTTTTTAATTTTTTTTAATTTTAAGAT
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTTAATTTTAAGAT
65840454 ATTTTAAAAATATTTTTAAAATACTTTTTTTAATTTTTT
1 ATTTT-AAAATATTTTTAAAATACTTTTTTTAATTTTTT
65840493 AAAATTTTTA
Statistics
Matches: 113, Mismatches: 3, Indels: 27
0.79 0.02 0.19
Matches are distributed among these distances:
39 26 0.23
40 5 0.04
41 1 0.01
44 4 0.04
45 2 0.02
46 2 0.02
47 4 0.04
50 1 0.01
51 10 0.09
52 58 0.51
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (51 bp):
ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTTAATTTTAAGAT
Done.