Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 37
Found at i:4577301 original size:381 final size:380
Alignment explanation
Indices: 4576598--4577361 Score: 1449
Period size: 381 Copynumber: 2.0 Consensus size: 380
4576588 GGTCTTATGA
*
4576598 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
1 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
4576663 AGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
66 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
4576728 TCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
131 TCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
*
4576793 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGACAACATCAAAAAGC
196 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
4576858 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
261 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
4576923 CATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGAAGGACTTACAG
326 CATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAG
*
4576979 ATGACCC-GAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 ATGACCCTG-AGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
4577043 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
65 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
*
4577108 ATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGC
130 ATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
*
4577173 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAG
195 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAG
4577238 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAA
260 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAA
4577303 ACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
325 ACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
4577359 ATG
1 ATG
4577362 TGAGAAATAG
Statistics
Matches: 376, Mismatches: 6, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
380 38 0.10
381 338 0.90
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (380 bp):
ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
TCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
Found at i:4580763 original size:93 final size:93
Alignment explanation
Indices: 4580649--4580979 Score: 592
Period size: 93 Copynumber: 3.6 Consensus size: 93
4580639 GACTTTAGAG
4580649 TTCATACCAAACCATATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAGCACATCCATC
1 TTCATACCAAACCATATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAGCACATCCATC
4580714 TTCCAAATTCAATGATTGATTCTGTGGT
66 TTCCAAATTCAATGATTGATTCTGTGGT
4580742 TTCATACCAAACCATATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAGCACATCCATC
1 TTCATACCAAACCATATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAGCACATCCATC
4580807 TTCCAAATTCAATGATTGATTCTGTGGT
66 TTCCAAATTCAATGATTGATTCTGTGGT
* * **
4580835 TTCATACCAAACCATATCAGATAATTCAAAGAACACTTCCAGAAGATTCTATGAGCATATTTATC
1 TTCATACCAAACCATATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAGCACATCCATC
*
4580900 TTCCAAATTCAATGATTGGTTCTGTGG-
66 TTCCAAATTCAATGATTGATTCTGTGGT
* *
4580927 TTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCATACCAAACCATATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATG
4580980 GGTCTCCTTA
Statistics
Matches: 230, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
92 50 0.22
93 180 0.78
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (93 bp):
TTCATACCAAACCATATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAGCACATCCATC
TTCCAAATTCAATGATTGATTCTGTGGT
Found at i:4580770 original size:45 final size:45
Alignment explanation
Indices: 4580719--4580863 Score: 107
Period size: 45 Copynumber: 3.2 Consensus size: 45
4580709 CCATCTTCCA
4580719 AATTCAATGATTGATTCTGTGGTTTCATACCAAACCATATCAGAT
1 AATTCAATGATTGATTCTGTGGTTTCATACCAAACCATATCAGAT
* ** * ** * * * * * *
4580764 AATTCAAAGA-ACACTTCCAGAAGATGCTATGAGCACATCCATCTTC-CA-
1 AATTCAATGATTGA-TT-CTGTGGTTTC-AT-ACCA-AACCAT-ATCAGAT
4580812 AATTCAATGATTGATTCTGTGGTTTCATACCAAACCATATCAGAT
1 AATTCAATGATTGATTCTGTGGTTTCATACCAAACCATATCAGAT
4580857 AATTCAA
1 AATTCAA
4580864 AGAACACTTC
Statistics
Matches: 67, Mismatches: 24, Indels: 18
0.61 0.22 0.17
Matches are distributed among these distances:
43 2 0.03
44 7 0.10
45 21 0.31
46 7 0.10
47 7 0.10
48 14 0.21
49 7 0.10
50 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (45 bp):
AATTCAATGATTGATTCTGTGGTTTCATACCAAACCATATCAGAT
Found at i:4583084 original size:20 final size:20
Alignment explanation
Indices: 4583056--4583093 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4583046 GATTCAATTT
4583056 TTTTCTTTT-TTCTTTTTTTG
1 TTTTCTTTTGTT-TTTTTTTG
*
4583076 TTTTGTTTTGTTTTTTTT
1 TTTTCTTTTGTTTTTTTT
4583094 CCTTCTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (20 bp):
TTTTCTTTTGTTTTTTTTTG
Found at i:4583406 original size:2 final size:2
Alignment explanation
Indices: 4583399--4583424 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4583389 ATAACAAAGG
4583399 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4583425 TAAAGGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4589174 original size:13 final size:13
Alignment explanation
Indices: 4589156--4589184 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4589146 CCACCGTACT
4589156 CCGCCGCCGACCA
1 CCGCCGCCGACCA
4589169 CCGCCGCCGACCA
1 CCGCCGCCGACCA
4589182 CCG
1 CCG
4589185 TAACGGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.62, G:0.24, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGACCA
Found at i:4590001 original size:3 final size:3
Alignment explanation
Indices: 4589988--4590065 Score: 104
Period size: 3 Copynumber: 26.0 Consensus size: 3
4589978 GTAATATTTA
* * *
4589988 AAT AAT AAAT AAT ATT ACT ATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
4590034 AAT AAT AAT AAT AAT AAT -TT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4590066 TTAAAATGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 1 0.01
3 63 0.94
4 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:4602676 original size:2 final size:2
Alignment explanation
Indices: 4602669--4602693 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4602659 TTGACGAAAG
4602669 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4602694 TATGAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4603485 original size:27 final size:28
Alignment explanation
Indices: 4603450--4603503 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
4603440 TATGTGACAT
4603450 TTAAAAATA-TTATTTT-AGTAAATAATC
1 TTAAAAATAGTTATTTTCA-TAAATAATC
*
4603477 TTAAGAATATGTTATTTTCATAAATAA
1 TTAAAAATA-GTTATTTTCATAAATAA
4603504 ATTTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 8 0.35
29 14 0.61
30 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (28 bp):
TTAAAAATAGTTATTTTCATAAATAATC
Found at i:4609255 original size:38 final size:38
Alignment explanation
Indices: 4609205--4609284 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
4609195 ATATGTTTGA
*
4609205 GAGTGTTCGAAGCACAATTGGACATGGGTGATTAGCTT
1 GAGTGTTCGAAGCACAATTGGACATGGGTGACTAGCTT
* *
4609243 GAGTGTTGGAAGCATAATTGGACATGGGTGACTAGCTT
1 GAGTGTTCGAAGCACAATTGGACATGGGTGACTAGCTT
4609281 GAGT
1 GAGT
4609285 TAGGATTAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.11, G:0.34, T:0.29
Consensus pattern (38 bp):
GAGTGTTCGAAGCACAATTGGACATGGGTGACTAGCTT
Found at i:4609316 original size:54 final size:54
Alignment explanation
Indices: 4609234--4609370 Score: 229
Period size: 54 Copynumber: 2.5 Consensus size: 54
4609224 GGACATGGGT
*
4609234 GATTAGCTTGAGTGTTGGAAGCATAATTGGACATGGGTGACTAGCTTGAGTTAG
1 GATTAGCTTGAGTGTTAGAAGCATAATTGGACATGGGTGACTAGCTTGAGTTAG
* *
4609288 GATTAGCTCGAGTGTTAGAAGCATAATTGGACATGGGTGATTAGCTTGAGTTAG
1 GATTAGCTTGAGTGTTAGAAGCATAATTGGACATGGGTGACTAGCTTGAGTTAG
* *
4609342 GGTTAGCTTGAGTGTTCGAAGCATAATTG
1 GATTAGCTTGAGTGTTAGAAGCATAATTG
4609371 TGAGAAGTTA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.32
Consensus pattern (54 bp):
GATTAGCTTGAGTGTTAGAAGCATAATTGGACATGGGTGACTAGCTTGAGTTAG
Found at i:4615355 original size:30 final size:29
Alignment explanation
Indices: 4615319--4615430 Score: 118
Period size: 30 Copynumber: 3.8 Consensus size: 29
4615309 TAACATTAAA
* *
4615319 AAATATATTTTATTTTTATCTTAACTTGTT
1 AAATATATTATATTCTTATCTTAA-TTGTT
* * *
4615349 ACATATATTATATTCTTAACTTAAATGATT
1 AAATATATTATATTCTTATCTTAATTG-TT
* *
4615379 AAATATATTATATTCTTACCTTAAATTATT
1 AAATATATTATATTCTTATCTT-AATTGTT
4615409 AAATATTATT-TATTCTTATCTT
1 AAATA-TATTATATTCTTATCTT
4615431 GAAAATATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
29 2 0.03
30 60 0.87
31 7 0.10
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.54
Consensus pattern (29 bp):
AAATATATTATATTCTTATCTTAATTGTT
Found at i:4615442 original size:28 final size:27
Alignment explanation
Indices: 4615411--4615480 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 27
4615401 AAATTATTAA
*
4615411 ATATTATTTATTCTTATCTTGAAAATAT
1 ATATTATTTATT-TTATCTTGAAAAAAT
* *
4615439 ATA-T-TTTATTTTAACTTTAAAAAAT
1 ATATTATTTATTTTATCTTGAAAAAAT
4615464 ATATTATTATATTTTAT
1 ATATTATT-TATTTTAT
4615481 TCTTATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 15 0.43
26 7 0.20
27 3 0.09
28 10 0.29
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (27 bp):
ATATTATTTATTTTATCTTGAAAAAAT
Found at i:4618638 original size:2 final size:2
Alignment explanation
Indices: 4618631--4618669 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
4618621 CTAATTTTCC
4618631 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4618670 AGAAAAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4624631 original size:14 final size:14
Alignment explanation
Indices: 4624586--4624633 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
4624576 AATTTATTTT
4624586 AAAT-ACATTAATA
1 AAATAACATTAATA
* *
4624599 AATATAACATTATTT
1 AA-ATAACATTAATA
*
4624614 AAATAATATTAATA
1 AAATAACATTAATA
4624628 AAATAA
1 AAATAA
4624634 AATTCAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 2 0.07
14 17 0.61
15 9 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATAACATTAATA
Found at i:4624644 original size:29 final size:28
Alignment explanation
Indices: 4624584--4624644 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
4624574 TTAATTTATT
* *
4624584 TTAAATACATTAATAAATATAACATTAT
1 TTAAATACATTAATAAATATAAAATTAA
*
4624612 TTAAATAATATTAATAAA-ATAAAATTCAA
1 TTAAAT-ACATTAATAAATATAAAATT-AA
4624641 TTAA
1 TTAA
4624645 TCAATTGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (28 bp):
TTAAATACATTAATAAATATAAAATTAA
Found at i:4624844 original size:23 final size:23
Alignment explanation
Indices: 4624810--4624868 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
4624800 ATTTTATTAG
*
4624810 TTTAGGGTTTTATGATTA-GGTT
1 TTTAGGGTTTTAAGATTATGGTT
*
4624832 TTTAGGAGTTTTAAGGTTATGGTT
1 TTTAGG-GTTTTAAGATTATGGTT
4624856 TTTATGGGTTTTA
1 TTTA-GGGTTTTA
4624869 GTTGTTGACG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 6 0.19
23 10 0.31
24 14 0.44
25 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (23 bp):
TTTAGGGTTTTAAGATTATGGTT
Found at i:4626370 original size:31 final size:31
Alignment explanation
Indices: 4626343--4626413 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
4626333 TATTATTAAA
4626343 ACTTTAGTGTTAAAAATTAAAATTTATTCAT
1 ACTTTAGTGTTAAAAATTAAAATTTATTCAT
4626374 ACTTTAGTGTTAAAAATTAAAATTTATTCAT
1 ACTTTAGTGTTAAAAATTAAAATTTATTCAT
4626405 ACTTTAGTG
1 ACTTTAGTG
4626414 ACCATTTAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (31 bp):
ACTTTAGTGTTAAAAATTAAAATTTATTCAT
Found at i:4632783 original size:10 final size:10
Alignment explanation
Indices: 4632768--4632815 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
4632758 CATTTAAATG
4632768 ATAAACGAAC
1 ATAAACGAAC
4632778 ATAAACGAAC
1 ATAAACGAAC
*
4632788 ACAAACAAATGAAC
1 ATAAAC----GAAC
4632802 ATAAACGAAC
1 ATAAACGAAC
4632812 ATAA
1 ATAA
4632816 TAAATGTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
10 23 0.72
14 9 0.28
ACGTcount: A:0.62, C:0.19, G:0.08, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:4632826 original size:23 final size:23
Alignment explanation
Indices: 4632768--4632848 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
4632758 CATTTAAATG
*
4632768 ATAAACGAACATAAACGAACACAA
1 ATAAATGAACATAAACGAACA-AA
* *
4632792 ACAAATGAACATAAACGAACATA
1 ATAAATGAACATAAACGAACAAA
* *
4632815 ATAAATGTACATAAACGAACACA
1 ATAAATGAACATAAACGAACAAA
*
4632838 ATAAACGAACA
1 ATAAATGAACA
4632849 ACACTAACAC
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 30 0.61
24 19 0.39
ACGTcount: A:0.60, C:0.19, G:0.09, T:0.12
Consensus pattern (23 bp):
ATAAATGAACATAAACGAACAAA
Found at i:4635071 original size:16 final size:16
Alignment explanation
Indices: 4635050--4635094 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
4635040 GGGTCTCTAA
4635050 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
4635066 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
4635082 CGTTTATGTTCGT
1 CGTTTATGTTCGT
4635095 TTATTTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.07, C:0.13, G:0.24, T:0.56
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:4642178 original size:22 final size:21
Alignment explanation
Indices: 4642149--4642190 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4642139 TGATTAAATG
4642149 ATATTATTTTAGT-ATTTTTAT
1 ATATTATTTT-GTGATTTTTAT
4642170 ATATATATTTTGTGATTTTTA
1 ATAT-TATTTTGTGATTTTTA
4642191 GGTAGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
ATATTATTTTGTGATTTTTAT
Found at i:4648833 original size:200 final size:199
Alignment explanation
Indices: 4648357--4648951 Score: 643
Period size: 194 Copynumber: 3.0 Consensus size: 199
4648347 TTGCTATAGC
* * * *
4648357 TTCTTCATAAGCTTTTCCTTCTATTACGAATATATCTTACTTCTTGCAAGTTGATTAATATTCAA
1 TTCTTCATGAG-TTTTCCTTCTATTACTAATATATATTACTTCTTGCAAGTTGATTAAAATTCAA
* * *
4648422 ATAATTTTTACAA-TTTGAGGTTAC-ATTATTTTGTATGATACCAATAGATTTTATCTGGAAAAA
65 ATAATTTTTACAACTTT-AGATTACAATTATTTTGTATGATACCAATATATTTTATCT--ACAAA
*
4648485 AAAAGTATTATGGGCTCCTAAAATTGAGAATATTTTTTTTGA----T---GCAGTTTGCTATAAC
127 AAAAGTATTATGGGCTCCTAAAATTGAGAAT-TTTTTTTTAATTTTTAAAGCAGTTTGCTATAAC
*
4648543 TAGTCTCTT
191 TTGTCTCTT
* * * * *
4648552 TT-TTCATTGGGTTTTCCTTCTTTTACTAATATACATTACATCTTGTAAGTTGATTAAAATTCAA
1 TTCTTCA-TGAGTTTTCCTTCTATTACTAATATATATTACTTCTTGCAAGTTGATTAAAATTCAA
*
4648616 ATAATTTTTACAACTTTAGATTACAATTATTTTGTATGATACCAATATATTTTATCTACAAAAAC
65 ATAATTTTTACAACTTTAGATTACAATTATTTTGTATGATACCAATATATTTTATCTACAAAAAA
* *
4648681 AGTATTATGGGCTCTTAAATTTGAGAATTTTTTTTTAATTTTTAAAGCAGTTTGCTATAACTTGT
130 AGTATTATGGGCTCCTAAAATTGAGAATTTTTTTTTAATTTTTAAAGCAGTTTGCTATAACTTGT
4648746 CTCTT
195 CTCTT
* * *
4648751 TTCTTCATGAGTTTTACCTTCTATTACTAATATATGTTACTTCTTGCAAATGGATTAAAATTCAA
1 TTCTTCATGAGTTTT-CCTTCTATTACTAATATATATTACTTCTTGCAAGTTGATTAAAATTCAA
** * * * * * * * *
4648816 ATAAAGTTTATAACTTT--A-T--AGTTATTATGAATAAT-CCAATATGTTTTATCTGCAAAAAG
65 ATAATTTTTACAACTTTAGATTACAATTATTTTGTATGATACCAATATATTTTATCTACAAAAAA
* * * * *
4648875 AGTATTATGGGCTCCTAAAATTGAGAGTGTTGTTTTTTTTATTTTGAAA-AAGTTTGC--TAATT
130 AGTATTATGGGCTCCTAAAATTGAGA--ATT-TTTTTTTAATTTTTAAAGCAGTTTGCTATAACT
*
4648937 TGACTCTT
192 TGTCTCTT
4648945 TTCTTCA
1 TTCTTCA
4648952 CGATTTTTTC
Statistics
Matches: 342, Mismatches: 43, Indels: 31
0.82 0.10 0.07
Matches are distributed among these distances:
192 9 0.03
193 32 0.09
194 132 0.39
195 50 0.15
196 10 0.03
197 16 0.05
198 1 0.00
199 32 0.09
200 60 0.18
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (199 bp):
TTCTTCATGAGTTTTCCTTCTATTACTAATATATATTACTTCTTGCAAGTTGATTAAAATTCAAA
TAATTTTTACAACTTTAGATTACAATTATTTTGTATGATACCAATATATTTTATCTACAAAAAAA
GTATTATGGGCTCCTAAAATTGAGAATTTTTTTTTAATTTTTAAAGCAGTTTGCTATAACTTGTC
TCTT
Found at i:4650756 original size:104 final size:103
Alignment explanation
Indices: 4650601--4650789 Score: 335
Period size: 104 Copynumber: 1.8 Consensus size: 103
4650591 TCAAAGAACT
*
4650601 TTTGTAACTTCAGATTGCATGTTTTTTATGATACTTATACATTTTCTCTCTAAAAAAATGAGTAA
1 TTTGTAACTTCAGATTGCATGCTTTTTATGATACTTATACATTTTCTCTCT-AAAAAATGAGTAA
4650666 CTATTTACATGATGACGTTACTCTTTATCGATCAAAAGG
65 CTATTTACATGATGACGTTACTCTTTATCGATCAAAAGG
*
4650705 TTTGTAACTTCA-ACTTGCATGCTTTTTATGATACTTATACATTTTCTCTCTAAAAAATGGGTAA
1 TTTGTAACTTCAGA-TTGCATGCTTTTTATGATACTTATACATTTTCTCTCTAAAAAATGAGTAA
4650769 CTATTTACATGATGACGTTAC
65 CTATTTACATGATGACGTTAC
4650790 AAAAGGTAAA
Statistics
Matches: 82, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
103 34 0.41
104 48 0.59
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (103 bp):
TTTGTAACTTCAGATTGCATGCTTTTTATGATACTTATACATTTTCTCTCTAAAAAATGAGTAAC
TATTTACATGATGACGTTACTCTTTATCGATCAAAAGG
Found at i:4654371 original size:372 final size:369
Alignment explanation
Indices: 4653498--4654239 Score: 1004
Period size: 376 Copynumber: 2.0 Consensus size: 369
4653488 AATGAGTGTT
* * * ** *
4653498 TTTTCTATTACTAAACCCTGACAAGTTGCTAAGAATCAAATAACTTTT-GTAACTTCAGCTTGTA
1 TTTTCTATTACGAAATCCTAACAAGTTGC-AAGAA-CAAATAACTTTTACAAAC-TCAGC-TGCA
* * * * * * *
4653562 TGGTTTTTATGATACTTATACACTTTTTCACTAAAAACATTGAGTAACTATTTACATGATGACAT
62 TGATTTCTATGATACTTGTA-ACTTTATCTCAAAAAACATTGAGTAACTATTTACATGATGACGT
*
4653627 TACTCTTTATCAATGAAAAGGTCAACTGTTTGATACCTCTGCATTTTATCCATAGAAACAATATG
126 TACTCTTTATCAATGAAAAGGTCAACTGTTTGATACCTCT-CA--TCATCCATAGAAACAATATG
* *
4653692 AGTAATTATTTACATGATGAGGGTTACTCTCTGTCGAGGTAAAATAAAATTATCTTGATACTTGG
188 AATAACTATTTACATGATGAGGGTTACTCTCTGTCGAGGTAAAATAAAATTATCTTGATACTTGG
* *
4653757 CTACACATTTTAGATATTGAATGTTTAGTTTTAAGAAAATGGTTTTTAGTATTAGGGACTCCTGA
253 CTACACATTTTAGATATTAAATGTTTAGTTTTAAGAAAATGGTTTTCAGTATTAGGGACTCCTGA
4653822 ATTTAAGAAGAATATTATTCTGAGTTTTGAAACATTTTGCTATGGAGCGTTA
318 ATTTAAGAAGAATATTATTCTGAGTTTTGAAACATTTTGCTATGGAGCGTTA
* ** *
4653874 TTTTCTATTACTAAATCCTAACAAGTTGCTAAGAATCAAATAACTTTTGTAACCTCAGCTTGCAT
1 TTTTCTATTACGAAATCCTAACAAGTTGC-AAGAA-CAAATAACTTTTACAAACTCAGC-TGCAT
* * * *
4653939 GGTTTCTATGATACTTGTACACTTTCTCTCTAAAAACATTGAGTAACTATTTACATGATGATGTT
63 GATTTCTATGATACTTGTA-ACTTTATCTCAAAAAACATTGAGTAACTATTTACATGATGACGTT
* * *
4654004 ACTCTTTATCGATGAAAATGTCAATTGTTTGATACCTCT-A-CATCCATAGAAACAATATGAATA
127 ACTCTTTATCAATGAAAAGGTCAACTGTTTGATACCTCTCATCATCCATAGAAACAATATGAATA
* *
4654067 ACTATTTACATGATGAGGGTTACTCTCTGTTGAGGTAAAATATAATTATCTTGATACATTGGCTA
192 ACTATTTACATGATGAGGGTTACTCTCTGTCGAGGTAAAATAAAATTATCTTGATAC-TTGGCTA
* * * *
4654132 TACATTTTAGATATTAAATGTTTAGTTTTTAGAAAATGGTTTTCGGTATTAGGGACTCTTGAATT
256 CACATTTTAGATATTAAATGTTTAGTTTTAAGAAAATGGTTTTCAGTATTAGGGACTCCTGAATT
* *
4654197 TAAGAAGAATATTTTTTTTGAGTTTTGAAACATTTTGCTATGG
321 TAAGAAGAATA-TTATTCTGAGTTTTGAAACATTTTGCTATGG
4654240 CTTGTTTTTG
Statistics
Matches: 335, Mismatches: 28, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
371 75 0.22
372 77 0.23
373 29 0.09
374 1 0.00
376 151 0.45
377 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.39
Consensus pattern (369 bp):
TTTTCTATTACGAAATCCTAACAAGTTGCAAGAACAAATAACTTTTACAAACTCAGCTGCATGAT
TTCTATGATACTTGTAACTTTATCTCAAAAAACATTGAGTAACTATTTACATGATGACGTTACTC
TTTATCAATGAAAAGGTCAACTGTTTGATACCTCTCATCATCCATAGAAACAATATGAATAACTA
TTTACATGATGAGGGTTACTCTCTGTCGAGGTAAAATAAAATTATCTTGATACTTGGCTACACAT
TTTAGATATTAAATGTTTAGTTTTAAGAAAATGGTTTTCAGTATTAGGGACTCCTGAATTTAAGA
AGAATATTATTCTGAGTTTTGAAACATTTTGCTATGGAGCGTTA
Found at i:4655812 original size:710 final size:701
Alignment explanation
Indices: 4654276--4656252 Score: 2289
Period size: 710 Copynumber: 2.8 Consensus size: 701
4654266 TGGTTGAAGT
* ** *
4654276 AAAAAAACTTTTACAAATTCAGTGCACATGATTTGCATGATATGCCTTGTGTTTTATCTGCAAAC
1 AAAAAAACTTTTACAAATTCAGTGCACATGATTTGTATGATATGATTTATGTTTTATCTGCAAAC
*
4654341 ATAATATGATGTGTAATTATTTATATGATGAGGGTT--AC--TCAAAGTTAAGGTAAATTATATA
66 ATAATATGATGTGTAATTATTTACATGATGAGGGTTACACTTTCAAAGTTAAGGTAAATTATATA
* * * *
4654402 TATAATGTTAC-TTTAT-TTTAGATATAGATT-TATGTCGAGCCTTTGGAATATGATTTTAATCA
131 TATAATG-TACTTTTATATTTAGATATAGATTCT-TGTTGAGTCTTTAGAATATGGTTTTAA-CA
** *
4654464 TTAGGGGCTCCTGAAATCGAGGAGTATATTATTATGACTTTTGAAGTATTTTGCTACATCTTGTC
193 TTAGGGGCTCCT-AAA--GTTGAGTATATTATTATGATTTTTGAAGTATTTTGCTACATCTTGTC
* * * * ** * * *
4654529 TCAATTCATCATAAGTTTTTCCTTCTATTATTAAATCTCCACAATTTGCTTAAACTCAAATAACA
255 TCCATTCATC-TTAGTTTTTTCTTCTATTACTAAATCTTGACAAGTTGCTTAAAATCAAATAACT
* * * *
4654594 TTTGTAACTTTAGCTTGCATACTTTCTATGATACCTAT--ATATTATCTCTAAAAATAATGAGTA
319 TTTGTAACTTCAGCTTGCATGCTTTCTATGATACCTATACATTTTCTCTCTAAAAATAATGAGTA
* *
4654657 ACTATTTACATGATGACATCACTCTTTATCGATGAAAAGGTAAATTGTATGATACCTATACATTT
384 ACTATTTACATGATGACATTACTCTTTATCGATGAAAAGGTAAACTGTATGATACCTATACATTT
* *
4654722 TAT-TCATAGAAGCAATATGAGT-ACTTATTTATATGAAGAGGGTTACTCTTTATCGAGGTAAAA
449 TATCT-ATAGAAGCAATATGAGTAAC-TATTTATATGATGAGGGTTACTCTCTATCGAGGTAAAA
* * * * *
4654785 TAAAATTATTTTGATACATTGGCTATCTATTTTAGATATAGAATGTTGAGTCTTTAGAAAATGGT
512 TAAAATTATTTTAATACCTTGGCTACCCATTTTAGATATAAAATGTTGAGTCTTTAGAAAATGGT
* * **** *
4654850 TTGGAGCTCCTGAATTTAAGTAGAATATTTTTCTGATTATTTTTTTACTTTGCTTTAGCTTGTCT
577 TTGGAGCTCCTGAATTTAAGAAGAAGATTTTTCTGATTATTTAAGCACTTTGCTATAGCTTGTCT
* * * *
4654915 TTGTGCTCGAGGACTTTTGCTTCCATTATTAATATTTATTATTTATTGTAAGTTAAAAACAAA
642 TTGTCCTCGAGGACTTTTGCTTCCATTACTAATA-TTATTAGTTACTGTAAGTT--AAACAAA
* * * *
4654978 AAAAAAACTTTTACAAATTCAATGTACATGATTTGTATGATATGATTTATGTTTTATTTGTAAAC
1 AAAAAAACTTTTACAAATTCAGTGCACATGATTTGTATGATATGATTTATGTTTTATCTGCAAAC
* * * * *
4655043 ATAATATG-CGATGTAATTATTTAGATGATGAGTGTTACGCCTTATCAAAGTTCAGGTAAATTAT
66 ATAATATGATG-TGTAATTATTTACATGATGAGGGTTAC-ACTT-TCAAAGTTAAGGTAAATTAT
* * * *
4655107 CTATATAATGCTGCTTTTTTATTTAGATATAAATTCTTGTTGAGTCTTTAGAATATGGTTTTCAA
128 ATATATAATG-TACTTTTATATTTAGATATAGATTCTTGTTGAGTCTTTAGAATATGGTTTT-AA
* *
4655172 CATTAGGGGCTCCTAAAGTTGAGTAGATTATTATGATTTTTGAAATA-TTTGCTACATCTTGTCT
191 CATTAGGGGCTCCTAAAGTTGAGTATATTATTATGATTTTTGAAGTATTTTGCTACATCTTGTCT
* * *
4655236 CCATTCATCTTGAGTTTTTTCTTCTATTACTATATCTTGGCAAGTTGCTTAAAATCAAAT-AGTT
256 CCATTCATCTT-AGTTTTTTCTTCTATTACTAAATCTTGACAAGTTGCTTAAAATCAAATAACTT
* *
4655300 TATGTAACTTCAGCTTGCATGCTTTCTATGATACTTATACATTTTCTCTCTAAAAATAATTAGTA
320 T-TGTAACTTCAGCTTGCATGCTTTCTATGATACCTATACATTTTCTCTCTAAAAATAATGAGTA
* * * * * * *
4655365 ACTATTTACTTGATGACGTTACTCTCTATTGATAAAAAGGTAAACTATATGATATCC-ATATATT
384 ACTATTTACATGATGACATTACTCTTTATCGATGAAAAGGTAAACTGTATGATA-CCTATACATT
* *
4655429 TTATCTATAGAAGCAATATGAGTAACTATTTATATGATTGAGGCTTACTCTCTATCTAGGTAAAA
448 TTATCTATAGAAGCAATATGAGTAACTATTTATATGA-TGAGGGTTACTCTCTATCGAGGTAAAA
* * *
4655494 TAAAATTATTTTAATACCTTGACTACCCATTGTAGATATAAAATGTTGAGTTTTTAGAAAATGAT
512 TAAAATTATTTTAATACCTTGGCTACCCATTTTAGATATAAAATGTTGAGTCTTTAGAAAATG--
4655559 TTTTAGTATTAGG-GTCTCCTGAATTTAAGAAGAAGATTTTTCTGATT-TTTGAAGCACTTTGCT
575 -----GT-TT-GGAG-CTCCTGAATTTAAGAAGAAGATTTTTCTGATTATTT-AAGCACTTTGCT
* *
4655622 ATAGCTTGTCTTTGTCCTTGAGGACTTTTGCTTCTATTACTAATA-T-TT-GTTACTGTAAGTT-
631 ATAGCTTGTCTTTGTCCTCGAGGACTTTTGCTTCCATTACTAATATTATTAGTTACTGTAAGTTA
4655683 AA-AAA
696 AACAAA
* * ** * *
4655688 TAAAAAACTTTTATAAATTTTGGGCACATGATTTGTATGATATGATTTATGTTTTATCTGCAAAT
1 AAAAAAACTTTTACAAATTCAGTGCACATGATTTGTATGATATGATTTATGTTTTATCTGCAAAC
4655753 ATAATATGATGTGTAATTATTTACATG-TCGAGGGTTACACTTTTTCAAAGTTAAGGTAAATTAT
66 ATAATATGATGTGTAATTATTTACATGAT-GAGGGTTACAC--TTTCAAAGTTAAGGTAAATTAT
* * * *
4655817 TTATATAATGTTA-TTTTATATTTTAGATATAGATTCATGTCT-ACTCTTTAGAATATGGTTCTG
128 ATATATAATG-TACTTTTATA-TTTAGATATAGATTCTTGT-TGAGTCTTTAGAATATGGTT-TT
* * * *
4655880 AACTTTAGGGGATCTTAAAGTTGAGAAGTATATTATTTTGATTTTTGAAGTATTTTGCTACATCT
189 AACATTAGGGGCTCCTAAAGTT--G-AGTATATTATTATGATTTTTGAAGTATTTTGCTACATCT
* * *
4655945 TGTCTCCATTCATCTCTATTCATCATAAGGTTTTTTTTATTACTAAATCTTGACAAGTTGCTTAA
251 TGTCTCCATTCATCT-TAGT--T--T----TTTCTTCTATTACTAAATCTTGACAAGTTGCTTAA
*
4656010 AATCAAATAACTTTTGTAACTTCAGTTTGCATG-TTTCTATGATACCTATACATTTTCTCTCTAA
307 AATCAAATAACTTTTGTAACTTCAGCTTGCATGCTTTCTATGATACCTATACATTTTCTCTCTAA
* * * * * *
4656074 AAACAATGAGTAACTATTTACATGATGATATTACTCTTTATCGATGAAAAGATACACTGCATAAT
372 AAATAATGAGTAACTATTTACATGATGACATTACTCTTTATCGATGAAAAGGTAAACTGTATGAT
** * * * * *
4656139 ACCTATACATTTTATCCCTAAAAACAATATGAGTAATTATTTAGATGATGAGGGTTATTCTCTAT
437 ACCTATACATTTTATCTATAGAAGCAATATGAGTAACTATTTATATGATGAGGGTTACTCTCTAT
* *
4656204 CGAGGTAATATAAAATTATCTTGAA-ACCTTGGCTACCCATTTTAGATAT
502 CGAGGTAAAATAAAATTAT-TTTAATACCTTGGCTACCCATTTTAGATAT
4656253 TCATGAATTT
Statistics
Matches: 1079, Mismatches: 143, Indels: 88
0.82 0.11 0.07
Matches are distributed among these distances:
701 1 0.00
702 88 0.08
705 5 0.00
706 98 0.09
707 25 0.02
708 136 0.13
709 98 0.09
710 219 0.20
711 10 0.01
712 1 0.00
713 23 0.02
714 40 0.04
715 3 0.00
716 4 0.00
717 6 0.01
718 81 0.08
720 56 0.05
721 124 0.11
722 57 0.05
723 4 0.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (701 bp):
AAAAAAACTTTTACAAATTCAGTGCACATGATTTGTATGATATGATTTATGTTTTATCTGCAAAC
ATAATATGATGTGTAATTATTTACATGATGAGGGTTACACTTTCAAAGTTAAGGTAAATTATATA
TATAATGTACTTTTATATTTAGATATAGATTCTTGTTGAGTCTTTAGAATATGGTTTTAACATTA
GGGGCTCCTAAAGTTGAGTATATTATTATGATTTTTGAAGTATTTTGCTACATCTTGTCTCCATT
CATCTTAGTTTTTTCTTCTATTACTAAATCTTGACAAGTTGCTTAAAATCAAATAACTTTTGTAA
CTTCAGCTTGCATGCTTTCTATGATACCTATACATTTTCTCTCTAAAAATAATGAGTAACTATTT
ACATGATGACATTACTCTTTATCGATGAAAAGGTAAACTGTATGATACCTATACATTTTATCTAT
AGAAGCAATATGAGTAACTATTTATATGATGAGGGTTACTCTCTATCGAGGTAAAATAAAATTAT
TTTAATACCTTGGCTACCCATTTTAGATATAAAATGTTGAGTCTTTAGAAAATGGTTTGGAGCTC
CTGAATTTAAGAAGAAGATTTTTCTGATTATTTAAGCACTTTGCTATAGCTTGTCTTTGTCCTCG
AGGACTTTTGCTTCCATTACTAATATTATTAGTTACTGTAAGTTAAACAAA
Found at i:4666379 original size:20 final size:20
Alignment explanation
Indices: 4666354--4666504 Score: 302
Period size: 20 Copynumber: 7.5 Consensus size: 20
4666344 TTCCTAATTT
4666354 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
4666374 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
4666394 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
4666414 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
4666434 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
4666454 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
4666474 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
4666494 GCAATGCGAAT
1 GCAATGCGAAT
4666505 CTGACTATCG
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 131 1.00
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.20
Consensus pattern (20 bp):
GCAATGCGAATACGTAAATC
Found at i:4666722 original size:22 final size:22
Alignment explanation
Indices: 4666694--4666766 Score: 94
Period size: 22 Copynumber: 3.3 Consensus size: 22
4666684 CTCTTTAAGG
4666694 CGAAATCCGTCCCCATCTCCGA
1 CGAAATCCGTCCCCATCTCCGA
*
4666716 CGAAATCAGTCCCCATCTCCGA
1 CGAAATCCGTCCCCATCTCCGA
* * *
4666738 CGATA-CCAGTCTCCATCTCCGG
1 CGAAATCC-GTCCCCATCTCCGA
4666760 CGAAATC
1 CGAAATC
4666767 ATTCACGGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
21 1 0.02
22 41 0.95
23 1 0.02
ACGTcount: A:0.25, C:0.41, G:0.15, T:0.19
Consensus pattern (22 bp):
CGAAATCCGTCCCCATCTCCGA
Found at i:4667143 original size:20 final size:20
Alignment explanation
Indices: 4667103--4667170 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
4667093 GTGATTTTGT
*
4667103 CGTTGCGATTTTC-ATTTCG
1 CGTTGCGATATTCAATTTCG
*
4667122 CGTTGCGATATTCAAATTCG
1 CGTTGCGATATTCAATTTCG
* *
4667142 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATATTCAATTTCG
*
4667162 TGTTGCGAT
1 CGTTGCGAT
4667171 TTTAAGTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 12 0.29
20 30 0.71
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (20 bp):
CGTTGCGATATTCAATTTCG
Found at i:4667180 original size:20 final size:19
Alignment explanation
Indices: 4667103--4667180 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
4667093 GTGATTTTGT
*
4667103 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTAATTTCG
* *
4667122 CGTTGCGATATTCAAATTCG
1 CGTTGCGAT-TTTAATTTCG
* * *
4667142 CGTTGCGATAGTCATTTTCG
1 CGTTGCGAT-TTTAATTTCG
*
4667162 TGTTGCGATTTTAAGTTTC
1 CGTTGCGATTTTAA-TTTC
4667181 AGAAACTATT
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
19 11 0.23
20 36 0.77
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTAATTTCG
Found at i:4669123 original size:33 final size:33
Alignment explanation
Indices: 4669044--4669124 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
4669034 ATAGTTTACT
** * * *
4669044 ATCGCAATGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCG-AAATGAAAATCGCAACAACAAA
*
4669078 ATCACAATGCGAAATGAAAATCGCAACAACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
*
4669111 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
4669125 ATGACTATCG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 29 0.74
34 10 0.26
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACAACAAA
Found at i:4669136 original size:20 final size:20
Alignment explanation
Indices: 4669111--4669179 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
4669101 CAACAACAAA
4669111 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
4669131 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
** *
4669151 ATCGCAATTC-AAATTTGACT
1 ATCGCAACGCGAAA-ATGACT
4669171 ATCGCAACG
1 ATCGCAACG
4669180 AAAGAATCGC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 3 0.07
20 40 0.93
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:4669146 original size:34 final size:34
Alignment explanation
Indices: 4669044--4669146 Score: 102
Period size: 34 Copynumber: 3.1 Consensus size: 34
4669034 ATAGTTTACT
* * *
4669044 ATCGCAATGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAAAGCGAAA
* ** *
4669078 ATCACAATGCG-AAATGAAAATCGCAACAAC-AAA
1 ATCGCAATGCGAAAATGACTATCGCAA-AGCGAAA
* *
4669111 ATCGCAACGCGAAAATGACTATCGCAATGCGAAA
1 ATCGCAATGCGAAAATGACTATCGCAAAGCGAAA
4669145 AT
1 AT
4669147 GACTATCGCA
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
33 25 0.47
34 28 0.53
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.15
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAAAGCGAAA
Found at i:4669249 original size:20 final size:20
Alignment explanation
Indices: 4669224--4669310 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
4669214 GATTCTCTCG
*
4669224 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAATTTCGCA
*
4669244 TTGCGATAGT-AATTTTTGCA
1 TTGCGATAGTCAA-TTTCGCA
* *
4669264 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAATTTCGCA
* * *
4669284 TTGCAATAGTCATTTTCGCG
1 TTGCGATAGTCAATTTCGCA
4669304 TTGCGAT
1 TTGCGAT
4669311 TTTAAGTTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.03
20 55 0.95
21 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCAATTTCGCA
Found at i:4669282 original size:40 final size:40
Alignment explanation
Indices: 4669224--4669310 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
4669214 GATTCTCTCG
* *
4669224 TTGCGATAGTCAAATTCGCATTGCGATAGTAATTTTTGCA
1 TTGCGATAGTCAAATTCGCATTGCAATAGTAATTTTCGCA
** * * *
4669264 TTGCGATAGTCATTTTCGCGTTGCAATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCATTGCAATAGTAATTTTCGCA
4669304 TTGCGAT
1 TTGCGAT
4669311 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (40 bp):
TTGCGATAGTCAAATTCGCATTGCAATAGTAATTTTCGCA
Found at i:4671302 original size:14 final size:14
Alignment explanation
Indices: 4671283--4671318 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4671273 ATTGTTTAAT
4671283 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
4671297 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
4671311 TGATTTGT
1 TGATTTGT
4671319 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4671481 original size:33 final size:33
Alignment explanation
Indices: 4671435--4671519 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
4671425 TCGCAACGTG
** * *
4671435 GAAATGACTATCGCAACGAGAGAATCGTAATGT
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
4671468 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
4671501 GAAAATAAAAATCGCAACG
1 G-AAATGAAAATCGCAACG
4671520 CGAAATTAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 30 0.65
34 16 0.35
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:4671554 original size:20 final size:19
Alignment explanation
Indices: 4671529--4671596 Score: 83
Period size: 20 Copynumber: 3.8 Consensus size: 19
4671519 GCGAAATTAG
4671529 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
4671548 TTTTCGCATTGCGA--TTCA
1 -TTTCGCATTGCGATTTTCA
*
4671566 -CTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
4671582 TTTCGCATTGCGATT
1 TTTCGCATTGCGATT
4671597 CTCTCGTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
14 6 0.15
16 7 0.17
17 3 0.07
18 4 0.10
19 8 0.20
20 13 0.32
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:4671579 original size:34 final size:34
Alignment explanation
Indices: 4671536--4671629 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 34
4671526 TAGTTTCGCA
4671536 TTGCGATTTTCATTTTCGCATTGCGATTCACTCG
1 TTGCGATTTTCATTTTCGCATTGCGATTCACTCG
*
4671570 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTTCGCATTGCGATTCACTCG
** * *
4671603 TTGCGATAGTCATTTCCGCGTTGCGAT
1 TTGCGATTTTCATTTTCGCATTGCGAT
4671630 AGTCAATTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.56
34 24 0.44
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (34 bp):
TTGCGATTTTCATTTTCGCATTGCGATTCACTCG
Found at i:4671626 original size:20 final size:20
Alignment explanation
Indices: 4671601--4671694 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
4671591 GCGATTCTCT
4671601 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
4671621 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
4671641 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
4671661 TGTTACGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
*
4671681 CTTTGCGATAGTCA
1 CGTTGCGATAGTCA
4671695 AATGAATGTC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 64 0.97
21 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:4674101 original size:24 final size:24
Alignment explanation
Indices: 4674074--4674127 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4674064 TTGAAACATC
4674074 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* ** *
4674098 ATCAAAGTTTGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
4674122 ATCAAA
1 ATCAAA
4674128 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:4674994 original size:20 final size:20
Alignment explanation
Indices: 4674969--4675015 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
4674959 AAATTCAGTA
*
4674969 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
4674989 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
4675009 TTGCGAT
1 TTGCGAT
4675016 TTACAGATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:4675022 original size:20 final size:20
Alignment explanation
Indices: 4674999--4675095 Score: 108
Period size: 20 Copynumber: 4.8 Consensus size: 20
4674989 TTGCGATAGT
*
4674999 CAGATTCGCGTTGCGATTTA
1 CAGATTCGCATTGCGATTTA
4675019 CAGATTCGCATTGCGATTTA
1 CAGATTCGCATTGCGATTTA
* *
4675039 C-GTATTCGCATTGCAATTTTC
1 CAG-ATTCGCATTGCGA-TTTA
* *
4675060 CAAATTCGCGTTGCGATTTA
1 CAGATTCGCATTGCGATTTA
4675080 C-GTATTCGCATTGCGA
1 CAG-ATTCGCATTGCGA
4675096 ATTAGGAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
19 1 0.02
20 48 0.75
21 15 0.23
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (20 bp):
CAGATTCGCATTGCGATTTA
Found at i:4675116 original size:21 final size:21
Alignment explanation
Indices: 4675092--4675137 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
4675082 TATTCGCATT
4675092 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
4675113 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
4675134 GCGA
1 GCGA
4675138 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:4676123 original size:16 final size:16
Alignment explanation
Indices: 4676074--4676123 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
4676064 TTTAAGGACT
*
4676074 AAATTG-AATACATATA
1 AAATTGAAATAAAT-TA
* *
4676090 AAAGTGAAAT-ACTTA
1 AAATTGAAATAAATTA
4676105 AAATTGAAATAAATTA
1 AAATTGAAATAAATTA
4676121 AAA
1 AAA
4676124 AACACAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 11 0.41
16 13 0.48
17 3 0.11
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (16 bp):
AAATTGAAATAAATTA
Found at i:4676243 original size:17 final size:17
Alignment explanation
Indices: 4676223--4676274 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
4676213 AATTATAATG
*
4676223 TATATATATATATATAA
1 TATATATTTATATATAA
4676240 TATA-AGTTTATATATAA
1 TATATA-TTTATATATAA
4676257 -ACTATATTTATATTATAA
1 TA-TATATTTATA-TATAA
4676275 ACTGCATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 2 0.07
17 22 0.73
18 6 0.20
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TATATATTTATATATAA
Found at i:4676287 original size:20 final size:17
Alignment explanation
Indices: 4676229--4676298 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 17
4676219 AATGTATATA
4676229 TATATATATAA-TATAAGTT
1 TATATATA-AACTATAA--T
*
4676248 TATATATAAACTATATT
1 TATATATAAACTATAAT
4676265 TATATTATAAACTGCATAAT
1 TATA-TATAAACT--ATAAT
*
4676285 TAT-TATAAGCTATA
1 TATATATAAACTATA
4676299 TATATAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
16 3 0.07
17 5 0.11
18 17 0.39
19 12 0.27
20 7 0.16
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (17 bp):
TATATATAAACTATAAT
Found at i:4676334 original size:28 final size:26
Alignment explanation
Indices: 4676288--4676525 Score: 123
Period size: 28 Copynumber: 8.9 Consensus size: 26
4676278 GCATAATTAT
* *
4676288 TATAAGCTATATATATAAATTATGTTTA
1 TATAAACTATATATATAAACTATG--TA
*
4676316 TATGAACTATATATATAAACTATGTA
1 TATAAACTATATATATAAACTATGTA
* *
4676342 TATAAATTATATATATAAACTATATA
1 TATAAACTATATATATAAACTATGTA
* *
4676368 TGTATAAACTA-A-A-AGTATA-TA-GTT
1 --TATAAACTATATATA-TAAACTATGTA
*
4676392 TATAAACTATAATTTAAATTAATA-TAGTGTA
1 TATAAACTAT-A--TATA-TAA-ACTA-TGTA
* * * *
4676423 TATATA-TTTAT-TATAAGCTATATA
1 TATAAACTATATATATAAACTATGTA
* * * *
4676447 TATAAATTATGGTTATATGAACTATATA
1 TATAAACTAT--ATATATAAACTATGTA
* *
4676475 TATAAACTATGTATATAAACTATATA
1 TATAAACTATATATATAAACTATGTA
4676501 TATAAACTATATATGTATAAACTAT
1 TATAAACTATATA--TATAAACTAT
4676526 AAAAAGTATA
Statistics
Matches: 164, Mismatches: 27, Indels: 38
0.72 0.12 0.17
Matches are distributed among these distances:
22 9 0.05
24 10 0.06
25 10 0.06
26 56 0.34
27 4 0.02
28 62 0.38
29 4 0.02
30 2 0.01
31 7 0.04
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (26 bp):
TATAAACTATATATATAAACTATGTA
Found at i:4676344 original size:41 final size:40
Alignment explanation
Indices: 4676288--4676526 Score: 131
Period size: 41 Copynumber: 5.9 Consensus size: 40
4676278 GCATAATTAT
* * *
4676288 TATAAGCTATATATATAAATTATGTTTATATGAACTATATA-
1 TATAAACTATATATATAAATTA--TATATATAAACTATATAG
*
4676329 TATAAACTATGTATATAAATTATATATATAAACTATATATG
1 TATAAACTATATATATAAATTATATATATAAACTATATA-G
*
4676370 TATAAACTA-A-A-AGT--A-TATAGTTTATAAACTATA-A-
1 TATAAACTATATATA-TAAATTATA-TATATAAACTATATAG
* * * * * *
4676404 TTTAAATTAATATAGTGTATATATATTTATTATAAGCTATATA-
1 TATAAACT-ATATA-TATAAAT-TATATA-TATAAACTATATAG
* * * * *
4676447 TATAAATTATGGTTATATGAACTATATATATAAACTATGTA-
1 TATAAACTAT--ATATATAAATTATATATATAAACTATATAG
*
4676488 TATAAACTATATATATAAACTATATATGTATAAACTATA
1 TATAAACTATATATATAAA-T-TATATATATAAACTATA
4676527 AAAAGTATAT
Statistics
Matches: 152, Mismatches: 27, Indels: 38
0.70 0.12 0.18
Matches are distributed among these distances:
34 6 0.04
35 1 0.01
36 6 0.04
37 14 0.09
38 2 0.01
39 24 0.16
40 1 0.01
41 65 0.43
42 20 0.13
43 11 0.07
44 2 0.01
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (40 bp):
TATAAACTATATATATAAATTATATATATAAACTATATAG
Found at i:4676354 original size:11 final size:13
Alignment explanation
Indices: 4676288--4676526 Score: 143
Period size: 13 Copynumber: 17.8 Consensus size: 13
4676278 GCATAATTAT
*
4676288 TATAAGCTATATA
1 TATAAACTATATA
* *
4676301 TATAAATTATGTTTA
1 TATAAACTA--TATA
*
4676316 TATGAACTATATA
1 TATAAACTATATA
*
4676329 TATAAACTATGTA
1 TATAAACTATATA
*
4676342 TATAAATTATATA
1 TATAAACTATATA
4676355 TATAAACTATATA
1 TATAAACTATATA
4676368 TGTATAAACTA-A-A
1 --TATAAACTATATA
*
4676381 -AGT--A-TATAGTT
1 TA-TAAACTATA-TA
4676392 TATAAACTATA-A
1 TATAAACTATATA
* *
4676404 TTTAAATTAATATA
1 TATAAACT-ATATA
* *
4676418 GTGTATATA-TATTTA
1 ---TATAAACTATATA
*
4676433 TTATAAGCTATATA
1 -TATAAACTATATA
* *
4676447 TATAAATTATGGTTA
1 TATAAACTAT--ATA
*
4676462 TATGAACTATATA
1 TATAAACTATATA
*
4676475 TATAAACTATGTA
1 TATAAACTATATA
4676488 TATAAACTATATA
1 TATAAACTATATA
4676501 TATAAACTATATA
1 TATAAACTATATA
4676514 TGTATAAACTATA
1 --TATAAACTATA
4676527 AAAAGTATAT
Statistics
Matches: 173, Mismatches: 31, Indels: 42
0.70 0.13 0.17
Matches are distributed among these distances:
8 2 0.01
9 2 0.01
10 1 0.01
11 2 0.01
12 7 0.04
13 99 0.57
14 11 0.06
15 44 0.25
16 1 0.01
17 4 0.02
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (13 bp):
TATAAACTATATA
Found at i:4676446 original size:146 final size:148
Alignment explanation
Indices: 4676284--4676587 Score: 531
Period size: 146 Copynumber: 2.1 Consensus size: 148
4676274 AACTGCATAA
* *
4676284 TTATTATAAGCTATATATATAAATTATGTTTATATGAACTATATATATAAACTATGTATATAAAT
1 TTATTATAAGCTATATATATAAATTATGGTTATATGAACTATATATATAAACTATGTATATAAAC
4676349 TATATATATAAACTATATATGTATAAAC-T-AAAAGTATATAGTTTATAAACTATAATTTAAATT
66 TATATATATAAACTATATATGTATAAACATAAAAAGTATATAGTTTATAAACTATAATTTAAATT
4676412 AATATAGTGTATATATAT
131 AATATAGTGTATATATAT
4676430 TTATTATAAGCTATATATATAAATTATGGTTATATGAACTATATATATAAACTATGTATATAAAC
1 TTATTATAAGCTATATATATAAATTATGGTTATATGAACTATATATATAAACTATGTATATAAAC
*
4676495 TATATATATAAACTATATATGTATAAACTATAAAAAGTATATAGTTTATAAACTATAATTTATAT
66 TATATATATAAACTATATATGTATAAAC-ATAAAAAGTATATAGTTTATAAACTATAATTTAAAT
*
4676560 TAATATAGTGTGTATATAT
130 TAATATAGTGTATATATAT
*
4676579 ATATATATA
1 TTAT-TATA
4676588 TATATAAACT
Statistics
Matches: 149, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
146 91 0.61
148 1 0.01
149 53 0.36
150 4 0.03
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (148 bp):
TTATTATAAGCTATATATATAAATTATGGTTATATGAACTATATATATAAACTATGTATATAAAC
TATATATATAAACTATATATGTATAAACATAAAAAGTATATAGTTTATAAACTATAATTTAAATT
AATATAGTGTATATATAT
Found at i:4676526 original size:26 final size:25
Alignment explanation
Indices: 4676471--4676551 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
4676461 ATATGAACTA
*
4676471 TATATATAAACTATGTA-TATAAAC
1 TATATATAAACTATATATTATAAAC
4676495 TATATATATAAACTATATATGTATAAAC
1 --TATATATAAACTATATAT-TATAAAC
*
4676523 TATA-A-AAAGTATATAGTTTATAAAC
1 TATATATAAACTATATA--TTATAAAC
4676548 TATA
1 TATA
4676552 ATTTATATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
24 9 0.18
25 12 0.24
26 21 0.43
28 7 0.14
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (25 bp):
TATATATAAACTATATATTATAAAC
Found at i:4676577 original size:2 final size:2
Alignment explanation
Indices: 4676572--4676698 Score: 58
Period size: 2 Copynumber: 66.0 Consensus size: 2
4676562 ATATAGTGTG
* * * *
4676572 TA TA TA TA TA TA TA TA TA TA TA AA CTA CA TA -A AA TA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA
* * *
4676615 TA TA AA T- TA TA -A TT TA TA T- TA -A TA TA -A TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
4676652 TG TA CGA CTA -A TA TA -A GTA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
4676692 TA T- TA TA
1 TA TA TA TA
4676699 GAAATACTAT
Statistics
Matches: 94, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
1 10 0.11
2 78 0.83
3 6 0.06
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (2 bp):
TA
Found at i:4676610 original size:74 final size:75
Alignment explanation
Indices: 4676497--4676640 Score: 229
Period size: 74 Copynumber: 1.9 Consensus size: 75
4676487 ATATAAACTA
* *
4676497 TATATATAAACTATATATGTATAAACTATAAAAAGTATATAGTTTATAAACTATAATTTATATTA
1 TATATATAAACTATATATATATAAACTACAAAAAGTATATAGTTTATAAACTATAATTTATATTA
4676562 ATATAGTGTG
66 ATATAGTGTG
* *
4676572 TATATATATA-TATATATATATAAACTACATAAAA-TATATAGTTTATAAATTATAATTTATATT
1 TATATATAAACTATATATATATAAACTACA-AAAAGTATATAGTTTATAAACTATAATTTATATT
4676635 AATATA
65 AATATA
4676641 ATATATATGT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
74 51 0.80
75 13 0.20
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (75 bp):
TATATATAAACTATATATATATAAACTACAAAAAGTATATAGTTTATAAACTATAATTTATATTA
ATATAGTGTG
Found at i:4676953 original size:20 final size:24
Alignment explanation
Indices: 4676907--4676960 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 24
4676897 ACATGTAAAC
4676907 TATATATATAACTTATAGTACATG
1 TATATATATAACTTATAGTACATG
*
4676931 TATATATA-AAC-TAT-GTATA-G
1 TATATATATAACTTATAGTACATG
4676951 TATATATATA
1 TATATATATA
4676961 TATAAACCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 9 0.32
21 5 0.18
22 3 0.11
23 3 0.11
24 8 0.29
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (24 bp):
TATATATATAACTTATAGTACATG
Found at i:4676973 original size:24 final size:24
Alignment explanation
Indices: 4676907--4676973 Score: 66
Period size: 26 Copynumber: 2.8 Consensus size: 24
4676897 ACATGTAAAC
*
4676907 TATATATAT-AA-CTTATAGTACA
1 TATATATATAAACCATATAGTACA
* * *
4676929 TGTATATATAAACTATGTATAGTATA
1 TATATATATAAACCA--TATAGTACA
4676955 TATATATATAAACCATATA
1 TATATATATAAACCATATA
4676974 AAATAAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 8 0.23
23 2 0.06
24 4 0.11
26 21 0.60
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.40
Consensus pattern (24 bp):
TATATATATAAACCATATAGTACA
Found at i:4684875 original size:41 final size:41
Alignment explanation
Indices: 4684830--4685170 Score: 269
Period size: 41 Copynumber: 8.3 Consensus size: 41
4684820 AACTTGGACT
4684830 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTA-A
1 ATCGCAATGCGAA-TTGGACTATCGCAATGCGAATATGTACA
4684871 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTA-A
1 ATCGCAATGCGAA-TTGGACTATCGCAATGCGAATATGTACA
* * * * *
4684912 ATCGCAATGCGATAGTCGACTATCGCAATGCAAACT-TGGACT
1 ATCGCAATGCGA-ATTGGACTATCGCAATGCGAA-TATGTACA
* * *
4684954 ATCGCAATGCGAATATGTA-AATCGCAATGCG-ATA-GTCGACT
1 ATCGCAATGCGAAT-TGGACTATCGCAATGCGAATATGT--ACA
* * *
4684995 ATCGCAATGCGAATATGTA-AATCGCAATGCG-ATA-GTCGACT
1 ATCGCAATGCGAAT-TGGACTATCGCAATGCGAATATGT--ACA
*
4685036 ATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTA-A
1 ATCGCAATGCGAA-TTGGACTATCGCAATGCGAATATGTACA
* * * * *
4685077 ATCGCAATGCGATAGTCGACTATTGTAATGCGAACT-TCG-ACT
1 ATCGCAATGCGA-ATTGGACTATCGCAATGCGAA-TAT-GTACA
* *
4685119 ATCGCAATGCGAATATGTAAT-TCGCAATGCGAATATGTA-A
1 ATCGCAATGCGAAT-TGGACTATCGCAATGCGAATATGTACA
*
4685159 TTCGCAATGCGA
1 ATCGCAATGCGA
4685171 TAGTCCAAGT
Statistics
Matches: 255, Mismatches: 27, Indels: 37
0.80 0.08 0.12
Matches are distributed among these distances:
39 2 0.01
40 14 0.05
41 187 0.73
42 47 0.18
43 3 0.01
44 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (41 bp):
ATCGCAATGCGAATTGGACTATCGCAATGCGAATATGTACA
Found at i:4684917 original size:103 final size:103
Alignment explanation
Indices: 4684826--4685110 Score: 500
Period size: 103 Copynumber: 2.8 Consensus size: 103
4684816 CGCGAACTTG
* *
4684826 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGA-ACTTGGA
1 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATA-GTCGA
4684890 CTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
65 CTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
*
4684929 GACTATCGCAATGCAAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAC
1 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAC
4684994 TATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
66 TATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
*
4685032 GACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAC
1 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAC
* *
4685097 TATTGTAATGCGAA
66 TATCGCAATGCGAA
4685111 CTTCGACTAT
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
103 173 0.99
104 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (103 bp):
GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAC
TATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
Found at i:4684967 original size:62 final size:63
Alignment explanation
Indices: 4684810--4685175 Score: 329
Period size: 62 Copynumber: 5.9 Consensus size: 63
4684800 GTTTCCAGAT
* * *
4684810 TCGCAACGCGAACT-TGGACTATCGCAATGCGAACT-TGGACTATCGCAATGCGAATA-T-GTA-
1 TCGCAATGCGAA-TATGGACTATCGCAATGCGAA-TATGTACAATCGCAATGCG-ATAGTCG-AC
*
4684870 AA
62 TA
4684872 TCGCAATGCGAACT-TGGACTATCGCAATGCGAATATGTA-AATCGCAATGCGATAGTCGACTA
1 TCGCAATGCGAA-TATGGACTATCGCAATGCGAATATGTACAATCGCAATGCGATAGTCGACTA
*
4684934 TCGCAATGCAAACT-TGGACTATCGCAATGCGAATATGTA-AATCGCAATGCGATAGTCGACTA
1 TCGCAATGCGAA-TATGGACTATCGCAATGCGAATATGTACAATCGCAATGCGATAGTCGACTA
* * * *
4684996 TCGCAATGCGAATATGTA-AATCGCAATGCG-ATA-GTCGACTATCGCAATGCGA-ACTTCGACT
1 TCGCAATGCGAATATGGACTATCGCAATGCGAATATGT--ACAATCGCAATGCGATA-GTCGACT
4685057 A
63 A
* * * * * *
4685058 TCGCAATGCGAATATGTA-AATCGCAATGCG-ATA-GTCGACTATTGTAATGCGA-ACTTCGACT
1 TCGCAATGCGAATATGGACTATCGCAATGCGAATATGT--ACAATCGCAATGCGATA-GTCGACT
4685119 A
63 A
* * *
4685120 TCGCAATGCGAATATGTAAT-TCGCAATGCGAATATGTA-ATTCGCAATGCGATAGTC
1 TCGCAATGCGAATATGGACTATCGCAATGCGAATATGTACAATCGCAATGCGATAGTC
4685176 CAAGTTCGCA
Statistics
Matches: 273, Mismatches: 18, Indels: 27
0.86 0.06 0.08
Matches are distributed among these distances:
59 2 0.01
60 6 0.02
61 39 0.14
62 221 0.81
63 3 0.01
64 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (63 bp):
TCGCAATGCGAATATGGACTATCGCAATGCGAATATGTACAATCGCAATGCGATAGTCGACTA
Found at i:4685116 original size:21 final size:21
Alignment explanation
Indices: 4684810--4685131 Score: 232
Period size: 21 Copynumber: 15.6 Consensus size: 21
4684800 GTTTCCAGAT
* *
4684810 TCGCAACGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
4684831 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
4684852 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
4684872 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
4684893 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
4684913 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
* *
4684934 TCGCAATGCAAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
4684955 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
4684975 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
*
4684996 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
4685016 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
4685037 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
4685058 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
4685078 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
* *
4685099 TTGTAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
4685120 TCGCAATGCGAA
1 TCGCAATGCGAA
4685132 TATGTAATTC
Statistics
Matches: 247, Mismatches: 26, Indels: 56
0.75 0.08 0.17
Matches are distributed among these distances:
20 84 0.34
21 163 0.66
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:4685185 original size:21 final size:21
Alignment explanation
Indices: 4685139--4685213 Score: 93
Period size: 21 Copynumber: 3.6 Consensus size: 21
4685129 GAATATGTAA
4685139 TTCGCAATGCGAATATGT--AA-
1 TTCGCAATGCG-ATA-GTCCAAG
4685159 TTCGCAATGCGATAGTCCAAG
1 TTCGCAATGCGATAGTCCAAG
*
4685180 TTCGCATTGCGATAGTCCAAG
1 TTCGCAATGCGATAGTCCAAG
*
4685201 TTCGCATTGCGAT
1 TTCGCAATGCGAT
4685214 TTACATATTC
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
18 2 0.04
19 3 0.06
20 13 0.25
21 33 0.65
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (21 bp):
TTCGCAATGCGATAGTCCAAG
Found at i:4685226 original size:20 final size:20
Alignment explanation
Indices: 4685201--4685274 Score: 98
Period size: 20 Copynumber: 3.6 Consensus size: 20
4685191 ATAGTCCAAG
4685201 TTCGCATTGCGATTTACATA
1 TTCGCATTGCGATTTACATA
*
4685221 TTCGCATTGCGATAGT-CGACTA
1 TTCGCATTGCGAT-TTAC-A-TA
4685243 -TCGCATTGCGATTTACATA
1 TTCGCATTGCGATTTACATA
4685262 TTCGCATTGCGAT
1 TTCGCATTGCGAT
4685275 AGTCGAAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.04
20 28 0.60
21 15 0.32
22 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (20 bp):
TTCGCATTGCGATTTACATA
Found at i:4685298 original size:41 final size:41
Alignment explanation
Indices: 4685180--4685287 Score: 182
Period size: 41 Copynumber: 2.6 Consensus size: 41
4685170 ATAGTCCAAG
*
4685180 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATTTACATA
1 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATTTACATA
*
4685221 TTCGCATTGCGATAGTCG-ACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATAGTCGAAGT-TCGCATTGCGATTTACATA
4685262 TTCGCATTGCGATAGTCGAAGTTCGC
1 TTCGCATTGCGATAGTCGAAGTTCGC
4685288 GTTTCAATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
40 2 0.03
41 58 0.94
42 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.33
Consensus pattern (41 bp):
TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATTTACATA
Found at i:4685918 original size:6 final size:6
Alignment explanation
Indices: 4685902--4685933 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
4685892 TCTCGTCTCG
4685902 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
4685934 AATACGTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:4686070 original size:42 final size:42
Alignment explanation
Indices: 4686011--4686192 Score: 265
Period size: 42 Copynumber: 4.3 Consensus size: 42
4686001 CGTTGCGATT
4686011 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* * *
4686053 TTGGACTACCGCAACGAATTTGGAATAAATCGCAATGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* * * *
4686095 TTCGACTATCGCAACGAATTTGGAATAAATCACAACGTGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* * *
4686137 TTTGACTATCGCAACGAACTTGGAATAAATCTCAACGTGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
4686179 TTGGATTATCGCAA
1 TTGGACTATCGCAA
4686193 TGCGAATATG
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 127 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (42 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
Found at i:4686535 original size:30 final size:32
Alignment explanation
Indices: 4686477--4686543 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
4686467 ATGATTTAAG
*
4686477 ATTTGTCATGCATTGTAAGAAGAAAAAAA-AT
1 ATTTGTCATGCATTGTAACAAGAAAAAAAGAT
*
4686508 ATTTGTCCTGCATTGTAACAA-AAAAAAAGAT
1 ATTTGTCATGCATTGTAACAAGAAAAAAAGAT
4686539 -TTTGT
1 ATTTGT
4686544 AACCCCCTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 12 0.36
31 21 0.64
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (32 bp):
ATTTGTCATGCATTGTAACAAGAAAAAAAGAT
Found at i:4687266 original size:55 final size:55
Alignment explanation
Indices: 4687185--4687291 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
4687175 TAACCATACA
* * *
4687185 CCCCTGCACAATAGTAAGGCCCTGAGCACAAAGCCGAGAAACCTGCAAATATCAC
1 CCCCTACACAACAATAAGGCCCTGAGCACAAAGCCGAGAAACCTGCAAATATCAC
* ** * *
4687240 CCCCTACACAACAATAATGCCCTGAGCACAAAGTTGAGGAACCTGCAGATAT
1 CCCCTACACAACAATAAGGCCCTGAGCACAAAGCCGAGAAACCTGCAAATAT
4687292 AAACCCTCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.36, C:0.31, G:0.18, T:0.15
Consensus pattern (55 bp):
CCCCTACACAACAATAAGGCCCTGAGCACAAAGCCGAGAAACCTGCAAATATCAC
Found at i:4689644 original size:13 final size:13
Alignment explanation
Indices: 4689626--4689667 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
4689616 AACTGTCAGC
4689626 GGTCAACGGGTCG
1 GGTCAACGGGTCG
4689639 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
*
4689651 GATCAAACGGGTCG
1 GGTC-AACGGGTCG
4689665 GGT
1 GGT
4689668 TAAACCGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.32
13 10 0.40
14 7 0.28
ACGTcount: A:0.19, C:0.21, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:4695625 original size:22 final size:22
Alignment explanation
Indices: 4695595--4695676 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 22
4695585 TTTGAAAATA
4695595 AAAATAATTAT-TTAT-CTATTT
1 AAAA-AATTATATTATACTATTT
*
4695616 ATATAAAATTTATATTATATTATTT
1 A-A-AAAA-TTATATTATACTATTT
*
4695641 AAAAAATTATATCTATAATATTAT
1 AAAAAATTATAT-TATACTATT-T
4695665 AAAAATATTATA
1 AAAAA-ATTATA
4695677 AATAAATAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
21 1 0.02
22 9 0.18
23 18 0.35
24 11 0.22
25 12 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAAAATTATATTATACTATTT
Found at i:4695646 original size:23 final size:22
Alignment explanation
Indices: 4695620--4695676 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
4695610 CTATTTATAT
*
4695620 AAAATTTATATTATATTATTTA
1 AAAAATTATATTATATTATTTA
*
4695642 AAAAATTATATCTATAATATTATA
1 AAAAATTATAT-TATATTATT-TA
4695666 AAAATATTATA
1 AAAA-ATTATA
4695677 AATAAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 10 0.33
23 8 0.27
24 6 0.20
25 6 0.20
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AAAAATTATATTATATTATTTA
Found at i:4696866 original size:22 final size:22
Alignment explanation
Indices: 4696827--4696868 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4696817 TCTGCCATTC
* *
4696827 ACTAAAATTTCCTTTAAAAAAA
1 ACTAAAATTTCATATAAAAAAA
*
4696849 ACTAAAATTTTATATAAAAA
1 ACTAAAATTTCATATAAAAA
4696869 GTCCATAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (22 bp):
ACTAAAATTTCATATAAAAAAA
Found at i:4698826 original size:16 final size:16
Alignment explanation
Indices: 4698805--4698863 Score: 109
Period size: 16 Copynumber: 3.7 Consensus size: 16
4698795 CATTTAATAA
4698805 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
4698821 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
4698837 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
4698853 ATAAACGAACA
1 ATAAACGAACA
4698864 TAAACGTTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.58, C:0.22, G:0.12, T:0.08
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:4699631 original size:14 final size:14
Alignment explanation
Indices: 4699614--4699669 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
4699604 AATGAACATA
4699614 AACGAACATAATCG
1 AACGAACATAATCG
4699628 AACGAACAT-A---
1 AACGAACATAATCG
* *
4699638 AACAAACATAACCG
1 AACGAACATAATCG
4699652 AACGAACATAATCG
1 AACGAACATAATCG
4699666 AACG
1 AACG
4699670 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:4699634 original size:24 final size:24
Alignment explanation
Indices: 4699594--4699668 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
4699584 GATTGAGTTA
*
4699594 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
*
4699618 AACATAATCGAACGAACATAAACA
1 AACATAATCGAACGAACATAAACG
* *
4699642 AACATAACCGAACGAACATAATCG
1 AACATAATCGAACGAACATAAACG
4699666 AAC
1 AAC
4699669 GTTCACGAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 3 0.07
24 42 0.93
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:4704398 original size:2 final size:2
Alignment explanation
Indices: 4704391--4704423 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4704381 ATAATCTTAA
4704391 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4704424 CTTCAACCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4706207 original size:23 final size:23
Alignment explanation
Indices: 4706181--4706232 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
4706171 CTAAAATATT
*
4706181 ATTTTTGTTCCGTTTTGGTACCC
1 ATTTTTGTTCCGTTTTGGTACCA
4706204 ATTTTTGTTCCGTTTTGGTACCA
1 ATTTTTGTTCCGTTTTGGTACCA
4706227 ATTTTT
1 ATTTTT
4706233 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.12, C:0.17, G:0.15, T:0.56
Consensus pattern (23 bp):
ATTTTTGTTCCGTTTTGGTACCA
Found at i:4711499 original size:27 final size:27
Alignment explanation
Indices: 4711457--4711524 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
4711447 TTGTAGGAAT
*
4711457 TATAGAG--ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCA
*
4711482 TATAGAGATATGATTTGTTACCATTTA
1 TATAGAGATATGATTTGTTACCATTCA
4711509 TATAGAGATATGATTT
1 TATAGAGATATGATTT
4711525 TGTAAATAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 7 0.18
27 32 0.82
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCA
Found at i:4715243 original size:27 final size:27
Alignment explanation
Indices: 4715201--4715295 Score: 158
Period size: 27 Copynumber: 3.6 Consensus size: 27
4715191 GTGTAGGAAT
4715201 TATAGAG--ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
4715226 TATAGAGATATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
* *
4715253 TATAGAGATATGACTTGTTACCATTCA
1 TATAGAGATATGATTTGTTACCATTCC
4715280 TATAGAGATATGATTT
1 TATAGAGATATGATTT
4715296 TGTAAATAGA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 7 0.11
27 58 0.89
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.40
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:4722437 original size:14 final size:14
Alignment explanation
Indices: 4722418--4722444 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4722408 TAAAACAGTA
4722418 AACTAACATATTAT
1 AACTAACATATTAT
4722432 AACTAACATATTA
1 AACTAACATATTA
4722445 AAAACAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (14 bp):
AACTAACATATTAT
Found at i:4722710 original size:29 final size:29
Alignment explanation
Indices: 4722666--4722722 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
4722656 CATATTATAG
* *
4722666 ATAACAATTAAACAGATTACCTTAACAAA
1 ATAACAAGTAAACAGATCACCTTAACAAA
*
4722695 ATAACAAGTAAGCAGATCACCTTAACAA
1 ATAACAAGTAAACAGATCACCTTAACAA
4722723 TGAAGTGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.53, C:0.19, G:0.07, T:0.21
Consensus pattern (29 bp):
ATAACAAGTAAACAGATCACCTTAACAAA
Found at i:4722848 original size:24 final size:27
Alignment explanation
Indices: 4722787--4722840 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
4722777 CCAATATATA
*
4722787 AACAATTAAACAAATTACATTGAAGAT
1 AACAATTAAACAAATTACAGTGAAGAT
4722814 GAAGCAATTAAACAAATTACAGTGAAG
1 -AA-CAATTAAACAAATTACAGTGAAG
4722841 TAAATTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (27 bp):
AACAATTAAACAAATTACAGTGAAGAT
Found at i:4723222 original size:24 final size:24
Alignment explanation
Indices: 4723193--4723240 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
4723183 TAATTGGAAT
4723193 TTAAAAGGTCTGACTGTTGGAAGA
1 TTAAAAGGTCTGACTGTTGGAAGA
4723217 TTAAAAGGTCTGACTGTTGGAAGA
1 TTAAAAGGTCTGACTGTTGGAAGA
4723241 AAATCGAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (24 bp):
TTAAAAGGTCTGACTGTTGGAAGA
Found at i:4723476 original size:21 final size:21
Alignment explanation
Indices: 4723458--4723497 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4723448 AGTCTAAATG
*
4723458 TACCAAGTGTTTTAATAAACA
1 TACCAAGTCTTTTAATAAACA
*
4723479 TACCAATTCTTTTAATAAA
1 TACCAAGTCTTTTAATAAA
4723498 ATAATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (21 bp):
TACCAAGTCTTTTAATAAACA
Found at i:4724317 original size:11 final size:11
Alignment explanation
Indices: 4724298--4724332 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
4724288 TATATTTTTT
4724298 TAGTAAAATGA
1 TAGTAAAATGA
*
4724309 TAGTGAAATGA
1 TAGTAAAATGA
4724320 TAGTAAAATGA
1 TAGTAAAATGA
4724331 TA
1 TA
4724333 AACAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (11 bp):
TAGTAAAATGA
Found at i:4727274 original size:27 final size:27
Alignment explanation
Indices: 4727236--4727300 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
4727226 GTATTGGAAG
*
4727236 AAAGCTAGAATGCTTTGGGATGTTTTT
1 AAAGCTAGAATGCTTTGGGATGGTTTT
4727263 AAAGCTAGAATGCTTTGGGATGGTTTT
1 AAAGCTAGAATGCTTTGGGATGGTTTT
*
4727290 GAAGCTA-AATG
1 AAAGCTAGAATG
4727301 AGCTAGGGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 4 0.11
27 32 0.89
ACGTcount: A:0.29, C:0.08, G:0.28, T:0.35
Consensus pattern (27 bp):
AAAGCTAGAATGCTTTGGGATGGTTTT
Found at i:4736224 original size:2 final size:2
Alignment explanation
Indices: 4736219--4736256 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4736209 GTAAAATTTA
4736219 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4736257 TGAATTGGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4740903 original size:21 final size:22
Alignment explanation
Indices: 4740857--4740903 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
4740847 CGCCTGAATT
*
4740857 CCTCGACTTTCTCTCGCCATCT
1 CCTCGACTTTCTCTCGCCATCA
*
4740879 CCTCG-CTTTCT-TCGTCCTTCA
1 CCTCGACTTTCTCTCG-CCATCA
4740900 CCTC
1 CCTC
4740904 CCCACCTCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 14 0.64
22 5 0.23
ACGTcount: A:0.06, C:0.47, G:0.09, T:0.38
Consensus pattern (22 bp):
CCTCGACTTTCTCTCGCCATCA
Found at i:4748081 original size:2 final size:2
Alignment explanation
Indices: 4748074--4748101 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4748064 CAACCCCTTA
4748074 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4748102 GGAATTCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4751643 original size:18 final size:18
Alignment explanation
Indices: 4751608--4751649 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4751598 TTAGCATGTT
*
4751608 TAAAAATAAAACTTAAAA
1 TAAAAATAAAACTGAAAA
4751626 TAAAAATGAAAAC-GAAAA
1 TAAAAAT-AAAACTGAAAA
4751644 TGAAAA
1 T-AAAA
4751650 CTTGAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAACTGAAAA
Found at i:4754152 original size:42 final size:42
Alignment explanation
Indices: 4754051--4754340 Score: 351
Period size: 42 Copynumber: 7.0 Consensus size: 42
4754041 GTCACCCAAG
* * * *
4754051 CACCAGGGCTCATCGCCTTCCCCGACTCACTCTTCTGGG---
1 CACCATGGCTCATCCCCTTCCCCGACTCACTCTCCCGGGCAC
* * *
4754090 CACCATGACTCGTCTCCTTCCCCGACTCACTCTCCCGGGCAC
1 CACCATGGCTCATCCCCTTCCCCGACTCACTCTCCCGGGCAC
* *
4754132 CACCATGGCTCATCCTCTTCCCCGACTCACTCTCCCCGGCAC
1 CACCATGGCTCATCCCCTTCCCCGACTCACTCTCCCGGGCAC
* *
4754174 CGCCATGGCTCATCCCCTTCCCC-ACCTCACTCTCCTGGGCAC
1 CACCATGGCTCATCCCCTTCCCCGA-CTCACTCTCCCGGGCAC
* * *
4754216 AACCATGGCTCATCCCCTTGCCCGACTCACTCTCCCTGGCAC
1 CACCATGGCTCATCCCCTTCCCCGACTCACTCTCCCGGGCAC
* *
4754258 CACCATGTCTCATCCCCTTCACCGACTCACTCTCCCGGG---
1 CACCATGGCTCATCCCCTTCCCCGACTCACTCTCCCGGGCAC
* * *
4754297 CACCATGGCTCATCTCATTCCCCGACTTACTCTCCCGGGCAC
1 CACCATGGCTCATCCCCTTCCCCGACTCACTCTCCCGGGCAC
4754339 CA
1 CA
4754341 TGGCCATGTT
Statistics
Matches: 213, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
39 67 0.31
41 1 0.00
42 144 0.68
43 1 0.00
ACGTcount: A:0.15, C:0.49, G:0.14, T:0.22
Consensus pattern (42 bp):
CACCATGGCTCATCCCCTTCCCCGACTCACTCTCCCGGGCAC
Found at i:4756964 original size:28 final size:27
Alignment explanation
Indices: 4756916--4756974 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
4756906 TTAAACGAAA
*
4756916 TTAAAAAAAATAACCTAATATCCATGAT
1 TTAAAAAAAATAACC-AATATCCATAAT
4756944 TTAAAAAAAATTAA-CACATATCCATAAT
1 TTAAAAAAAA-TAACCA-ATATCCATAAT
4756972 TTA
1 TTA
4756975 CATATGATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 1 0.04
28 24 0.86
29 3 0.11
ACGTcount: A:0.54, C:0.14, G:0.02, T:0.31
Consensus pattern (27 bp):
TTAAAAAAAATAACCAATATCCATAAT
Found at i:4757857 original size:30 final size:30
Alignment explanation
Indices: 4757798--4757886 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
4757788 CCCGAAGGAC
* * *
4757798 CTATCCAGAGGTCACACAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
4757827 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
4757857 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
4757887 ACTGTCCATA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
29 18 0.33
30 37 0.67
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:4757922 original size:31 final size:31
Alignment explanation
Indices: 4757882--4757982 Score: 132
Period size: 31 Copynumber: 3.2 Consensus size: 31
4757872 AAAGATCCTC
*
4757882 GGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAAACTGTCCATATGTTCCATAGAACATA
* * *
4757913 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTAAACTGTCCATATGT-TCCATAGAACATA
*
4757944 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT-AAACTGTCCATATGTTCCATAGAACATA
4757976 GGTAAAC
1 GGTAAAC
4757983 CCTCGACTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 33 0.56
32 26 0.44
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (31 bp):
GGTAAACTGTCCATATGTTCCATAGAACATA
Found at i:4758916 original size:29 final size:29
Alignment explanation
Indices: 4758862--4758917 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
4758852 TTTCTCTTGT
* *
4758862 TATCATATAAATCATTGCCATATAACACA
1 TATCATATAAATCATTACCACATAACACA
*
4758891 TATCATATAAATTCA-TACCACCTAACA
1 TATCATATAAA-TCATTACCACATAACA
4758918 TGTAATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.87
30 3 0.13
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (29 bp):
TATCATATAAATCATTACCACATAACACA
Found at i:4759329 original size:21 final size:21
Alignment explanation
Indices: 4759305--4759349 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4759295 TGTTGTTCGT
* *
4759305 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
4759326 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
4759347 TTG
1 TTG
4759350 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:4760618 original size:2 final size:2
Alignment explanation
Indices: 4760611--4760679 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
4760601 GTTGATAAAT
4760611 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4760653 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4760680 TTAAATTTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4772977 original size:13 final size:15
Alignment explanation
Indices: 4772946--4772976 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4772936 ATGAATTATA
4772946 TTTCTGGAAAATATT
1 TTTCTGGAAAATATT
4772961 TTTC-GGAAAATATT
1 TTTCTGGAAAATATT
4772975 TT
1 TT
4772977 CCGTAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (15 bp):
TTTCTGGAAAATATT
Found at i:4772984 original size:14 final size:14
Alignment explanation
Indices: 4772946--4772985 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4772936 ATGAATTATA
*
4772946 TTTCTGGAAAATAT
1 TTTCCGGAAAATAT
*
4772960 TTTTCGGAAAATAT
1 TTTCCGGAAAATAT
*
4772974 TTTCCGTAAAAT
1 TTTCCGGAAAAT
4772986 GAATTACATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (14 bp):
TTTCCGGAAAATAT
Found at i:4777854 original size:33 final size:30
Alignment explanation
Indices: 4777792--4777868 Score: 77
Period size: 33 Copynumber: 2.5 Consensus size: 30
4777782 ATAAATATGA
*
4777792 TTTTTATATTTTATTAATAAAATTAATAAT
1 TTTTTATATTTTATAAATAAAATTAATAAT
4777822 TTTTGTATATTTTAGTGAAATAAATATT-ATAAT
1 TTTT-TATATTTTA-T-AAATAAA-ATTAATAAT
*
4777855 TATATTA-ATTTTAT
1 T-TTTTATATTTTAT
4777869 TAAAATAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
30 4 0.10
31 10 0.25
32 7 0.17
33 14 0.35
34 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (30 bp):
TTTTTATATTTTATAAATAAAATTAATAAT
Found at i:4777968 original size:19 final size:20
Alignment explanation
Indices: 4777922--4777973 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
4777912 TTAAATATCT
4777922 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
**
4777941 ACATATAAATATATTATTT-A
1 TTAT-TAAATATATTATTTAA
4777961 TTATTAAATATAT
1 TTATTAAATATAT
4777974 AAAAAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 11 0.41
20 7 0.26
21 9 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:4777984 original size:27 final size:26
Alignment explanation
Indices: 4777931--4777993 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
4777921 TTTATTAAAA
*
4777931 TATTATTTAAACATATAAATATATTATT
1 TATTA-TTAAACATATAAAAATATTA-T
*
4777959 TATTATTAAATATATAAAAA-ATTTAT
1 TATTATTAAACATATAAAAATA-TTAT
4777985 TATATATTA
1 TAT-TATTA
4777994 TTAATAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 5 0.16
27 21 0.68
28 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
TATTATTAAACATATAAAAATATTAT
Found at i:4778335 original size:42 final size:42
Alignment explanation
Indices: 4778280--4778384 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
4778270 CCGGAAAATC
* * *
4778280 AATTACGTAAAACAAACAC-AGGAAAATATTTTTTGAAAAACG
1 AATTACGTGAAACAAACACGA-GAAAACATTTTCTGAAAAACG
*
4778322 AATTACATGAAACAAACACGAGAAAACATTTTCTGAAAAACG
1 AATTACGTGAAACAAACACGAGAAAACATTTTCTGAAAAACG
* *
4778364 AATTACGTGACACAAATACGA
1 AATTACGTGAAACAAACACGA
4778385 AAATTTGAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 54 0.98
43 1 0.02
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.21
Consensus pattern (42 bp):
AATTACGTGAAACAAACACGAGAAAACATTTTCTGAAAAACG
Found at i:4780398 original size:28 final size:28
Alignment explanation
Indices: 4780348--4780401 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
4780338 TCGTTGTTTT
* *
4780348 TAAGCACTAGCTCAATGATATAATATTG
1 TAAGCACTAGCTCAACGACATAATATTG
* *
4780376 TAAGCAGTAGCTCGACGACATAATAT
1 TAAGCACTAGCTCAACGACATAATAT
4780402 AAAGGATTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (28 bp):
TAAGCACTAGCTCAACGACATAATATTG
Found at i:4781845 original size:26 final size:28
Alignment explanation
Indices: 4781785--4781846 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
4781775 GAGTATTAAT
*
4781785 GAGCTCGACTCGACTCGAAAACTCTGAAATG
1 GAGCTCGACTCGACTCGAAAACTCTG--A-C
4781816 GAGCTCGACTCGACTCGAAAACTC-G-C
1 GAGCTCGACTCGACTCGAAAACTCTGAC
4781842 GAGCT
1 GAGCT
4781847 TAAAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.17
30 1 0.03
31 24 0.80
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (28 bp):
GAGCTCGACTCGACTCGAAAACTCTGAC
Found at i:4782645 original size:149 final size:150
Alignment explanation
Indices: 4782354--4782657 Score: 547
Period size: 150 Copynumber: 2.0 Consensus size: 150
4782344 CATTGTTTTG
*
4782354 AAAACCAGACGGATCGACCGATTCAATCGGTTTAATCGGGAATCGTTGTCTAGTCCGGTTCAATC
1 AAAACCAGACGGATCGACCGATTCAATCGGTTTAATCGGGAACCGTTGTCTAGTCCGGTTCAATC
* *
4782419 TAGACCGGTTGAATCGCTATTAGTGAACCGGCCGGAACCGCTGAACCGTTCAAACCGGACCGGCT
66 TAGACCGGTTGAATCGCTACTAGTGAACCGGCCGGAACCGCTGAACCGTTCAAACCGAACCGGCT
*
4782484 GAAAACCAGAAAAATCGAGA
131 AAAAACCAGAAAAATCGAGA
4782504 AAAACCAGACGGATCGACCGATTCAATCGGTTTAATCGGGAACCGTTGTCTAGTCCGGTTCAATC
1 AAAACCAGACGGATCGACCGATTCAATCGGTTTAATCGGGAACCGTTGTCTAGTCCGGTTCAATC
4782569 TAGACCGGTTGAA-CGCTACTAGTGAACCGGCCGGAACCGCTGAACCGTTCAAACCGAACCGGCT
66 TAGACCGGTTGAATCGCTACTAGTGAACCGGCCGGAACCGCTGAACCGTTCAAACCGAACCGGCT
* *
4782633 AAAAACCGGAAAAATCGGGA
131 AAAAACCAGAAAAATCGAGA
4782653 AAAAC
1 AAAAC
4782658 TTTAAAAAAT
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
149 71 0.48
150 77 0.52
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (150 bp):
AAAACCAGACGGATCGACCGATTCAATCGGTTTAATCGGGAACCGTTGTCTAGTCCGGTTCAATC
TAGACCGGTTGAATCGCTACTAGTGAACCGGCCGGAACCGCTGAACCGTTCAAACCGAACCGGCT
AAAAACCAGAAAAATCGAGA
Found at i:4787974 original size:28 final size:28
Alignment explanation
Indices: 4787934--4788000 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
4787924 CACTAATTTT
*
4787934 AGTTCTTGAAATATTATGTTGGTGAGTC
1 AGTTCTTGAAATATTATGCTGGTGAGTC
4787962 AGTTCTTGAAATATTATGCTGGTGAGTC
1 AGTTCTTGAAATATTATGCTGGTGAGTC
4787990 AGTGT-TTGAAA
1 AGT-TCTTGAAA
4788001 GCAATGACGG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.07, G:0.25, T:0.40
Consensus pattern (28 bp):
AGTTCTTGAAATATTATGCTGGTGAGTC
Found at i:4789497 original size:43 final size:43
Alignment explanation
Indices: 4789448--4789541 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
4789438 TTATTCTATT
* * *
4789448 CATAACATTTTAAATGTCAGATTTTTACACAAAACCAACATTG
1 CATAACATTTCAAATGTCAAATATTTACACAAAACCAACATTG
* * *
4789491 CATAACATTTCGAATGTCAAATATTTACACAGAGCCAACATTG
1 CATAACATTTCAAATGTCAAATATTTACACAAAACCAACATTG
*
4789534 AATAACAT
1 CATAACAT
4789542 AATCCTTTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (43 bp):
CATAACATTTCAAATGTCAAATATTTACACAAAACCAACATTG
Found at i:4805199 original size:18 final size:19
Alignment explanation
Indices: 4805168--4805203 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4805158 ATAAGTTTTG
4805168 ATTTGATTTGTTTTAATAA
1 ATTTGATTTGTTTTAATAA
*
4805187 ATTT-ATTTTTTTTAATA
1 ATTTGATTTGTTTTAATA
4805204 TTATATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (19 bp):
ATTTGATTTGTTTTAATAA
Found at i:4813573 original size:100 final size:98
Alignment explanation
Indices: 4813392--4813588 Score: 245
Period size: 100 Copynumber: 2.0 Consensus size: 98
4813382 AAACGGTTCA
* * ** **
4813392 CGAATAATTCATCGAACATTGTATTCTTTTACACTTGTAATGTTGACTTGATATCATTTATTATT
1 CGAACAATTCATCGAACATTGTATTCTTTCACACTCATAACATTGACTTGATATCATTTATTATT
*
4813457 ATTATTATTTGATAAATTCTAAATC-TAATCCTAAT
66 ATTATAATTT-ATAAA-TCT-AATCTTAATCCTAAT
* *
4813492 CGAACAATTCATCGAACATTGTGTTCTTTCACACTCATAACATTGACTTGATATCGTTTATTATT
1 CGAACAATTCATCGAACATTGTATTCTTTCACACTCATAACATTGACTTGATATCATTTATTA-T
*
4813557 TTTTATAAATTT-TAAATCTAATCTTAATCCTA
65 TATTAT-AATTTATAAATCTAATCTTAATCCTA
4813589 CTTAGAGGGG
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
98 4 0.05
99 11 0.13
100 59 0.70
101 6 0.07
102 4 0.05
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (98 bp):
CGAACAATTCATCGAACATTGTATTCTTTCACACTCATAACATTGACTTGATATCATTTATTATT
ATTATAATTTATAAATCTAATCTTAATCCTAAT
Found at i:4826223 original size:18 final size:18
Alignment explanation
Indices: 4826183--4826225 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4826173 GGCCTCTTTT
*
4826183 TCATCATCCGAGAACCCA
1 TCATCATCCGACAACCCA
*
4826201 GCATCATCCGACAACTCC-
1 TCATCATCCGACAAC-CCA
4826219 TCATCAT
1 TCATCAT
4826226 TCTCACCAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (18 bp):
TCATCATCCGACAACCCA
Found at i:4830435 original size:60 final size:60
Alignment explanation
Indices: 4830263--4830435 Score: 188
Period size: 60 Copynumber: 2.9 Consensus size: 60
4830253 TACAGTTTTA
* ** * *
4830263 GATGAAATTAAAATATTCAAAAATTTGGTGACTAATTTAGAATGAATGTCATAATTTAGG
1 GATGAAATTAAAATATTTAAAAATTTGAAGACTAATTTAGAATAAATGTCATAATTTAAG
* * * * *
4830323 GATGTAATTGAAATATTCT-AAAGTTTGAGGACTAATTTAGAATACAA-GTCATAGTTTAAG
1 GATGAAATTAAAATATT-TAAAAATTTGAAGACTAATTTAGAATA-AATGTCATAATTTAAG
* * * *
4830383 GATGAAATTAAAATATTTAAAAATTTAAAGACTATTTTAAAATAAATATCATA
1 GATGAAATTAAAATATTTAAAAATTTGAAGACTAATTTAGAATAAATGTCATA
4830436 TTTTGATGAC
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
59 3 0.03
60 87 0.95
61 2 0.02
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.35
Consensus pattern (60 bp):
GATGAAATTAAAATATTTAAAAATTTGAAGACTAATTTAGAATAAATGTCATAATTTAAG
Found at i:4832006 original size:12 final size:12
Alignment explanation
Indices: 4831981--4832050 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
4831971 ACGAAGATAT
* *
4831981 CAGAAATCAAAA
1 CAGAATTCAGAA
4831993 CAGAATTCAGAA
1 CAGAATTCAGAA
*
4832005 CAG-ATATCATAA
1 CAGAAT-TCAGAA
* *
4832017 CAGAATCCAGAT
1 CAGAATTCAGAA
*
4832029 CAGAAATCAGAA
1 CAGAATTCAGAA
4832041 CAGAATTCAG
1 CAGAATTCAG
4832051 GTCATTTATC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:4832008 original size:24 final size:24
Alignment explanation
Indices: 4831981--4832050 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
4831971 ACGAAGATAT
4831981 CAGAAATCAAAACAGAATTCAGAA
1 CAGAAATCAAAACAGAATTCAGAA
* * * *
4832005 CAGATATCATAACAGAATCCAGAT
1 CAGAAATCAAAACAGAATTCAGAA
*
4832029 CAGAAATCAGAACAGAATTCAG
1 CAGAAATCAAAACAGAATTCAG
4832051 GTCATTTATC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.16
Consensus pattern (24 bp):
CAGAAATCAAAACAGAATTCAGAA
Found at i:4832085 original size:24 final size:24
Alignment explanation
Indices: 4831980--4832087 Score: 85
Period size: 24 Copynumber: 4.5 Consensus size: 24
4831970 AACGAAGATA
*
4831980 TCAGAAATCAAAACAGAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* * * *
4832003 AACAGATATCATAACAGAA-TCCAG
1 -TCAGAAATCAGAACAGAATTCAAG
*
4832027 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAACAGAATTCAAG
*** *
4832052 TCATTTATCAGAACATAATTCAAG
1 TCAGAAATCAGAACAGAATTCAAG
*
4832076 TCGGAAATCAGA
1 TCAGAAATCAGA
4832088 TAAAATATTT
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
23 2 0.03
24 60 0.92
25 3 0.05
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:4834604 original size:18 final size:18
Alignment explanation
Indices: 4834583--4834659 Score: 136
Period size: 18 Copynumber: 4.3 Consensus size: 18
4834573 CGACGGTCAA
*
4834583 CGGGTCGAGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
4834601 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
4834619 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
4834637 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
4834655 CGGGT
1 CGGGT
4834660 TGTGACCGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.13, C:0.21, G:0.49, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:4834659 original size:5 final size:5
Alignment explanation
Indices: 4834596--4834647 Score: 50
Period size: 5 Copynumber: 9.2 Consensus size: 5
4834586 GTCGAGTCAA
4834596 CGGGT CGGGT CGGGT AAACGGGT CGGGT CGGGT CAACGGGT CGGGT CGGGT
1 CGGGT CGGGT CGGGT ---CGGGT CGGGT CGGGT ---CGGGT CGGGT CGGGT
4834647 C
1 C
4834648 AACGGGTCGG
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
5 31 0.76
8 10 0.24
ACGTcount: A:0.10, C:0.21, G:0.52, T:0.17
Consensus pattern (5 bp):
CGGGT
Found at i:4834659 original size:13 final size:13
Alignment explanation
Indices: 4834577--4834642 Score: 54
Period size: 13 Copynumber: 5.3 Consensus size: 13
4834567 GGTCAACGAC
4834577 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
4834590 AGTCAACGGGTCG
1 GGTCAACGGGTCG
4834603 GGT---CGGGTAAACG
1 GGTCAACGGGT---CG
4834616 GGT---CGGGTCG
1 GGTCAACGGGTCG
4834626 GGTCAACGGGTCG
1 GGTCAACGGGTCG
4834639 GGTC
1 GGTC
4834643 GGGTCAACGG
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
10 10 0.22
13 35 0.78
ACGTcount: A:0.15, C:0.21, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:4847372 original size:111 final size:110
Alignment explanation
Indices: 4847067--4847406 Score: 342
Period size: 111 Copynumber: 3.0 Consensus size: 110
4847057 ATGCCATGCA
* * *
4847067 TCAACAACTAGCATTGCTAGCACGTCAACAGTCCCTTCTGAAT-GCTGCTGCAGCTAAATCTGCT
1 TCAACAACTAGCTTTGCTAGCACATCAACAGTCCC-TCT-CATGGCTGCTGCAGCTAAATCTGCT
* * *
4847131 CCTGGAAATACTCAACATCCTCCATCTACCACCACAAGCATACCCAC
64 CCTGGAAATTCGCAACATCCTCCATCTACCACCACAAGTATACCCAC
* * * * * * * **
4847178 TCGACAACAACTAGCTTTGCTAGCACAGCAGCAATATCTTCTCATGGCCGCTGCAGCTACAGGTG
1 T---CAACAACTAGCTTTGCTAGCACATCAACAGT-CCCTCTCATGGCTGCTGCAGCTAAATCTG
* * * *
4847243 CTCCTGGAGA-TAGTCAACATCCTCTATCTACCACCACAATTATACCCAC
62 CTCCTGGAAATTCG-CAACATCCTCCATCTACCACCACAAGTATACCCAC
* * *
4847292 TCAACAACTAGCTTTGTTATCACATCAACAGTCGCCTCTCATGGCTGCTGCAGCTAAATCTGCTG
1 TCAACAACTAGCTTTGCTAGCACATCAACAGTC-CCTCTCATGGCTGCTGCAGCTAAATCTGCTC
* * * ** *
4847357 CTGAAAATTCGCAACAGCCTCCATCCACCGGCACAAGTATACACAC
65 CTGGAAATTCGCAACATCCTCCATCTACCACCACAAGTATACCCAC
4847403 TCAA
1 TCAA
4847407 GCTTGGCCAA
Statistics
Matches: 180, Mismatches: 41, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
111 89 0.49
112 2 0.01
113 2 0.01
114 86 0.48
115 1 0.01
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.23
Consensus pattern (110 bp):
TCAACAACTAGCTTTGCTAGCACATCAACAGTCCCTCTCATGGCTGCTGCAGCTAAATCTGCTCC
TGGAAATTCGCAACATCCTCCATCTACCACCACAAGTATACCCAC
Found at i:4855010 original size:20 final size:21
Alignment explanation
Indices: 4854985--4855036 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4854975 TTTTCCCAAT
*
4854985 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4855005 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
4855026 TCGCAATGCGA
1 TCGCAATGCGA
4855037 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:4855049 original size:41 final size:41
Alignment explanation
Indices: 4855022--4855099 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
4855012 GCGAATTGGG
* * *
4855022 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* *
4855063 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
4855100 CTGACTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Done.