Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_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: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 51
Found at i:4323317 original size:18 final size:18
Alignment explanation
Indices: 4323294--4323329 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4323284 AGGAATGATA
*
4323294 TGTGGTCTTTCAGGACAT
1 TGTGGTCCTTCAGGACAT
*
4323312 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCAGGACAT
4323330 ATATGTATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.36
Consensus pattern (18 bp):
TGTGGTCCTTCAGGACAT
Found at i:4323331 original size:62 final size:62
Alignment explanation
Indices: 4323145--4323331 Score: 147
Period size: 62 Copynumber: 3.1 Consensus size: 62
4323135 GATCCCTAGT
* * * *
4323145 ATATGTATATGATTCTTAAAGAATGATATGTGGTCCTTCGGGACATTTTGGTCCTTCGGGAC
1 ATATGTATATGATTCTTAAGGAATGATATGTGGTCTTTCAGGACATTATGGTCCTTCGGGAC
* * * * * * * * *
4323207 ATA--TATGT-ATTCTT-TGGAA-CATGTGTGAAGTCTGGTGAGACACATACATGATCCTT--GG
1 ATATGTATATGATTCTTAAGGAATGATATGTG--GTCT-TTCAG-GACAT-TATGGTCCTTCGGG
4323265 -C
61 AC
*
4323266 ATATGTATATGATTCTTAAGGAATGATATGTGGTCTTTCAGGACATTGTGGTCCTTCGGGAC
1 ATATGTATATGATTCTTAAGGAATGATATGTGGTCTTTCAGGACATTATGGTCCTTCGGGAC
4323328 ATAT
1 ATAT
4323332 ATGTATTCTT
Statistics
Matches: 89, Mismatches: 23, Indels: 26
0.64 0.17 0.19
Matches are distributed among these distances:
57 6 0.07
58 3 0.03
59 20 0.22
60 12 0.13
61 13 0.15
62 25 0.28
63 4 0.04
64 6 0.07
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (62 bp):
ATATGTATATGATTCTTAAGGAATGATATGTGGTCTTTCAGGACATTATGGTCCTTCGGGAC
Found at i:4323508 original size:23 final size:23
Alignment explanation
Indices: 4323440--4323500 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
4323430 CATTATTATA
*
4323440 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
4323463 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
4323486 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
4323501 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:4327270 original size:21 final size:21
Alignment explanation
Indices: 4327244--4327287 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4327234 ATTCTGGGCT
* *
4327244 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
4327265 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
4327286 AG
1 AG
4327288 CGAATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:4327358 original size:23 final size:22
Alignment explanation
Indices: 4327314--4327358 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4327304 AATGTCATGG
*
4327314 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
4327336 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
4327359 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:4328805 original size:18 final size:18
Alignment explanation
Indices: 4328782--4328817 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4328772 AGGAATGATA
4328782 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4328800 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4328818 ATATGTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:4328926 original size:18 final size:18
Alignment explanation
Indices: 4328903--4328938 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4328893 AGGAATGATA
4328903 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4328921 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
4328939 ATATGTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:4329047 original size:18 final size:17
Alignment explanation
Indices: 4329020--4329056 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
4329010 CTTAAGGAAT
4329020 GATATGTGGTCCTTCGG
1 GATATGTGGTCCTTCGG
4329037 GATATTGTGGTCCTTCGG
1 GATA-TGTGGTCCTTCGG
4329055 GA
1 GA
4329057 CATATATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.14, C:0.16, G:0.35, T:0.35
Consensus pattern (17 bp):
GATATGTGGTCCTTCGG
Found at i:4329170 original size:18 final size:19
Alignment explanation
Indices: 4329142--4329185 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
4329132 TTAAGGAATG
*
4329142 ATATGTGGTCCTTCGGGAC
1 ATATATGGTCCTTCGGGAC
4329161 AT-TATGGTCCTTCGGGAC
1 ATATATGGTCCTTCGGGAC
4329179 ATATATG
1 ATATATG
4329186 TATTCTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.34
Consensus pattern (19 bp):
ATATATGGTCCTTCGGGAC
Found at i:4329286 original size:121 final size:121
Alignment explanation
Indices: 4328679--4329284 Score: 1095
Period size: 121 Copynumber: 5.0 Consensus size: 121
4328669 CGAGGGTCTA
4328679 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
4328744 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
* *
4328800 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAATCTGGTGAGACACAAACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* * *
4328865 GATCCTTGGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
4328921 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
*
4328986 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGATAT
66 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
4329042 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* * *
4329107 GATCCTTGGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
* *
4329163 TATGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
**
4329228 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACAT
66 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
4329284 T
1 T
4329285 ATTATATGGC
Statistics
Matches: 463, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 463 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
Found at i:4329359 original size:23 final size:23
Alignment explanation
Indices: 4329291--4329351 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
4329281 CATTATTATA
*
4329291 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
4329314 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
4329337 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
4329352 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:4333154 original size:22 final size:20
Alignment explanation
Indices: 4333129--4333173 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
4333119 AGAGTATCGG
*
4333129 TACCATAGTATAGTTTTATCAA
1 TACCATAGTAT-G-TGTATCAA
*
4333151 TACCATGGTATGTGTATCAA
1 TACCATAGTATGTGTATCAA
4333171 TAC
1 TAC
4333174 TAATGAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 1 0.05
22 10 0.48
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (20 bp):
TACCATAGTATGTGTATCAA
Found at i:4333577 original size:54 final size:54
Alignment explanation
Indices: 4333504--4333810 Score: 447
Period size: 54 Copynumber: 5.7 Consensus size: 54
4333494 GCATTGAGTA
* * *
4333504 TGCAATTCACAGAACTCATCATATGCTGATGAATAACTGTTTCGGCACTAAGTG
1 TGCAATTCACGGAATTCATCATATGTTGATGAATAACTGTTTCGGCACTAAGTG
* *
4333558 CGCAATTCACGGAATTCATCATATGTTGATGAATAAAC-GTTTCTGCACTAAGTG
1 TGCAATTCACGGAATTCATCATATGTTGATGAAT-AACTGTTTCGGCACTAAGTG
* **
4333612 TACAATTCACGGAATTCATCATATGTTGATGAATAA-TCGTTTCAACACTAAGTG
1 TGCAATTCACGGAATTCATCATATGTTGATGAATAACT-GTTTCGGCACTAAGTG
* *
4333666 TGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTG
1 TGCAATTCACGGAATTCATCATATGTTGATGAATAACTGTTTCGGCACTAAGTG
*
4333720 TGCAATTCACGGAATTCATCATATGTTGATGAATAACTGTTTCGTCACTAAGTG
1 TGCAATTCACGGAATTCATCATATGTTGATGAATAACTGTTTCGGCACTAAGTG
* * * *
4333774 TACAATTCACGAAATTCATCATATATTAATGAATAAC
1 TGCAATTCACGGAATTCATCATATGTTGATGAATAAC
4333811 CATTTCAGTA
Statistics
Matches: 228, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
53 2 0.01
54 223 0.98
55 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (54 bp):
TGCAATTCACGGAATTCATCATATGTTGATGAATAACTGTTTCGGCACTAAGTG
Found at i:4333771 original size:162 final size:162
Alignment explanation
Indices: 4333504--4333809 Score: 499
Period size: 162 Copynumber: 1.9 Consensus size: 162
4333494 GCATTGAGTA
*
4333504 TGCAATTCACAGAACTCATCATATGCTGATGAATAACTGTTTCGGCACTAAGTGCGCAATTCACG
1 TGCAATTCACAGAACTCATCATATGCTGATGAATAACCGTTTCGGCACTAAGTGCGCAATTCACG
*
4333569 GAATTCATCATATGTTGATGAATAAACGTTTCTGCACTAAGTGTACAATTCACGGAATTCATCAT
66 GAATTCATCATATGTTGATGAATAAACGTTTCTGCACTAAGTGTACAATTCACGAAATTCATCAT
* *
4333634 ATGTTGATGAATAATCGTTTCAACACTAAGTG
131 ATATTAATGAATAATCGTTTCAACACTAAGTG
** * * *
4333666 TGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAATTCACG
1 TGCAATTCACAGAACTCATCATATGCTGATGAATAACCGTTTCGGCACTAAGTGCGCAATTCACG
4333731 GAATTCATCATATGTTGATGAAT-AACTGTTTC-GTCACTAAGTGTACAATTCACGAAATTCATC
66 GAATTCATCATATGTTGATGAATAAAC-GTTTCTG-CACTAAGTGTACAATTCACGAAATTCATC
4333794 ATATATTAATGAATAA
129 ATATATTAATGAATAA
4333810 CCATTTCAGT
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
161 4 0.03
162 129 0.97
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (162 bp):
TGCAATTCACAGAACTCATCATATGCTGATGAATAACCGTTTCGGCACTAAGTGCGCAATTCACG
GAATTCATCATATGTTGATGAATAAACGTTTCTGCACTAAGTGTACAATTCACGAAATTCATCAT
ATATTAATGAATAATCGTTTCAACACTAAGTG
Found at i:4333810 original size:108 final size:108
Alignment explanation
Indices: 4333504--4333861 Score: 466
Period size: 108 Copynumber: 3.3 Consensus size: 108
4333494 GCATTGAGTA
* * * *
4333504 TGCAATTCACAGAACTCATCATATGCTGATGAATAACTGTTTCGGCACTAAGTGCGCAATTCACG
1 TGCAATTCACAGAATTCATCATATGTTGATGAATAACTGTTTCGACACTAAGTGTGCAATTCACG
* *
4333569 GAATTCATCATATGTTGATGAATAAACGTTTCTGCACTAAGTG
66 GAATTCATCATATGTTGATGAATAACCGTTTCAGCACTAAGTG
* * * *
4333612 TACAATTCACGGAATTCATCATATGTTGATGAATAA-TCGTTTCAACACTAAGTGTGCAATTCAT
1 TGCAATTCACAGAATTCATCATATGTTGATGAATAACT-GTTTCGACACTAAGTGTGCAATTCAC
*
4333676 GGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTG
65 GGAATTCATCATATGTTGATGAATAACCGTTTCAGCACTAAGTG
* * *
4333720 TGCAATTCACGGAATTCATCATATGTTGATGAATAACTGTTTCGTCACTAAGTGTACAATTCACG
1 TGCAATTCACAGAATTCATCATATGTTGATGAATAACTGTTTCGACACTAAGTGTGCAATTCACG
* * * * * * *
4333785 AAATTCATCATATATTAATGAATAACCATTTCAGTACTATGTC
66 GAATTCATCATATGTTGATGAATAACCGTTTCAGCACTAAGTG
** * * *
4333828 TGCAAACCGCAGAATTCATAATATGTTTATGAAT
1 TGCAATTCACAGAATTCATCATATGTTGATGAAT
4333862 GGTCGTATGG
Statistics
Matches: 219, Mismatches: 29, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
107 1 0.00
108 217 0.99
109 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (108 bp):
TGCAATTCACAGAATTCATCATATGTTGATGAATAACTGTTTCGACACTAAGTGTGCAATTCACG
GAATTCATCATATGTTGATGAATAACCGTTTCAGCACTAAGTG
Found at i:4333845 original size:162 final size:162
Alignment explanation
Indices: 4333511--4333861 Score: 490
Period size: 162 Copynumber: 2.2 Consensus size: 162
4333501 GTATGCAATT
* * *
4333511 CACAGAACTCATCATATGCTGATGAATAACTGTTTCGGCACTAAGTGCGCAATTCACGGAATTCA
1 CACAGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGCGCAATTCACGGAATTCA
* * *
4333576 TCATATGTTGATGAATAAACGTTTCTGCACTAAGTGTACAATTCACGGAATTCATCATATGTTGA
66 TCATATGTTGATGAATAAACGTTTCTGCACTAAGTGTACAATTCACGAAATTCATCATATATTAA
* * * **
4333641 TGAATAATCGTTTCAACACTAAGTGTGCAATT
131 TGAATAACCATTTCAACACTAAGTCTGCAAAC
** *
4333673 CATGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAATTCACGGAATTCA
1 CACAGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGCGCAATTCACGGAATTCA
4333738 TCATATGTTGATGAAT-AACTGTTTC-GTCACTAAGTGTACAATTCACGAAATTCATCATATATT
66 TCATATGTTGATGAATAAAC-GTTTCTG-CACTAAGTGTACAATTCACGAAATTCATCATATATT
** *
4333801 AATGAATAACCATTTCAGTACTATGTCTGCAAAC
129 AATGAATAACCATTTCAACACTAAGTCTGCAAAC
* * *
4333835 CGCAGAATTCATAATATGTTTATGAAT
1 CACAGAATTCATCATATGTTGATGAAT
4333862 GGTCGTATGG
Statistics
Matches: 165, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
161 4 0.02
162 161 0.98
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (162 bp):
CACAGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGCGCAATTCACGGAATTCA
TCATATGTTGATGAATAAACGTTTCTGCACTAAGTGTACAATTCACGAAATTCATCATATATTAA
TGAATAACCATTTCAACACTAAGTCTGCAAAC
Found at i:4335966 original size:15 final size:15
Alignment explanation
Indices: 4335946--4335978 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
4335936 ATTTTTTATT
4335946 TTTATTATTT-ATTTA
1 TTTATT-TTTCATTTA
4335961 TTTATTTTTCATTTA
1 TTTATTTTTCATTTA
4335976 TTT
1 TTT
4335979 TAATTATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTTCATTTA
Found at i:4341941 original size:41 final size:41
Alignment explanation
Indices: 4341884--4341965 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
4341874 AACACAATAA
* * *
4341884 ATAATATCTAATTATTCAGTAATATGCATCTCGTTTTCCAT
1 ATAATATCCAATTATTCAGTAATATGCATCTCATTTCCCAT
*
4341925 ATAATATCCAATTATTCAGTAATATGTATCTCATTTCCCAT
1 ATAATATCCAATTATTCAGTAATATGCATCTCATTTCCCAT
4341966 GTAAATCAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (41 bp):
ATAATATCCAATTATTCAGTAATATGCATCTCATTTCCCAT
Found at i:4345165 original size:131 final size:131
Alignment explanation
Indices: 4344856--4345173 Score: 417
Period size: 131 Copynumber: 2.4 Consensus size: 131
4344846 CAATGTTCTT
* * * *
4344856 TCATGCCTTGAAA-CAATCATTTATTACTCAAATCAAAATGAAGAGATATTACTATTTCGTCTTA
1 TCATGCCTT-AAAGCAGTCATTTATTGCTCCAATCAAAATGAAGAGATATTACTATTTCATCTTA
* * * **
4344920 AAATTCAATATCGATTCGAGTGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGATT
65 AAAATCAATATCGATTCGAGAGAAAAAGATAATATCTAATGATTTCCAATCGAGAATAAATGACC
4344985 TC
130 TC
* * *
4344987 TCATACCTTAAAGAAGTCATTTATTGCTCCAATCAAAATGAAGAGATATCACTATTTCATCTTAA
1 TCATGCCTTAAAGCAGTCATTTATTGCTCCAATCAAAATGAAGAGATATTACTATTTCATCTTAA
* * * *
4345052 AAATCAATATTGATTCGAGAGAAAAAGGTAATAT-TGAATTATTTTCAATCGAGAATAAATGACC
66 AAATCAATATCGATTCGAGAGAAAAAGATAATATCT-AATGATTTCCAATCGAGAATAAATGACC
4345116 TC
130 TC
** *
4345118 TCATGCCTTAAAGCAGTCATTTATTGCTCCAA-CTAAAACAAAAAGATATTACTATT
1 TCATGCCTTAAAGCAGTCATTTATTGCTCCAATC-AAAATGAAGAGATATTACTATT
4345174 CTCAATATCG
Statistics
Matches: 162, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
130 5 0.03
131 157 0.97
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (131 bp):
TCATGCCTTAAAGCAGTCATTTATTGCTCCAATCAAAATGAAGAGATATTACTATTTCATCTTAA
AAATCAATATCGATTCGAGAGAAAAAGATAATATCTAATGATTTCCAATCGAGAATAAATGACCT
C
Found at i:4347522 original size:3 final size:3
Alignment explanation
Indices: 4347514--4347578 Score: 78
Period size: 3 Copynumber: 22.0 Consensus size: 3
4347504 ACCTGTAAAT
* * *
4347514 ATA ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA ACA TTA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
4347561 ATA ATA TTA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA
4347579 TTATTATTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:4347579 original size:12 final size:12
Alignment explanation
Indices: 4347559--4347584 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4347549 TTAATAATAG
4347559 TAATAATATTAT
1 TAATAATATTAT
4347571 TAATAATATTAT
1 TAATAATATTAT
4347583 TA
1 TA
4347585 TTAAAAACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATAATATTAT
Found at i:4348245 original size:232 final size:232
Alignment explanation
Indices: 4347726--4348952 Score: 1622
Period size: 233 Copynumber: 5.3 Consensus size: 232
4347716 AGACTGACCG
* * * *
4347726 ATGACCTGAAGGGTTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTGCCAATT
1 ATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATT
*
4347791 TTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAA
66 TTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCATATTTAA
* * ** * *
4347856 ATCAGAAACTTTTCTCATTTTATTTTTCAAAAAAACATGTGAAAATGTCCTGCCTGAAGGTCTTG
131 ATGAGAAACTTTTCTCA---T-TTTTT--GAAAAACATGTGAAAACATCATGCC-GAAGGTCTTA
* * *
4347921 TGGAT-GACCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGT
189 TGGATAG-CCCGAAGGACTTATCATCTTGCTCGAAAGACTTACA-T
* * * *
4347966 -TGACCCGAAGGATTTAAGCATCATGCTAGAAAGACTTACTAATGGCCCAAAGGACTTACCCATT
1 ATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATT
* **
4348030 TTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTC-AAATTTTCAACCTTCATATTTAA
66 TTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCATATTTAA
* * * * * *
4348094 ATAAGAAACTTTTCTCATTTTTTGAGAGACATGTGAAAACATCTTTTCCAAAGGTCTTATGGATA
131 ATGAGAAACTTTTCTCATTTTTTGAAAAACATGTGAAAACATC-ATGCCGAAGGTCTTATGGATA
* ** *
4348159 GCCCAAAGGACTTATCATCTTATTTGAAAGACTTACAT
195 GCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAT
* *
4348197 ATGACCCGAAGGATTTAAGCATCATGCTCGAACGACTTACTGATGGCCCGAAGGACTTACCAAAT
1 ATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATT
* *
4348262 TTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAATTTTCAATTTTCATATTCAA
66 TTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCATATTTAA
* * *
4348327 ATGAGAAACTTTTCTCATTTTTTGAAAAGCATGTGAATACATCATGCCTGAAGGTCTTATGGATG
131 ATGAGAAACTTTTCTCATTTTTTGAAAAACATGTGAAAACATCATGCC-GAAGGTCTTATGGATA
* ** * * *
4348392 GCCCAAAATATTTATCATCTTGTTCGAAAGACTTACAG
195 GCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAT
*
4348430 ATGACCCGAAGGATTTAAGCACCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATT
1 ATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATT
* * * *
4348495 TTGAAAATAGTTTACTAGGTAAGAAACTTTTCTTTCTTTTCAAAAATTTAAATTTTCAGATTTAA
66 TTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCATATTTAA
* * * * *
4348560 ATGAGAAACTTTTCTAATTTTTTGAGAGACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATG
131 ATGAGAAACTTTTCTCATTTTTTGAAAAACATGTGAAAACATCATG-CCGAAGGTCTTATGGATA
* *
4348625 GCCCGAAGTACTTATCATCTTGCTCGAAAGACTTACAG
195 GCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAT
*
4348663 ATGATCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATT
1 ATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATT
* * *
4348728 TTGAAAATAGTTTACTATGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCATATTCAA
66 TTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCATATTTAA
* * *
4348793 ATGAGAAACTTTTCTCATTTTTTGAAAAACATGTGAAATCATCCTAT-TCAAAGGTCTTATGGAT
131 ATGAGAAACTTTTCTCATTTTTTGAAAAACATGTGAAAACAT-C-ATGCCGAAGGTCTTATGGAT
* * * * *
4348857 AACCCGAAGAACTTATCATCTTGATCGAAAGGCTTATAT
194 AGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAT
* * * * *
4348896 ATGACCCAAAGGATTTAATCATCATGCTCCAAA-A--AAATGATGGCCCGAAGGACTTAC
1 ATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
4348953 TAACTAAGAA
Statistics
Matches: 880, Mismatches: 99, Indels: 26
0.88 0.10 0.03
Matches are distributed among these distances:
230 21 0.02
231 1 0.00
232 160 0.18
233 556 0.63
234 8 0.01
235 2 0.00
238 35 0.04
239 97 0.11
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (232 bp):
ATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATT
TTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCATATTTAA
ATGAGAAACTTTTCTCATTTTTTGAAAAACATGTGAAAACATCATGCCGAAGGTCTTATGGATAG
CCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAT
Found at i:4360697 original size:131 final size:130
Alignment explanation
Indices: 4360456--4360787 Score: 407
Period size: 131 Copynumber: 2.5 Consensus size: 130
4360446 TAATTTTTAT
* * * * * * *
4360456 AGAGAAAATGATTATATATAATTATTTCTC-ATCGAAAATAAATGACATTTCATGCTTTAAAACA
1 AGAGAAAATGATAATATCTAATTATTTC-CAATCTAGAATAAATGACCTCTCATGCCTTAAAACA
* * *
4360520 ATCATTTATTACTCCAATCAAAATGAAGAGATATTACTATTTCGTCTTAAAATTCAATATAGATT
65 GTCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTCCGTCTTAAAA-TCAATATAGATT
4360585 CG
129 CG
* * * *
4360587 AGTGAAAATGATAATATCTAATTATTTCCAATCTAGAATAAATAACCTCTAATACCTTAAAACAG
1 AGAGAAAATGATAATATCTAATTATTTCCAATCTAGAATAAATGACCTCTCATGCCTTAAAACAG
* ** * * *
4360652 TCATTTATTGCTCCAATTGAAATGAAGAGTTATCATTATTCCGTCTTAAAATCAATATTGATTCG
66 TCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTCCGTCTTAAAATCAATATAGATTCG
* * * *
4360717 AGAGAAAACGGTAATATCGAATTATTTCCAAT-TGAGAATAAATGACCTCTCATGCCTTAAAGCA
1 AGAGAAAATGATAATATCTAATTATTTCCAATCT-AGAATAAATGACCTCTCATGCCTTAAAACA
4360781 GTCATTT
65 GTCATTT
4360788 CCAGCCGAAT
Statistics
Matches: 171, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
129 1 0.01
130 75 0.44
131 95 0.56
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (130 bp):
AGAGAAAATGATAATATCTAATTATTTCCAATCTAGAATAAATGACCTCTCATGCCTTAAAACAG
TCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTCCGTCTTAAAATCAATATAGATTCG
Found at i:4360765 original size:130 final size:131
Alignment explanation
Indices: 4360512--4360787 Score: 376
Period size: 130 Copynumber: 2.1 Consensus size: 131
4360502 ATTTCATGCT
* * *
4360512 TTAAAACAATCATTTATTACTCCAATCAAAATGAAGAGATATTACTATTTCGTCTTAAAATTCAA
1 TTAAAACAGTCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTCCGTCTTAAAATTCAA
* * *
4360577 TATAGATTCGAGTGAAAATGATAATATCTAATTATTTCCAATCTAGAATAAATAACCTCTAATAC
66 TATAGATTCGAGAGAAAACGATAATATCGAATTATTTCCAATCTAGAATAAATAACCTCTAATAC
4360642 C
131 C
* ** * *
4360643 TTAAAACAGTCATTTATTGCTCCAATTGAAATGAAGAGTTATCATTATTCCGTCTTAAAA-TCAA
1 TTAAAACAGTCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTCCGTCTTAAAATTCAA
* * * * *
4360707 TATTGATTCGAGAGAAAACGGTAATATCGAATTATTTCCAAT-TGAGAATAAATGACCTCTCATG
66 TATAGATTCGAGAGAAAACGATAATATCGAATTATTTCCAATCT-AGAATAAATAACCTCTAATA
4360771 CC
130 CC
*
4360773 TTAAAGCAGTCATTT
1 TTAAAACAGTCATTT
4360788 CCAGCCGAAT
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
129 1 0.01
130 74 0.58
131 52 0.41
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (131 bp):
TTAAAACAGTCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTCCGTCTTAAAATTCAA
TATAGATTCGAGAGAAAACGATAATATCGAATTATTTCCAATCTAGAATAAATAACCTCTAATAC
C
Found at i:4371523 original size:32 final size:32
Alignment explanation
Indices: 4371487--4371573 Score: 83
Period size: 32 Copynumber: 2.7 Consensus size: 32
4371477 GTAGGCCCTG
4371487 CGGCCCTAAGATGTGTTCTTAGGTAGGCT-TCA
1 CGGCCCTAAGATGT-TTCTTAGGTAGGCTCTCA
* * *
4371519 CGGCCCCGAA-ATCTATT-TTGGGTAGGCTCTCA
1 CGG-CCCTAAGATGT-TTCTTAGGTAGGCTCTCA
4371551 -GGCCCTAAGATGTTTCCTTAGGT
1 CGGCCCTAAGATGTTT-CTTAGGT
4371574 TAACTCTTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
30 7 0.16
31 15 0.35
32 16 0.37
33 5 0.12
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.31
Consensus pattern (32 bp):
CGGCCCTAAGATGTTTCTTAGGTAGGCTCTCA
Found at i:4373555 original size:18 final size:18
Alignment explanation
Indices: 4373532--4373568 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4373522 GTCACAACCA
4373532 GACCCGA-CCTGTTGACCC
1 GACCCGATCC-GTTGACCC
4373550 GACCCGATCCGTTGACCC
1 GACCCGATCCGTTGACCC
4373568 G
1 G
4373569 TTGACCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.16, C:0.43, G:0.24, T:0.16
Consensus pattern (18 bp):
GACCCGATCCGTTGACCC
Found at i:4376055 original size:12 final size:12
Alignment explanation
Indices: 4376038--4376068 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
4376028 GTATAAAGGA
4376038 TTCCTGAACGTT
1 TTCCTGAACGTT
4376050 TTCCTGAACGTT
1 TTCCTGAACGTT
4376062 TTCCTGA
1 TTCCTGA
4376069 TGCATATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (12 bp):
TTCCTGAACGTT
Found at i:4376531 original size:63 final size:63
Alignment explanation
Indices: 4376448--4376571 Score: 146
Period size: 63 Copynumber: 2.0 Consensus size: 63
4376438 CTAATGTGAC
* * * *
4376448 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCT-ATGGCCCTAAGATGTGT
1 TCTTAGGTAGGCTCTACGGCCCCGAAATCTA-TCTCGAGTAGGCCCTCA-GGCCCTAAGATGTGT
* *
4376511 TCTTAGGTAGGC-CTCACGGCCCCGAAATCTATCTTGAGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCTCT-ACGGCCCCGAAATCTATCTCGAGTAGGCCCTCAGGCCCTAAGATGT
4376572 TCACTTAGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
62 2 0.04
63 48 0.92
64 2 0.04
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCTCTACGGCCCCGAAATCTATCTCGAGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:4378463 original size:31 final size:31
Alignment explanation
Indices: 4378428--4378494 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
4378418 TCAAATGGTC
*
4378428 GGGGACCATATTGCAAATAGACTAAATGTTG
1 GGGGACCATATTGCAAACAGACTAAATGTTG
4378459 GGGGACCATATTGCAAACAGACTAAATGTTG
1 GGGGACCATATTGCAAACAGACTAAATGTTG
4378490 GGGGA
1 GGGGA
4378495 TTGTATTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.22
Consensus pattern (31 bp):
GGGGACCATATTGCAAACAGACTAAATGTTG
Found at i:4378975 original size:18 final size:18
Alignment explanation
Indices: 4378952--4378986 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4378942 GTAAATTCCA
4378952 AATTATATGTTTAATTTC
1 AATTATATGTTTAATTTC
* *
4378970 AATTATTTTTTTAATTT
1 AATTATATGTTTAATTT
4378987 GGTTATTGCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
AATTATATGTTTAATTTC
Found at i:4379599 original size:87 final size:87
Alignment explanation
Indices: 4379437--4379668 Score: 251
Period size: 87 Copynumber: 2.7 Consensus size: 87
4379427 ATAATTTGTT
* * * * * * * *
4379437 AAAATTAATCAAGTTAATAATTAGACCCTCAACTTTAGATTCTT-GTCAATTTAGTCCTTTAGCT
1 AAAATTAATTAGGTCAATAATTATAGCCTCAATTTTAGATTCTTCGT-AATTTAGTCCTTAAACT
4379501 CTTTTACTAGATA-TCATTTTAA-
65 CTTTTACTAGATACTC-TTTTAAC
* *
4379523 AATAATTAATTAGGTCAATAATTATAGCCTCAATTTTAAATCCTTCGTAATTTAGTCCTTAAACT
1 AA-AATTAATTAGGTCAATAATTATAGCCTCAATTTTAGATTCTTCGTAATTTAGTCCTTAAACT
*
4379588 -TTTTAATTAGATACTCTTTTAAC
65 CTTTT-ACTAGATACTCTTTTAAC
* * *
4379611 AAAATTAATTAGGTTAATGATTATAGCCTGAATTTTAGATTCTTC--AGATTTAGTCCTT
1 AAAATTAATTAGGTCAATAATTATAGCCTCAATTTTAGATTCTTCGTA-ATTTAGTCCTT
4379669 CTGGAAATTT
Statistics
Matches: 124, Mismatches: 16, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
85 1 0.01
86 17 0.14
87 100 0.81
88 6 0.05
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (87 bp):
AAAATTAATTAGGTCAATAATTATAGCCTCAATTTTAGATTCTTCGTAATTTAGTCCTTAAACTC
TTTTACTAGATACTCTTTTAAC
Found at i:4391602 original size:13 final size:14
Alignment explanation
Indices: 4391576--4391610 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
4391566 AAAATAAATT
4391576 ATATTTTTTGAAAA
1 ATATTTTTTGAAAA
4391590 ATATTTTTT-AAAA
1 ATATTTTTTGAAAA
4391603 ATCATTTT
1 AT-ATTTT
4391611 ACAATGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (14 bp):
ATATTTTTTGAAAA
Found at i:4391749 original size:19 final size:20
Alignment explanation
Indices: 4391714--4391751 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4391704 TTTTATTAAC
4391714 AAAATAATAATAATAATTTG
1 AAAATAATAATAATAATTTG
*
4391734 AAAATATTAA-AATAATTT
1 AAAATAATAATAATAATTT
4391752 ATTTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAATAATAATAATAATTTG
Found at i:4391846 original size:33 final size:33
Alignment explanation
Indices: 4391800--4391953 Score: 108
Period size: 33 Copynumber: 4.7 Consensus size: 33
4391790 TATATCTACA
*
4391800 ATTTTA-T-AAATAAAAATATTAAGATTATTAT
1 ATTTTATTAAAATAAAAATATTAAAATTATTAT
*
4391831 ATTTTATTAAAATAAAATTATTATAAATTA-TATT
1 ATTTTATTAAAATAAAAATATTA-AAATTATTA-T
* * *
4391865 ACTTATTTATTGAAATAAAAATAAT-ATATTATTA-
1 A--T-TTTATTAAAATAAAAATATTAAAATTATTAT
* **
4391899 ATTACTTATTAAAATAATAATATTAAAAAAATTAT
1 ATT--TTATTAAAATAAAAATATTAAAATTATTAT
*
4391934 A--ATATTAAAATAAAAA-ATTA
1 ATTTTATTAAAATAAAAATATTA
4391954 TATTATATTT
Statistics
Matches: 97, Mismatches: 14, Indels: 25
0.71 0.10 0.18
Matches are distributed among these distances:
30 4 0.04
31 20 0.21
32 2 0.02
33 31 0.32
34 14 0.14
35 6 0.06
36 3 0.03
37 17 0.18
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (33 bp):
ATTTTATTAAAATAAAAATATTAAAATTATTAT
Found at i:4391874 original size:37 final size:37
Alignment explanation
Indices: 4391833--4391908 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
4391823 ATTATTATAT
* *
4391833 TTTATTAAAATAAAATTATTATA-AATTATATTACTTA
1 TTTATTAAAATAAAAATAATATATAATTA-ATTACTTA
* *
4391870 TTTATTGAAATAAAAATAATATATTATTAATTACTTA
1 TTTATTAAAATAAAAATAATATATAATTAATTACTTA
4391907 TT
1 TT
4391909 AAAATAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 30 0.88
38 4 0.12
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (37 bp):
TTTATTAAAATAAAAATAATATATAATTAATTACTTA
Found at i:4391935 original size:17 final size:17
Alignment explanation
Indices: 4391909--4391958 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
4391899 ATTACTTATT
4391909 AAAATAATAATATTAAA
1 AAAATAATAATATTAAA
*
4391926 AAAATTATAATATTAAA
1 AAAATAATAATATTAAA
* *
4391943 ATAAAAAATTATATTA
1 A-AAATAATAATATTA
4391959 TATTTTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATAATAATATTAAA
Found at i:4391937 original size:23 final size:21
Alignment explanation
Indices: 4391906--4391955 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
4391896 TTAATTACTT
* *
4391906 ATTAAAATAATAATATTAAAAAA
1 ATTATAATAATAA-AAT-AAAAA
*
4391929 ATTATAATATTAAAATAAAAA
1 ATTATAATAATAAAATAAAAA
4391950 ATTATA
1 ATTATA
4391956 TTATATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.46
22 2 0.08
23 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTATAATAATAAAATAAAAA
Found at i:4392033 original size:21 final size:21
Alignment explanation
Indices: 4392007--4392053 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
4391997 TTTTAATGAA
4392007 ATTAATAAATAA-TATTAAATT
1 ATTAATAAATAATTA-TAAATT
* *
4392028 ATTAATAATTAATTATATATT
1 ATTAATAAATAATTATAAATT
4392049 ATTAA
1 ATTAA
4392054 AATAAAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTAATAAATAATTATAAATT
Found at i:4396298 original size:52 final size:52
Alignment explanation
Indices: 4396219--4396320 Score: 132
Period size: 52 Copynumber: 2.0 Consensus size: 52
4396209 CAAATCTGAA
* * * *** *
4396219 ATTTTTAGATATAACAATCTTCTTTTAATTGTTGAAGTCGTTTGATTCGTTT
1 ATTTTTAGAGATAACAATATTCCTTTAATCACTGAAATCGTTTGATTCGTTT
*
4396271 ATTTTTAGAGATAATAATATTCCTTTAATCACTGAAATCGTTTGATTCGT
1 ATTTTTAGAGATAACAATATTCCTTTAATCACTGAAATCGTTTGATTCGT
4396321 GCATCCTGCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (52 bp):
ATTTTTAGAGATAACAATATTCCTTTAATCACTGAAATCGTTTGATTCGTTT
Found at i:4396689 original size:12 final size:12
Alignment explanation
Indices: 4396660--4396692 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
4396650 ATCATTCAAT
*
4396660 TATTATTTTTAA
1 TATTATATTTAA
4396672 -ATTATATTTAA
1 TATTATATTTAA
4396683 TATTATATTT
1 TATTATATTT
4396693 TTTATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTATATTTAA
Found at i:4398776 original size:28 final size:29
Alignment explanation
Indices: 4398752--4398823 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 29
4398742 ATGAAATTAG
4398752 AATAACAT-AATTAAAGGGCAGAAATGCA
1 AATAACATAAATTAAAGGGCAGAAATGCA
* * *
4398780 AATGACATAAATTAAAGGG-AAAAATGTA
1 AATAACATAAATTAAAGGGCAGAAATGCA
* *
4398808 AATGACAAAAATTAAA
1 AATAACATAAATTAAA
4398824 AGAAATCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 29 0.74
29 10 0.26
ACGTcount: A:0.58, C:0.07, G:0.15, T:0.19
Consensus pattern (29 bp):
AATAACATAAATTAAAGGGCAGAAATGCA
Found at i:4398825 original size:29 final size:29
Alignment explanation
Indices: 4398760--4398823 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
4398750 AGAATAACAT
* *
4398760 AATTAAAGGGCAGAAATGCAAATGACATA
1 AATTAAAGGGCAAAAATGCAAATGACAAA
*
4398789 AATTAAAGGG-AAAAATGTAAATGACAAA
1 AATTAAAGGGCAAAAATGCAAATGACAAA
4398817 AATTAAA
1 AATTAAA
4398824 AGAAATCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.19
Consensus pattern (29 bp):
AATTAAAGGGCAAAAATGCAAATGACAAA
Found at i:4398998 original size:31 final size:31
Alignment explanation
Indices: 4398958--4399018 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
4398948 ATTAGTGGTT
*
4398958 AGTGATTAATAAATTAGCAAAGTTAACAGTA
1 AGTGATTAATAAATTAGAAAAGTTAACAGTA
* *
4398989 AGTGGTTAATAAATTAGAAAAGTTAGCAGT
1 AGTGATTAATAAATTAGAAAAGTTAACAGT
4399019 TAAATTAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.30
Consensus pattern (31 bp):
AGTGATTAATAAATTAGAAAAGTTAACAGTA
Found at i:4401864 original size:4 final size:4
Alignment explanation
Indices: 4401855--4401885 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4401845 TTGGACCTCC
4401855 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
4401886 TTCTTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:4417624 original size:21 final size:21
Alignment explanation
Indices: 4417581--4417624 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4417571 CGATGAACTA
*
4417581 TGGCTTTGCAACAATGTTGCT
1 TGGCTTTGCAACAATGTTCCT
*
4417602 TGGCTTTGTAACAAAT-TTCCT
1 TGGCTTTGCAAC-AATGTTCCT
4417623 TG
1 TG
4417625 ATTTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (21 bp):
TGGCTTTGCAACAATGTTCCT
Found at i:4425327 original size:20 final size:18
Alignment explanation
Indices: 4425295--4425343 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 18
4425285 AAAAAGATTG
4425295 AATTGAA-AAAATTTAAA
1 AATTGAATAAAATTTAAA
4425312 AAGTTGAACTAAAATTTAAA
1 AA-TTGAA-TAAAATTTAAA
*
4425332 TATTGAATAAAA
1 AATTGAATAAAA
4425344 GAATAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 10 0.36
19 5 0.18
20 11 0.39
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (18 bp):
AATTGAATAAAATTTAAA
Found at i:4426776 original size:42 final size:42
Alignment explanation
Indices: 4426680--4426880 Score: 228
Period size: 42 Copynumber: 4.8 Consensus size: 42
4426670 TGACCCAAAG
* * * * *
4426680 TGATGTTGATCCAACTCTTTATGCGATGGACAAGCCAATATGA
1 TGATGCTGATCCAACTCCTTATGTGATGGACGAG-CAAAATGA
* * * *
4426723 T-AT--TGATCCAACTCCATATGTGATGGATGGGCAAACTGA
1 TGATGCTGATCCAACTCCTTATGTGATGGACGAGCAAAATGA
* *
4426762 TGATGCTGATCCAACTCCTTTTATGATGGACGAGCAAAATGA
1 TGATGCTGATCCAACTCCTTATGTGATGGACGAGCAAAATGA
* *
4426804 TGATGCTGATCCAATTCCTTATGTGATGGACGAACAAAATGA
1 TGATGCTGATCCAACTCCTTATGTGATGGACGAGCAAAATGA
* * *
4426846 TGATGCTGATCCAACTTCTTATGCGATGGATGAGC
1 TGATGCTGATCCAACTCCTTATGTGATGGACGAGC
4426881 CAAGGTCATG
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
39 7 0.05
40 24 0.18
42 100 0.76
43 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (42 bp):
TGATGCTGATCCAACTCCTTATGTGATGGACGAGCAAAATGA
Found at i:4427066 original size:117 final size:117
Alignment explanation
Indices: 4426902--4427501 Score: 674
Period size: 117 Copynumber: 5.1 Consensus size: 117
4426892 TGTTCCAACT
4426902 CTTCTATGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCAT
1 CTTCTATGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCAT
* * *
4426967 CGAATTAGTTCTTCTCATTATTAACTCTCTACTGGAAATGTTGATCCACCTC
66 CGAATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTC
* *
4427019 CTTCTATGATGGAATTGAGCTAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCAC-CA
1 CTTCTATGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC-CTCA
* * * * *
4427083 TCAAATGAGTTCTTCTCATTACGAACCCTTCCACT-AAAATGTTGATCTACCTC
65 TCGAATGAGTTCTTCTCATTATGAACTC-TCCACTGGAAATGTTGATCCACCTC
* * * * * *
4427136 CTTCTATGATGTAATCGAACCAAGGTTGAACAAGTTCTTCTTATTATAAACTTCTTCCCCCTCAT
1 CTTCTATGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCAT
* * ** * * *
4427201 CGGATGAGTTCTTCTTATTATGAACTCTTAATTGAAAATGTCGATCCACCTC
66 CGAATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTC
* * * * **
4427253 AATT-TTTGATGGAATCAAGGC-AGGGTTGAACAAGTTCTTCTCATTATGAACTTAGTCT-CCTC
1 -CTTCTATGATGGAATCGA-GCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC
* * *
4427315 ATCAAATGAGTTATTCTCATT-TCGAACCCTTCCACT-GAAATGTTGATCCACCTC
64 ATCGAATGAGTTCTTCTCATTAT-GAACTC-TCCACTGGAAATGTTGATCCACCTC
* * * * * **
4427369 TTTCTGTGATGGAATGGAACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTTGT
1 CTTCTATGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCAT
* * * * * *
4427434 TGGATGAGTTCTTCTCATTTTCAACTCTGCACTGGAAATGTTGATTCACCTC
66 CGAATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTC
* *
4427486 CTTATTTGATGGAATC
1 CTTCTATGATGGAATC
4427502 AATCGTAGTG
Statistics
Matches: 400, Mismatches: 70, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
115 4 0.01
116 97 0.24
117 289 0.72
118 10 0.03
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (117 bp):
CTTCTATGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCAT
CGAATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTC
Found at i:4427441 original size:233 final size:232
Alignment explanation
Indices: 4426895--4427503 Score: 792
Period size: 233 Copynumber: 2.6 Consensus size: 232
4426885 GTCATGCTGT
* *
4426895 TCCAACTCTTCTATGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
1 TCCACCTCTTCTATGATGGAATCGAACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
* * * * *
4426960 CCCTCATCGAATTAGTTCTTCTCATTATTAACTCTCTACTGGAAATGTTGATCCACCTCCTTCTA
66 CCCTCATCGGATGAGTTCTTCTCATTATCAACTCT-TACTGGAAATGTTGATCCACCTCCTTATT
** * **
4427025 TGATGGAATTGAGCTAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCACCATCAAATG
130 TGATGGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTAGTCTCCACCATCAAATG
*
4427090 AGTTCTTCTCATTACGAACCCTTCCACTAAAATGTTGA
195 AGTTATTCTCATTACGAACCCTTCCACTAAAATGTTGA
* * * * *
4427128 TCTACCTCCTTCTATGATGTAATCGAACCAAGGTTGAACAAGTTCTTCTTATTATAAACTTCTTC
1 TCCACCT-CTTCTATGATGGAATCGAACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
* * * * * * *
4427193 CCCCTCATCGGATGAGTTCTTCTTATTATGAACTCTTAATTGAAAATGTCGATCCACCTCAATT-
65 TCCCTCATCGGATGAGTTCTTCTCATTATCAACTCTT-ACTGGAAATGTTGATCCACCTC-CTTA
* *
4427257 TTTGATGGAATCAAGGC-AGGGTTGAACAAGTTCTTCTCATTATGAACTTAGTCTCC-TCATCAA
128 TTTGATGGAATCAA-GCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTAGTCTCCACCATCAA
* *
4427320 ATGAGTTATTCTCATTTCGAACCCTTCCACTGAAATGTTGA
192 ATGAGTTATTCTCATTACGAACCCTTCCACTAAAATGTTGA
* * *
4427361 TCCACCTCTTTCTGTGATGGAATGGAACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTC
1 TCCACCTC-TTCTATGATGGAATCGAACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
** * * * *
4427426 TCCCTTGTTGGATGAGTTCTTCTCATTTTCAACTCTGCACTGGAAATGTTGATTCACCTCCTTAT
65 TCCCTCATCGGATGAGTTCTTCTCATTATCAACTCT-TACTGGAAATGTTGATCCACCTCCTTAT
4427491 TTGATGGAATCAA
129 TTGATGGAATCAA
4427504 TCGTAGTGTT
Statistics
Matches: 321, Mismatches: 48, Indels: 14
0.84 0.13 0.04
Matches are distributed among these distances:
232 3 0.01
233 166 0.52
234 148 0.46
235 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.37
Consensus pattern (232 bp):
TCCACCTCTTCTATGATGGAATCGAACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
CCCTCATCGGATGAGTTCTTCTCATTATCAACTCTTACTGGAAATGTTGATCCACCTCCTTATTT
GATGGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTAGTCTCCACCATCAAATGA
GTTATTCTCATTACGAACCCTTCCACTAAAATGTTGA
Found at i:4428508 original size:18 final size:18
Alignment explanation
Indices: 4428485--4428522 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4428475 TTGGGAATGG
4428485 TTGCAAGAGCAGT-CTTCA
1 TTGCAAGAGCA-TCCTTCA
*
4428503 TTGCAAGGGCATCCTTCA
1 TTGCAAGAGCATCCTTCA
4428521 TT
1 TT
4428523 CTCTTCCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (18 bp):
TTGCAAGAGCATCCTTCA
Found at i:4429338 original size:54 final size:54
Alignment explanation
Indices: 4429272--4429571 Score: 329
Period size: 54 Copynumber: 5.6 Consensus size: 54
4429262 TTAGACTTGG
* * * * * *
4429272 CTTCTTTAAAAATTCATTTAAAAATATCAAGAAACCCCTGAAAGTCAGGCTTAT
1 CTTCTTTCAAAATTCATTTGAAGACATCAAGAAACCCCTAAAAATCAGGCTTAT
* * * * *
4429326 -TCTCTTTCAAAATCCATTTGAAGACATCAAGAATCCCCTAAAATTTAGGCTTAG
1 CT-TCTTTCAAAATTCATTTGAAGACATCAAGAAACCCCTAAAAATCAGGCTTAT
* * * * *
4429380 CCTCTTTCAAAA-TAATTTGAAGACATCAAGAAACCCATAAAAATTAGGCTTAG
1 CTTCTTTCAAAATTCATTTGAAGACATCAAGAAACCCCTAAAAATCAGGCTTAT
* *
4429433 CTTCTTTCAAAATTCATTTGAAGACATCAAGAAATCCCTAAAAATCATGCTTAT
1 CTTCTTTCAAAATTCATTTGAAGACATCAAGAAACCCCTAAAAATCAGGCTTAT
* * *
4429487 CTTCTTTCAAAATTCATTTGAAAACATCAAGAAACCCCTAAAAATTAGCCTTAGT
1 CTTCTTTCAAAATTCATTTGAAGACATCAAGAAACCCCTAAAAATCAGGCTTA-T
* * *
4429542 -TTCTTTGAAAGATTCTTTTGAA-ACAACAAG
1 CTTCTTTCAAA-ATTCATTTGAAGACATCAAG
4429572 CTAATCCTCA
Statistics
Matches: 210, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
53 48 0.23
54 151 0.72
55 11 0.05
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
CTTCTTTCAAAATTCATTTGAAGACATCAAGAAACCCCTAAAAATCAGGCTTAT
Found at i:4429429 original size:107 final size:108
Alignment explanation
Indices: 4429256--4429547 Score: 331
Period size: 107 Copynumber: 2.7 Consensus size: 108
4429246 AAGCAACGCT
* * * * * * * * * * *
4429256 TAAAAATTAGACTTGGCTTCTTTAAAAATTCATTTAAAAATATCAAGAAACCCCTGAAAGTCAGG
1 TAAAAATCAGGCTTAGCCTCTTTCAAAATTAATTTGAAAACATCAAGAAACCCCTAAAAATTAGG
4429321 CTTATTCTCTTTCAAAATCCATTTGAAGACATCAAG-AATCCCC
66 CTTATTCTCTTTCAAAATCCATTTGAAGACATCAAGAAAT-CCC
* * * *
4429364 TAAAATTTAGGCTTAGCCTCTTTCAAAA-TAATTTGAAGACATCAAGAAACCCATAAAAATTAGG
1 TAAAAATCAGGCTTAGCCTCTTTCAAAATTAATTTGAAAACATCAAGAAACCCCTAAAAATTAGG
* *
4429428 CTTA-GCTTCTTTCAAAATTCATTTGAAGACATCAAGAAATCCC
66 CTTATTC-TCTTTCAAAATCCATTTGAAGACATCAAGAAATCCC
* * * * *
4429471 TAAAAATCATGCTTATCTTCTTTCAAAATTCATTTGAAAACATCAAGAAACCCCTAAAAATTAGC
1 TAAAAATCAGGCTTAGCCTCTTTCAAAATTAATTTGAAAACATCAAGAAACCCCTAAAAATTAGG
4429536 CTTAGTT-TCTTT
66 CTTA-TTCTCTTT
4429548 GAAAGATTCT
Statistics
Matches: 154, Mismatches: 25, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
106 1 0.01
107 86 0.56
108 67 0.44
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (108 bp):
TAAAAATCAGGCTTAGCCTCTTTCAAAATTAATTTGAAAACATCAAGAAACCCCTAAAAATTAGG
CTTATTCTCTTTCAAAATCCATTTGAAGACATCAAGAAATCCC
Found at i:4429507 original size:161 final size:161
Alignment explanation
Indices: 4429242--4429540 Score: 420
Period size: 161 Copynumber: 1.9 Consensus size: 161
4429232 TTACAGTTAT
* * * * *
4429242 CATCAAGCAACGCTTAAAAATTAGACTTGGCTTCTTTAAAAATTCATTTAAAAATATCAAGAAAC
1 CATCAAGAAACCCATAAAAATTAGACTTAGCTTCTTTAAAAATTCATTTAAAAACATCAAGAAAC
* * * * *
4429307 CCCTGAAAGTCAGGCTTATTCTCTTTCAAAATCCATTTGAAGACATCAAGAATCCCCTAAAATTT
66 CCCTAAAAATCAGGCTTATTCTCTTTCAAAATCCATTTGAAAACATCAAGAAACCCCTAAAAATT
*
4429372 AGGCTTAGCCTCTTTCAAAATAATTTGAAGA
131 AGCCTTAGCCTCTTTCAAAATAATTTGAAGA
* * * * *
4429403 CATCAAGAAACCCATAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCAAGAAAT
1 CATCAAGAAACCCATAAAAATTAGACTTAGCTTCTTTAAAAATTCATTTAAAAACATCAAGAAAC
* *
4429468 CCCTAAAAATCATGCTTA-TCTTCTTTCAAAATTCATTTGAAAACATCAAGAAACCCCTAAAAAT
66 CCCTAAAAATCAGGCTTATTC-TCTTTCAAAATCCATTTGAAAACATCAAGAAACCCCTAAAAAT
4429532 TAGCCTTAG
130 TAGCCTTAG
4429541 TTTCTTTGAA
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
160 2 0.02
161 117 0.98
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (161 bp):
CATCAAGAAACCCATAAAAATTAGACTTAGCTTCTTTAAAAATTCATTTAAAAACATCAAGAAAC
CCCTAAAAATCAGGCTTATTCTCTTTCAAAATCCATTTGAAAACATCAAGAAACCCCTAAAAATT
AGCCTTAGCCTCTTTCAAAATAATTTGAAGA
Found at i:4431016 original size:28 final size:28
Alignment explanation
Indices: 4430985--4431048 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
4430975 GGAATGTAGA
*
4430985 GTGTTTCAGGTTAATTTGGGGAGGTAAT
1 GTGTTTCAGGTTAATTTAGGGAGGTAAT
4431013 GTGTTTCAGGTTAATTTAGGGAGGTAAT
1 GTGTTTCAGGTTAATTTAGGGAGGTAAT
4431041 GTGTTTCA
1 GTGTTTCA
4431049 AGTTGGCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.22, C:0.05, G:0.33, T:0.41
Consensus pattern (28 bp):
GTGTTTCAGGTTAATTTAGGGAGGTAAT
Found at i:4431754 original size:20 final size:20
Alignment explanation
Indices: 4431726--4431784 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
4431716 TCCTTTTTTA
*
4431726 CTTTCTTTTTTCTCTTCTTT
1 CTTTATTTTTTCTCTTCTTT
*
4431746 CTTTATTTTATCTCTT-TTT
1 CTTTATTTTTTCTCTTCTTT
* *
4431765 -TATGTTTTTTCTTCTTCTTT
1 CTTTATTTTTTC-TCTTCTTT
4431785 TTGCTATATC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 8 0.25
19 7 0.22
20 17 0.53
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.75
Consensus pattern (20 bp):
CTTTATTTTTTCTCTTCTTT
Found at i:4431761 original size:29 final size:28
Alignment explanation
Indices: 4431703--4431765 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
4431693 TTTTTTGCTT
*
4431703 TTTTTTCTCTCTCTCCTTTTTTACTTTC
1 TTTTTTCTCTCTCTCCTTTTTTACTCTC
* *
4431731 TTTTTTCTCTTCTTTCTTTATTTTA-TCTC
1 TTTTTTCTC-TCTCTCCTT-TTTTACTCTC
4431760 TTTTTT
1 TTTTTT
4431766 ATGTTTTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 9 0.30
29 16 0.53
30 5 0.17
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (28 bp):
TTTTTTCTCTCTCTCCTTTTTTACTCTC
Found at i:4431797 original size:35 final size:37
Alignment explanation
Indices: 4431732--4431800 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 37
4431722 TTTACTTTCT
* *
4431732 TTTTTCTCTTCTTTCTTTATTTTATCTCTTTTTTATG
1 TTTTTCTCTTCTTTCTTTATTCTATATCTTTTTTATG
4431769 TTTTT-TCTTC-TTCTTT-TTGCTATATCTTTTTT
1 TTTTTCTCTTCTTTCTTTATT-CTATATCTTTTTT
4431801 CTCTTTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 2 0.07
35 17 0.59
36 5 0.17
37 5 0.17
ACGTcount: A:0.07, C:0.16, G:0.03, T:0.74
Consensus pattern (37 bp):
TTTTTCTCTTCTTTCTTTATTCTATATCTTTTTTATG
Found at i:4439656 original size:26 final size:24
Alignment explanation
Indices: 4439610--4439662 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
4439600 AATAATTTCG
4439610 AATATTTAATTTTAATTAAATAAATA
1 AATATTTAA-TTTAATTAAAT-AATA
4439636 AATATTTAA-TTAATTTGAAATAATA
1 AATATTTAATTTAA-TT-AAATAATA
4439661 AA
1 AA
4439663 ATCCCTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 4 0.16
25 8 0.32
26 13 0.52
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AATATTTAATTTAATTAAATAATA
Found at i:4441589 original size:40 final size:40
Alignment explanation
Indices: 4441472--4441592 Score: 188
Period size: 40 Copynumber: 3.0 Consensus size: 40
4441462 ACTATAGTGC
* *
4441472 TACACATAAGGTCGTCCCCACCATATACACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
4441512 TACACGTAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* * *
4441552 TACACATAAGGTCATGCACACCATATACAGCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
4441592 T
1 T
4441593 TTAAACCTGC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:4447592 original size:24 final size:24
Alignment explanation
Indices: 4447565--4447639 Score: 132
Period size: 24 Copynumber: 3.1 Consensus size: 24
4447555 TTCGATTTGA
4447565 ATTTTTATATGATACTTGACCTGG
1 ATTTTTATATGATACTTGACCTGG
* *
4447589 ATTTTGATATGATACTTGACCTAG
1 ATTTTTATATGATACTTGACCTGG
4447613 ATTTTTATATGATACTTGACCTGG
1 ATTTTTATATGATACTTGACCTGG
4447637 ATT
1 ATT
4447640 CTGATATACT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (24 bp):
ATTTTTATATGATACTTGACCTGG
Found at i:4447646 original size:24 final size:24
Alignment explanation
Indices: 4447565--4447655 Score: 130
Period size: 24 Copynumber: 3.8 Consensus size: 24
4447555 TTCGATTTGA
*
4447565 ATTTTTATATGATACTTGACCTGG
1 ATTTTGATATGATACTTGACCTGG
*
4447589 ATTTTGATATGATACTTGACCTAG
1 ATTTTGATATGATACTTGACCTGG
*
4447613 ATTTTTATATGATACTTGACCTGG
1 ATTTTGATATGATACTTGACCTGG
*
4447637 ATTCTGATAT-ACTACTTGA
1 ATTTTGATATGA-TACTTGA
4447656 GCTGAATTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 1 0.02
24 59 0.98
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (24 bp):
ATTTTGATATGATACTTGACCTGG
Found at i:4452264 original size:24 final size:24
Alignment explanation
Indices: 4452237--4452302 Score: 114
Period size: 24 Copynumber: 2.8 Consensus size: 24
4452227 TTCGATTTGA
*
4452237 ATTTTTATATGATACTTGACCTGG
1 ATTTTTATATGATACTTGACCTAG
*
4452261 ATTTTGATATGATACTTGACCTAG
1 ATTTTTATATGATACTTGACCTAG
4452285 ATTTTTATATGATACTTG
1 ATTTTTATATGATACTTG
4452303 TTTTCCTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.47
Consensus pattern (24 bp):
ATTTTTATATGATACTTGACCTAG
Found at i:4454455 original size:13 final size:13
Alignment explanation
Indices: 4454437--4454461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4454427 AGGGGGAGTA
4454437 ATTTCAAAATTTG
1 ATTTCAAAATTTG
4454450 ATTTCAAAATTT
1 ATTTCAAAATTT
4454462 ATTAGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
ATTTCAAAATTTG
Found at i:4456945 original size:14 final size:14
Alignment explanation
Indices: 4456926--4456964 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4456916 ATTTAAAGGA
4456926 CTGAAATGTAAATG
1 CTGAAATGTAAATG
*
4456940 CTGAAAAGTAAATG
1 CTGAAATGTAAATG
*
4456954 CTTAAAT-TAAA
1 CTGAAATGTAAA
4456965 ATGACAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (14 bp):
CTGAAATGTAAATG
Found at i:4458885 original size:29 final size:29
Alignment explanation
Indices: 4458853--4458933 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
4458843 ATTTAAAGGT
*
4458853 GAAAT-TATAATAACATAAATTAAAGGGCA
1 GAAATGTA-AATAACAGAAATTAAAGGGCA
*
4458882 GAAATGTAAATAATAGAAATTAAAGGGCA
1 GAAATGTAAATAACAGAAATTAAAGGGCA
* * *
4458911 AAAATGT-AATGATAGAAATTAAA
1 GAAATGTAAATAACAGAAATTAAA
4458934 AGAAATCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
28 15 0.32
29 30 0.64
30 2 0.04
ACGTcount: A:0.57, C:0.04, G:0.16, T:0.23
Consensus pattern (29 bp):
GAAATGTAAATAACAGAAATTAAAGGGCA
Found at i:4458935 original size:29 final size:29
Alignment explanation
Indices: 4458869--4458933 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
4458859 ATAATAACAT
*
4458869 AAATTAAAGGGCAGAAATGTAAATAATAG
1 AAATTAAAGGGCAAAAATGTAAATAATAG
*
4458898 AAATTAAAGGGCAAAAATGT-AATGATAG
1 AAATTAAAGGGCAAAAATGTAAATAATAG
4458926 AAATTAAA
1 AAATTAAA
4458934 AGAAATCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 15 0.44
29 19 0.56
ACGTcount: A:0.57, C:0.03, G:0.18, T:0.22
Consensus pattern (29 bp):
AAATTAAAGGGCAAAAATGTAAATAATAG
Found at i:4459122 original size:31 final size:31
Alignment explanation
Indices: 4459048--4459123 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
4459038 CATAAATATA
* * *
4459048 AAAGTTAGCAGTTAGTGGTTAATAAATTTGC
1 AAAGTTAGCGGTTAGTAGTTAATAAATTAGC
4459079 AAAGTTAGCGGTTAGTAGTTAATAAATTAGC
1 AAAGTTAGCGGTTAGTAGTTAATAAATTAGC
*
4459110 AAAGTTAACGGTTA
1 AAAGTTAGCGGTTA
4459124 AATTAGAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (31 bp):
AAAGTTAGCGGTTAGTAGTTAATAAATTAGC
Found at i:4462235 original size:177 final size:177
Alignment explanation
Indices: 4461906--4462259 Score: 692
Period size: 177 Copynumber: 2.0 Consensus size: 177
4461896 AAAAGGGTGT
4461906 TTACAAGAAAAATACATCTTTTTTATTTGTATAAATGTAAAGAGTTTTTGGGTAAATACATGGCA
1 TTACAAGAAAAATACATCTTTTTTATTTGTATAAATGTAAAGAGTTTTTGGGTAAATACATGGCA
4461971 AACTTTTAACTGGAAAAAGTAAGAGAAAATGAAGTAGATATCCCAAGATATCATGGTACAGAGCT
66 AACTTTTAACTGGAAAAAGTAAGAGAAAATGAAGTAGATATCCCAAGATATCATGGTACAGAGCT
4462036 TTTGAACTGGCACACACGTAAAGTAACTTAAGTGTAGCTTCTGTCAA
131 TTTGAACTGGCACACACGTAAAGTAACTTAAGTGTAGCTTCTGTCAA
4462083 TTACAAGAAAAATACATCTTTTTTATTTGTATAAATGTAAAGAGTTTTTGGGTAAATACATGGCA
1 TTACAAGAAAAATACATCTTTTTTATTTGTATAAATGTAAAGAGTTTTTGGGTAAATACATGGCA
4462148 AACTTTTAACTGGAAAAAGTAAGAGAAAATGAAGTAGATATCCCAAGATATCAATGGTACAGAGC
66 AACTTTTAACTGGAAAAAGTAAGAGAAAATGAAGTAGATATCCCAAGATATC-ATGGTACAGAGC
4462213 TTTTGAACTGGCACAC-CGTAAAGTAACTTAAGTGTAGCTTCTGTCAA
130 TTTTGAACTGGCACACACGTAAAGTAACTTAAGTGTAGCTTCTGTCAA
4462260 AGGGATTTCG
Statistics
Matches: 176, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
177 148 0.84
178 28 0.16
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (177 bp):
TTACAAGAAAAATACATCTTTTTTATTTGTATAAATGTAAAGAGTTTTTGGGTAAATACATGGCA
AACTTTTAACTGGAAAAAGTAAGAGAAAATGAAGTAGATATCCCAAGATATCATGGTACAGAGCT
TTTGAACTGGCACACACGTAAAGTAACTTAAGTGTAGCTTCTGTCAA
Found at i:4462620 original size:7 final size:7
Alignment explanation
Indices: 4462608--4462658 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
4462598 CTTTTATTTA
4462608 TTTTTTC
1 TTTTTTC
*
4462615 TTTTTTA
1 TTTTTTC
*
4462622 TTTATT-
1 TTTTTTC
*
4462628 TTTTCT-
1 TTTTTTC
4462634 TTTTTTC
1 TTTTTTC
4462641 TTTTTTC
1 TTTTTTC
4462648 TTTTTTTC
1 -TTTTTTC
4462656 TTT
1 TTT
4462659 AGGAAAAGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 9 0.24
7 21 0.57
8 7 0.19
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:4462622 original size:18 final size:18
Alignment explanation
Indices: 4462599--4462638 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
4462589 TAAAACCCCC
4462599 TTTTATTTATTTTTTCTT
1 TTTTATTTATTTTTTCTT
4462617 TTTTATTTATTTTTTCTT
1 TTTTATTTATTTTTTCTT
4462635 TTTT
1 TTTT
4462639 TCTTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTATTTATTTTTTCTT
Found at i:4462637 original size:8 final size:8
Alignment explanation
Indices: 4462608--4462658 Score: 68
Period size: 8 Copynumber: 6.2 Consensus size: 8
4462598 CTTTTATTTA
4462608 TTTTTTCT
1 TTTTTTCT
*
4462616 TTTTTATTT
1 TTTTT-TCT
4462625 ATTTTTTCT
1 -TTTTTTCT
4462634 TTTTTTC-
1 TTTTTTCT
4462641 TTTTTTCT
1 TTTTTTCT
4462649 TTTTTTCT
1 TTTTTTCT
4462657 TT
1 TT
4462659 AGGAAAAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
7 7 0.18
8 22 0.58
9 4 0.11
10 5 0.13
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTCT
Found at i:4466004 original size:2 final size:2
Alignment explanation
Indices: 4465997--4466033 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4465987 TAATGGAATA
4465997 AT AT 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 AT AT A
4466034 AGAATAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4475109 original size:116 final size:117
Alignment explanation
Indices: 4474810--4475195 Score: 487
Period size: 114 Copynumber: 3.3 Consensus size: 117
4474800 ACTCCTTATT
* * **
4474810 TGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCTGATG
1 TGATGGAATCGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAAATTCTTCTCCCTCATCAAATG
* *
4474875 AGTTCTTCTCATAATGAACTCTCCACTGGAAATGTTGATCCACCTCATTCTG
66 AGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTCATTCTA
** * * *
4474927 TGATGGAATCGAGGTAAGGTTGAATAAG---TTCACATTAT-AAACTTCTTCTCCCTCATCATAT
1 TGATGGAATCGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAAA-TTCTTCTCCCTCATCAAAT
* * * *
4474988 GAGTTCTTATCATTACGAACCCTTCCACT-GAAATGTTGATCCACCTCCTTCTA
65 GAGTTCTTCTCATTATGAACTC-TCCACTGGAAATGTTGATCCACCTCATTCTA
* * * * **
4475041 TGAT-AAATCGAACCAACGTTGAACAAGTTCTTCTCATTATGAAATTCTTCTCTCTCGCCAAATG
1 TGATGGAATCGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAAATTCTTCTCCCTCATCAAATG
** *
4475105 AGTTCTTCTCATTATGAACTCTCTGCTGGAAATGTTGATCGACCTCATTCTA
66 AGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTCATTCTA
*
4475157 TGATGGAATCGAGCCAAGGTTGAACAAGTTCTTCCCATT
1 TGATGGAATCGAGCCAAGGTTGAACAAGTTCTTCTCATT
4475196 TAGCGGAAAG
Statistics
Matches: 227, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
113 19 0.08
114 70 0.31
115 10 0.04
116 69 0.30
117 59 0.26
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (117 bp):
TGATGGAATCGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAAATTCTTCTCCCTCATCAAATG
AGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTCATTCTA
Found at i:4475735 original size:54 final size:54
Alignment explanation
Indices: 4475464--4475721 Score: 338
Period size: 54 Copynumber: 4.8 Consensus size: 54
4475454 TTACAGTTAT
* * * * *
4475464 CATCAAGAAAACCATAAAAATTAGGCATAACTTCTTTAAAAATTCATTTTAAGA
1 CATCAAGAAAACCCTAAAAATTAGGCTTAGCTTCTTTTAAAATTCATTTGAAGA
* * * *
4475518 CATCAAGAAATA-CCTGAAAATTAGGATTAGCTTCTTTAAAAATCCATTTGAAGA
1 CATCAAGAAA-ACCCTAAAAATTAGGCTTAGCTTCTTTTAAAATTCATTTGAAGA
* * *
4475572 CATCAAGAAACCCCTAAAAATTATGCTTAGCTTCTTTTGAAATTCATTTGAAGA
1 CATCAAGAAAACCCTAAAAATTAGGCTTAGCTTCTTTTAAAATTCATTTGAAGA
* * * * *
4475626 CACCAAGAAAACCCTAAATATTAGGCTTAACTTCTTTCAAAATTCATTTGAAAA
1 CATCAAGAAAACCCTAAAAATTAGGCTTAGCTTCTTTTAAAATTCATTTGAAGA
*
4475680 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTTAAAA
1 CATCAAGAAAACCCTAAAAATTAGGCTTAGCTTCTTTTAAAA
4475722 GTTATTTTGA
Statistics
Matches: 175, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
54 174 0.99
55 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (54 bp):
CATCAAGAAAACCCTAAAAATTAGGCTTAGCTTCTTTTAAAATTCATTTGAAGA
Found at i:4480023 original size:28 final size:28
Alignment explanation
Indices: 4479991--4480052 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
4479981 TCTAGTAGGG
4479991 TAGGTTTAATAAACTCTCTACATGAAGC
1 TAGGTTTAATAAACTCTCTACATGAAGC
4480019 TAGGTTTAATAAACTCTCTACATGAAGC
1 TAGGTTTAATAAACTCTCTACATGAAGC
4480047 TAGGTT
1 TAGGTT
4480053 CTAGCAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (28 bp):
TAGGTTTAATAAACTCTCTACATGAAGC
Found at i:4484104 original size:30 final size:30
Alignment explanation
Indices: 4484061--4484138 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
4484051 TGATTCGAAC
* *
4484061 ATAAATATA-CAAGTTATCGGTTAGTGGTTA
1 ATAAAT-TAGCAAGTTAGCGATTAGTGGTTA
4484091 ATAAATTAGCAAGTTAGCGATTAGTGGTTA
1 ATAAATTAGCAAGTTAGCGATTAGTGGTTA
*
4484121 ATAAATTAGAAAAGTTAG
1 ATAAATTAG-CAAGTTAG
4484139 TGGTTAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.05
30 34 0.79
31 7 0.16
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (30 bp):
ATAAATTAGCAAGTTAGCGATTAGTGGTTA
Found at i:4484246 original size:22 final size:20
Alignment explanation
Indices: 4484221--4484260 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4484211 AACATTTAAA
*
4484221 ATTAACAATTTAAATATAAAGC
1 ATTAA-AATGTAAA-ATAAAGC
4484243 ATTAAAATGTAAAATAAA
1 ATTAAAATGTAAAATAAA
4484261 ACAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (20 bp):
ATTAAAATGTAAAATAAAGC
Found at i:4490955 original size:54 final size:55
Alignment explanation
Indices: 4490768--4491026 Score: 319
Period size: 54 Copynumber: 4.7 Consensus size: 55
4490758 TCTTCAAAAT
* * ** * ***
4490768 CGGGTTCGTTCCCTATCGTTTCAGGGAACATAGAACTTGAAGAATCTTCTGGGGA
1 CGGGTTCGCTCCCTATTGTTTCAGGGAGTATAGAACTCGAAGAATCTTCTGCTAA
*
4490823 CGGGTTCGCTCCCTATTGTTTCAGGGAGTATAGAACTCGAATAATCTTCTGCTAA
1 CGGGTTCGCTCCCTATTGTTTCAGGGAGTATAGAACTCGAAGAATCTTCTGCTAA
*
4490878 CGAGTTCGCTCCCTATTGTTTCAGGGAGTATAGAACTC-AAGAATCTTCTGCTAA
1 CGGGTTCGCTCCCTATTGTTTCAGGGAGTATAGAACTCGAAGAATCTTCTGCTAA
* * * * *
4490932 CTGGTTCGCTCCCTCTT-TCTTCAGGGAGTATAGAACTCGAA-CATCTTCTTCAAA
1 CGGGTTCGCTCCCTATTGT-TTCAGGGAGTATAGAACTCGAAGAATCTTCTGCTAA
* *
4490986 CGGGTTCGCTCCCTCTT-TCTTCAGGGAGAATAGAACTCGAA
1 CGGGTTCGCTCCCTATTGT-TTCAGGGAGTATAGAACTCGAA
4491027 TATCTTCAAC
Statistics
Matches: 183, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 97 0.53
55 85 0.46
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (55 bp):
CGGGTTCGCTCCCTATTGTTTCAGGGAGTATAGAACTCGAAGAATCTTCTGCTAA
Found at i:4491051 original size:54 final size:54
Alignment explanation
Indices: 4490939--4491297 Score: 335
Period size: 54 Copynumber: 6.6 Consensus size: 54
4490929 TAACTGGTTC
* * ** * *
4490939 GCTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAACATCTTCTTCAAACGGGT-T
1 GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGAA-ATCTTCAACAATCGCGTCT
* * * *
4490992 CGCTCCCTCTTTCTTCAGGGAGAATAGA-ACTCGAATATCTTCAACAATCGTGTCT
1 -GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGAA-ATCTTCAACAATCGCGTCT
4491047 GCTCCCTATTTCTTCAGAGAGTAT-GAGACTCGAACAATCTTCAACAATCGCGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAGAGACTCG-A-AATCTTCAACAATCGCGTCT
* * *
4491102 G-TCCCCTATTTCTTCAGAGAGTATA-AGACTCGAACGATCTTCAACGATTGTGTCT
1 GCT-CCCTATTTCTTCAGAGAGTATAGAGACTCGAA--ATCTTCAACAATCGCGTCT
* * * * *
4491157 GCCCCCTATATCTTCAGAGAGTATA-AGAC-CCACAATCTTCATCAATTGCGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGA-AATCTTCAACAATCGCGTCT
* * * * *
4491210 GCCCCCCTATTTCTTCAGGGAGTATA-AGAC-CCACAATCTTCATCAATTGCGTCT
1 G-CTCCCTATTTCTTCAGAGAGTATAGAGACTCGA-AATCTTCAACAATCGCGTCT
4491264 GCTCCCTATTTCTTCAGAGAGTAT-GAGACTCGAA
1 GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGAA
4491298 CAATCTTTAA
Statistics
Matches: 268, Mismatches: 24, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
53 46 0.17
54 129 0.48
55 92 0.34
56 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (54 bp):
GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGAAATCTTCAACAATCGCGTCT
Found at i:4491051 original size:108 final size:109
Alignment explanation
Indices: 4490830--4491304 Score: 358
Period size: 108 Copynumber: 4.4 Consensus size: 109
4490820 GGACGGGTTC
* * * *
4490830 GCTCCCTATTGT-TTCAGGGAGTATAGAACTCGAATAATCTTCTGCTAACGAGTTCGCTCCCTAT
1 GCTCCCTATT-TCTTCAGAGAGTATAGAACTCGAA-CATCTTCTACAAACGAGTTCGCTCCCTAT
* ** *
4490894 TGT-TTCAGGGAGTATAGAACTC-AAGAATCTTCTGCTAACTGGT-TC-
64 T-TCTTCAGGGAGTATAGAACTCGAACAATCTTCAAC-AA-TCGTGTCT
* * * * *
4490939 GCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTT
1 GCTCCCTATTTCTTCAGAGAGTATAGAACTCGAACATCTTCTACAAACGAGTTCGCTCCCTATTT
* *
4491004 CTTCAGGGAGAATAGAACTCGAA-TATCTTCAACAATCGTGTCT
66 CTTCAGGGAGTATAGAACTCGAACAATCTTCAACAATCGTGTCT
* * *
4491047 GCTCCCTATTTCTTCAGAGAGTAT-GAGACTCGAACAATCTTCAACAATCGCG-TCTG-TCCCCT
1 GCTCCCTATTTCTTCAGAGAGTATAGA-ACTCGAAC-ATCTTCTACAAACGAGTTC-GCT-CCCT
* * * *
4491109 ATTTCTTCAGAGAGTATA-AGACTCGAACGATCTTCAACGATTGTGTCT
62 ATTTCTTCAGGGAGTATAGA-ACTCGAACAATCTTCAACAATCGTGTCT
* * * ** * *
4491157 GCCCCCTATATCTTCAGAGAGTATA-AGAC-C-CACAATCTTC-ATCAATTGCG-TCTGCCCCCC
1 GCTCCCTATTTCTTCAGAGAGTATAGA-ACTCGAAC-ATCTTCTA-CAAACGAGTTC-G-CTCCC
* * * *
4491217 TATTTCTTCAGGGAGTATA-AGAC-C-CACAATCTTCATCAATTGCGTCT
61 TATTTCTTCAGGGAGTATAGA-ACTCGAACAATCTTCAACAATCGTGTCT
4491264 GCTCCCTATTTCTTCAGAGAGTAT-GAGACTCGAACAATCTT
1 GCTCCCTATTTCTTCAGAGAGTATAGA-ACTCGAAC-ATCTT
4491305 TAATAATTGT
Statistics
Matches: 311, Mismatches: 37, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
106 3 0.01
107 52 0.17
108 107 0.34
109 106 0.34
110 43 0.14
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (109 bp):
GCTCCCTATTTCTTCAGAGAGTATAGAACTCGAACATCTTCTACAAACGAGTTCGCTCCCTATTT
CTTCAGGGAGTATAGAACTCGAACAATCTTCAACAATCGTGTCT
Found at i:4491109 original size:55 final size:54
Alignment explanation
Indices: 4490996--4491313 Score: 351
Period size: 55 Copynumber: 5.9 Consensus size: 54
4490986 CGGGTTCGCT
* * * * * *
4490996 CCCTCTTTCTTCAGGGAGAAT-AGAACTCGAA-TATCTTCAACAATCGTGTCTGC
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATTGCGTCTGC
* *
4491049 TCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGCGTCTGTC
1 -CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGCGTCTG-C
* * *
4491105 CCCTATTTCTTCAGAGAGTATAAGACTCGAACGATCTTCAACGATTGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGCGTCTG-C
* * *
4491160 CCCTATATCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATTGCGTCTGCCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGCGTCTG--C
* * *
4491214 CCCTATTTCTTCAGGGAGTATAAGAC-C-CACAATCTTCATCAATTGCGTCTGC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGCGTCTGC
* * *
4491266 TCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTTAATAATTG
1 -CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTG
4491314 TTGGGAAATC
Statistics
Matches: 232, Mismatches: 25, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
52 1 0.00
53 43 0.19
54 78 0.34
55 109 0.47
56 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (54 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGCGTCTGC
Found at i:4492255 original size:8 final size:8
Alignment explanation
Indices: 4492237--4492288 Score: 70
Period size: 8 Copynumber: 6.5 Consensus size: 8
4492227 GAACCCTTCT
4492237 TTTTTTCCA
1 TTTTTT-CA
4492246 TTTTTTCA
1 TTTTTTCA
4492254 TTTTTT-A
1 TTTTTTCA
*
4492261 TTTTTTTA
1 TTTTTTCA
*
4492269 TTTTTTTA
1 TTTTTTCA
4492277 TTTTTTCA
1 TTTTTTCA
4492285 TTTT
1 TTTT
4492289 CACTCATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
7 7 0.17
8 28 0.68
9 6 0.15
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTCA
Found at i:4502292 original size:16 final size:16
Alignment explanation
Indices: 4502271--4502308 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
4502261 AACCTTATTC
4502271 ACATGATATCTACCCA
1 ACATGATATCTACCCA
4502287 ACATGATATCTACCCA
1 ACATGATATCTACCCA
4502303 ATCATG
1 A-CATG
4502309 CTTTAGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (16 bp):
ACATGATATCTACCCA
Found at i:4505700 original size:2 final size:2
Alignment explanation
Indices: 4505693--4505748 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
4505683 AATTGTTTGC
4505693 AT AT 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 AT AT
4505735 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
4505749 TAATACCTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4511559 original size:62 final size:64
Alignment explanation
Indices: 4511440--4511561 Score: 178
Period size: 63 Copynumber: 1.9 Consensus size: 64
4511430 AATACAAAAC
* *
4511440 AAAAGTTAAATTATATTAAATCTTTTAATAAATATTTTAGAAATATAATATAGAATATATACAA
1 AAAAATTAAATTATATTAAATCTTTTAATAAATATTTTAGAAATATAATATAAAATATATACAA
* *
4511504 AAAAATTAAATTATATT-AGTTTTTTAATAAATATTTTA-AAATA-ACATATAAAATATAT
1 AAAAATTAAATTATATTAAATCTTTTAATAAATATTTTAGAAATATA-ATATAAAATATAT
4511562 TTTATTATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
61 1 0.02
62 17 0.32
63 19 0.36
64 16 0.30
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (64 bp):
AAAAATTAAATTATATTAAATCTTTTAATAAATATTTTAGAAATATAATATAAAATATATACAA
Found at i:4511692 original size:3 final size:3
Alignment explanation
Indices: 4511666--4511760 Score: 63
Period size: 3 Copynumber: 31.3 Consensus size: 3
4511656 AGTGTAAGAA
* *
4511666 AAT AA- AAT AA- AAT AAAT CAAT AAT AAT AGT AAT AAT ACT AAT AA-
1 AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
4511710 ATT AAT AAAT CAAT AAT AAT ATT AAT AAT ACT AAT AA- ATT AAT AAAT
1 AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
4511757 AAT A
1 AAT A
4511761 TTATACTAGT
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
2 6 0.08
3 50 0.70
4 15 0.21
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4511717 original size:8 final size:8
Alignment explanation
Indices: 4511704--4511760 Score: 53
Period size: 8 Copynumber: 6.6 Consensus size: 8
4511694 GTAATAATAC
4511704 TAATAAAT
1 TAATAAAT
4511712 TAATAAAT
1 TAATAAAT
4511720 CAATAATAATAT
1 ---TAATAA-AT
*
4511732 TAATAATAC
1 TAATAA-AT
4511741 TAATAAAT
1 TAATAAAT
4511749 TAATAAA-
1 TAATAAAT
4511756 TAATA
1 TAATA
4511761 TTATACTAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
7 5 0.12
8 16 0.37
9 14 0.33
11 6 0.14
12 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (8 bp):
TAATAAAT
Found at i:4511725 original size:37 final size:37
Alignment explanation
Indices: 4511676--4511760 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
4511666 AATAAAATAA
4511676 AATAAATCAATAATAATAGTAATAATACTAATAAATT
1 AATAAATCAATAATAATAGTAATAATACTAATAAATT
*
4511713 AATAAATCAATAATAATATTAATAATACTAATAAATT
1 AATAAATCAATAATAATAGTAATAATACTAATAAATT
4511750 AATAAAT-AATA
1 AATAAATCAATA
4511761 TTATACTAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 4 0.09
37 43 0.91
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (37 bp):
AATAAATCAATAATAATAGTAATAATACTAATAAATT
Found at i:4511942 original size:20 final size:19
Alignment explanation
Indices: 4511898--4511942 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
4511888 AAACTACAAA
4511898 AAAAAATAGAAACAACTAG
1 AAAAAATAGAAACAACTAG
*
4511917 AGAAAATAGAACACGAA-TAG
1 AAAAAATAGAA-AC-AACTAG
4511937 AAAAAA
1 AAAAAA
4511943 CTTTCATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 10 0.45
20 10 0.45
21 2 0.09
ACGTcount: A:0.69, C:0.09, G:0.13, T:0.09
Consensus pattern (19 bp):
AAAAAATAGAAACAACTAG
Found at i:4514383 original size:2 final size:2
Alignment explanation
Indices: 4514376--4514405 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4514366 AAATTTTTCA
4514376 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
4514406 CTCTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4516717 original size:27 final size:27
Alignment explanation
Indices: 4516667--4516719 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
4516657 TACATAAGTC
*
4516667 TTTTAACTTTATAAAAAATCAATTAAAT
1 TTTTAAATTTATAAAAAA-CAATTAAAT
4516695 TTTTAAATTTAATAAAAAA-AATTAA
1 TTTTAAATTT-ATAAAAAACAATTAA
4516720 TTAAACTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 9 0.39
29 8 0.35
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (27 bp):
TTTTAAATTTATAAAAAACAATTAAAT
Found at i:4516755 original size:21 final size:21
Alignment explanation
Indices: 4516731--4516798 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
4516721 TAAACTCATC
4516731 TATCATATCATCTTTCATATA
1 TATCATATCATCTTTCATATA
* * **
4516752 TATCA-A-AATCATGAACTATCA
1 TATCATATCATCTTTCA-TAT-A
4516773 TATCATATCATCTTTCATATA
1 TATCATATCATCTTTCATATA
4516794 TATCA
1 TATCA
4516799 AAATCATGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
19 5 0.14
20 4 0.11
21 17 0.49
22 4 0.11
23 5 0.14
ACGTcount: A:0.38, C:0.19, G:0.01, T:0.41
Consensus pattern (21 bp):
TATCATATCATCTTTCATATA
Found at i:4516778 original size:42 final size:42
Alignment explanation
Indices: 4516723--4516814 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
4516713 AAATTAATTA
4516723 AACTCATC-TATCATATCATCTTTCATATATATCAAAATCATG
1 AACT-ATCATATCATATCATCTTTCATATATATCAAAATCATG
4516765 AACTATCATATCATATCATCTTTCATATATATCAAAATCATG
1 AACTATCATATCATATCATCTTTCATATATATCAAAATCATG
4516807 AACTATCA
1 AACTATCA
4516815 CATAATCGTA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 3 0.06
42 46 0.94
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.37
Consensus pattern (42 bp):
AACTATCATATCATATCATCTTTCATATATATCAAAATCATG
Found at i:4523219 original size:39 final size:39
Alignment explanation
Indices: 4523176--4523254 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
4523166 TACTAACATT
*
4523176 TGTATGGTATGTGTAATTAATGGATGCTTGTATAGATCG
1 TGTATGGTATATGTAATTAATGGATGCTTGTATAGATCG
* *
4523215 TGTATGGTATATGTAATTAATGGATTCTTTTATAGATCG
1 TGTATGGTATATGTAATTAATGGATGCTTGTATAGATCG
4523254 T
1 T
4523255 AACCAAGCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44
Consensus pattern (39 bp):
TGTATGGTATATGTAATTAATGGATGCTTGTATAGATCG
Found at i:4536613 original size:184 final size:185
Alignment explanation
Indices: 4536400--4536788 Score: 617
Period size: 184 Copynumber: 2.1 Consensus size: 185
4536390 ATTAAATTTT
* *
4536400 AAATATTAAATATATTATATATAACATATGGGCTCAA-CCCAAATCATTTAAAACCCAATTAATA
1 AAATATTAAATATATTATATATAACATATGGGCT-AAGCCCAAACCATTTAAAACCAAATTAATA
*
4536464 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAA-T-T-AATTAAAAAATTATATAAAT
65 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTATAAAATAAAAAATTATATAAAT
* * *
4536526 TTTTTATTTTATAATTATATATTATTTAAATTATTTTGTAAACTGTTTTTTAATTAAA
130 TTTTTATTTTATAATTATATATTATTTAAATTA-ATTATAAACT-TTTTTGAATTAAA
*
4536584 AAATATTAAATATATTATATATAACATATGGGCTAAGTCCAAACCATTTAAAACCAAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCAAATTAATAA
* *
4536649 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTATAAAATAAAAATTTATCTAAATT
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTATAAAATAAAAAATTATATAAATT
4536714 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTGAATTAAA
131 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTGAATTAAA
* *
4536769 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
4536789 AATTAGAAAA
Statistics
Matches: 190, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
183 2 0.01
184 106 0.56
185 23 0.12
186 9 0.05
187 50 0.26
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCAAATTAATAA
TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTATAAAATAAAAAATTATATAAATT
TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTGAATTAAA
Found at i:4536767 original size:21 final size:20
Alignment explanation
Indices: 4536724--4536767 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
4536714 TTTTATTTTA
*
4536724 TAATTATATATTATTTAAAT
1 TAATTATAAATTATTTAAAT
* *
4536744 TAATTATAAACTTTTTTGAAT
1 TAATTATAAA-TTATTTAAAT
4536765 TAA
1 TAA
4536768 AAAATATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TAATTATAAATTATTTAAAT
Found at i:4543941 original size:38 final size:38
Alignment explanation
Indices: 4543864--4543941 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 38
4543854 ATTGAACCTG
* * * *
4543864 ATATATTTTTATATAAATTATGTTGAAGTAAAATTTTA
1 ATATATTTTTAAATAAATTATGTTAAAATAAAATATTA
**
4543902 ATATATTTTTTAAATAAATTATG-TAAAATTTAATATTA
1 ATATA-TTTTTAAATAAATTATGTTAAAATAAAATATTA
4543940 AT
1 AT
4543942 TAAAATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
38 17 0.52
39 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (38 bp):
ATATATTTTTAAATAAATTATGTTAAAATAAAATATTA
Found at i:4544017 original size:15 final size:15
Alignment explanation
Indices: 4543997--4544073 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
4543987 ATTATCGATG
4543997 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
4544012 AATTTTTTATTTAAAT
1 AA-TTTTTATATAAAT
* **
4544028 -A--TAT-TATCGAT
1 AATTTTTATATAAAT
4544039 GAATTTTTATATAAAT
1 -AATTTTTATATAAAT
*
4544055 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
4544070 AATT
1 AATT
4544074 AGAATTTCAC
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
11 4 0.09
12 2 0.04
13 1 0.02
15 23 0.49
16 17 0.36
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:4544029 original size:43 final size:42
Alignment explanation
Indices: 4543982--4544074 Score: 170
Period size: 43 Copynumber: 2.2 Consensus size: 42
4543972 ATAATAAAAT
4543982 AATATATTATCGATGAATTTTTATATAAATAATTTTTTATTTA
1 AATATATTATCGATGAATTTTTATATAAATAA-TTTTTATTTA
4544025 AATATATTATCGATGAATTTTTATATAAATAATTTTTATTTA
1 AATATATTATCGATGAATTTTTATATAAATAATTTTTATTTA
4544067 AATA-ATTA
1 AATATATTA
4544075 GAATTTCACT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 4 0.08
42 14 0.28
43 32 0.64
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (42 bp):
AATATATTATCGATGAATTTTTATATAAATAATTTTTATTTA
Found at i:4544400 original size:20 final size:19
Alignment explanation
Indices: 4544371--4544410 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
4544361 AGTAATCCTA
4544371 TTCCCTGGTAATCTTATAT
1 TTCCCTGGTAATCTTATAT
4544390 TTCCACTGGTAATCTTATAT
1 TTCC-CTGGTAATCTTATAT
4544410 T
1 T
4544411 CCGTGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (19 bp):
TTCCCTGGTAATCTTATAT
Found at i:4547730 original size:42 final size:42
Alignment explanation
Indices: 4547678--4547769 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
4547668 AGCTCGAGCT
*
4547678 CGAGTTGAATTCATTCGATCCGAGTATTTATCGAGCCTTGAC
1 CGAGTCGAATTCATTCGATCCGAGTATTTATCGAGCCTTGAC
4547720 CGAGTCGAATTCATTCGATCCGAGTATTTATCGAGCCTTGAC
1 CGAGTCGAATTCATTCGATCCGAGTATTTATCGAGCCTTGAC
4547762 CGAGTCGA
1 CGAGTCGA
4547770 TCTCGAGTAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (42 bp):
CGAGTCGAATTCATTCGATCCGAGTATTTATCGAGCCTTGAC
Found at i:4550547 original size:21 final size:21
Alignment explanation
Indices: 4550518--4550564 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
4550508 ATTCTGACTA
4550518 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
4550539 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
4550560 TCGCA
1 TCGCA
4550565 ATGCAAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:4550585 original size:20 final size:20
Alignment explanation
Indices: 4550560--4550652 Score: 132
Period size: 20 Copynumber: 4.7 Consensus size: 20
4550550 TTTTCCTAAT
* *
4550560 TCGCAATGCAAATACATAAA
1 TCGCAATGCGAATACGTAAA
*
4550580 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
4550600 TCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
4550620 TCGCAACGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
4550640 TCGCAACGCGAAT
1 TCGCAATGCGAAT
4550653 CTGACTATCG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:4550662 original size:20 final size:20
Alignment explanation
Indices: 4550639--4550725 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
4550629 GAATACGTAA
* *
4550639 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
4550659 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
4550679 ATCACAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
* *
4550699 ATCGTAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACT
4550719 ATCGCAA
1 ATCGCAA
4550726 TACTGAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:4554085 original size:20 final size:20
Alignment explanation
Indices: 4554012--4554085 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
4554002 GACATTCATT
*
4554012 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* * *
4554032 TGACTATCACAACTCGGAAT
1 TGACTATCGCAACGCGGAAA
4554052 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
4554072 TGACTATCGCAACG
1 TGACTATCGCAACG
4554086 AGAGAATCGC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:4554107 original size:33 final size:33
Alignment explanation
Indices: 4554057--4554152 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
4554047 GGAATTGACT
* **
4554057 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
4554091 ATCGCAATGCGAAATGAAAATCGCAAAGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
4554124 ATCACAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
4554153 TGAATTTAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4554354 original size:14 final size:14
Alignment explanation
Indices: 4554335--4554371 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4554325 CATCAATTAA
4554335 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
4554349 ACAAATCATCTTTT
1 ACAAATCAACATTT
4554363 ACAAATCAA
1 ACAAATCAA
4554372 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:4556357 original size:20 final size:20
Alignment explanation
Indices: 4556334--4556482 Score: 192
Period size: 20 Copynumber: 7.5 Consensus size: 20
4556324 GAAACTTAAA
4556334 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
4556354 ATCGCAACGCGAAAATAACT
1 ATCGCAACGCGAAAATGACT
* *
4556374 ATCGCAACGCAAAAATGATT
1 ATCGCAACGCGAAAATGACT
4556394 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
4556414 ATCGCAATGCAAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
4556434 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
* *
4556454 ATCGCAATGC-AAATTTGACT
1 ATCGCAACGCGAAA-ATGACT
4556474 ATCGCAACG
1 ATCGCAACG
4556483 AGAGAATCGT
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
19 2 0.02
20 113 0.98
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:4556550 original size:34 final size:34
Alignment explanation
Indices: 4556506--4556660 Score: 152
Period size: 34 Copynumber: 4.4 Consensus size: 34
4556496 GCAATTTTTA
* *
4556506 TTTCGCATTGCGATTCTTTCGTTGCGATAGTGAA
1 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
*
4556540 ATTCGCATTGCGATAGTCATTTCCGCATTGCGATAGTCAT
1 TTTCGCATTGCGAT--TC-TTT-CG--TTGCGATAGTCAT
* * * **
4556580 TTTCGCGTTGAGATT-TTGTTGTTGCGATTTTC-T
1 TTTCGCATTGCGATTCTT-TCGTTGCGATAGTCAT
*
4556613 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAT
1 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
4556647 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
4556661 AGTAAACTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 18
0.75 0.12 0.14
Matches are distributed among these distances:
33 25 0.26
34 38 0.39
36 5 0.05
37 4 0.04
38 3 0.03
40 22 0.23
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.43
Consensus pattern (34 bp):
TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
Found at i:4556552 original size:20 final size:20
Alignment explanation
Indices: 4556527--4556576 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4556517 GATTCTTTCG
4556527 TTGCGATAGTGAAATT-CGCA
1 TTGCGATAGT-AAATTCCGCA
* *
4556547 TTGCGATAGTCATTTCCGCA
1 TTGCGATAGTAAATTCCGCA
4556567 TTGCGATAGT
1 TTGCGATAGT
4556577 CATTTTCGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTAAATTCCGCA
Found at i:4556577 original size:20 final size:20
Alignment explanation
Indices: 4556543--4556581 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4556533 TAGTGAAATT
4556543 CGCATTGCGATAGTCATTTC
1 CGCATTGCGATAGTCATTTC
4556563 CGCATTGCGATAGTCATTT
1 CGCATTGCGATAGTCATTT
4556582 TCGCGTTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (20 bp):
CGCATTGCGATAGTCATTTC
Found at i:4558569 original size:20 final size:20
Alignment explanation
Indices: 4558546--4558630 Score: 91
Period size: 20 Copynumber: 4.3 Consensus size: 20
4558536 TCTGAAACTT
4558546 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
4558566 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
4558586 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** *
4558606 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
4558625 AAAATC
1 AAAATC
4558631 ATAATGACAT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
19 7 0.12
20 49 0.88
ACGTcount: A:0.46, C:0.22, G:0.16, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:4559025 original size:22 final size:22
Alignment explanation
Indices: 4558963--4559028 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
4558953 TGACCGTGAA
*
4558963 TGATTTCGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
* * *
4558985 TGATATCGTTGGAGATGGGGAT
1 TGATTTCGTCGGAGATGGGGAC
4559007 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
4559029 GGATGTTGCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.21, C:0.11, G:0.39, T:0.29
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:4559247 original size:20 final size:20
Alignment explanation
Indices: 4559224--4559376 Score: 234
Period size: 20 Copynumber: 7.7 Consensus size: 20
4559214 CGATAGTCAG
* *
4559224 ATTCGCGTTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
**
4559244 ATTCGCATTATGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
4559264 ATTCGTATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
4559284 ATTCGTATTGAGATTTACGT
1 ATTCGCATTGCGATTTACGT
4559304 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4559324 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
4559344 ATTCGCATTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
4559364 ATTCGCATTGCGA
1 ATTCGCATTGCGA
4559377 ATTAGGAAAG
Statistics
Matches: 122, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 122 1.00
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:4559418 original size:21 final size:21
Alignment explanation
Indices: 4559366--4559418 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4559356 ATTTACATAT
* *
4559366 TCGCATTGCGAATTAGGAAAG
1 TCGCAATGCGAATTAGGAAAA
* *
4559387 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGGAAAA
*
4559408 TCGTAATGCGA
1 TCGCAATGCGA
4559419 TAGTCAGAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:4561733 original size:18 final size:18
Alignment explanation
Indices: 4561710--4561744 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4561700 ACATTTTGCA
4561710 ACTAATAGTTAAAAATTT
1 ACTAATAGTTAAAAATTT
4561728 ACTAATAGTTAAAAATT
1 ACTAATAGTTAAAAATT
4561745 GTACAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (18 bp):
ACTAATAGTTAAAAATTT
Found at i:4561778 original size:2 final size:2
Alignment explanation
Indices: 4561771--4561800 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4561761 ATAAAACTCG
4561771 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
4561801 TAGATGTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4563356 original size:32 final size:32
Alignment explanation
Indices: 4563320--4563391 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
4563310 AATTGATATA
* * *
4563320 CATTATCTAAATACGACATTGATTATGCTATG
1 CATTATCTAAATACAACATTGACTATACTATG
* * * *
4563352 CATTATCTGAATGCAATATTGACTCTACTATG
1 CATTATCTAAATACAACATTGACTATACTATG
4563384 CATTATCT
1 CATTATCT
4563392 GAATGCCATA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (32 bp):
CATTATCTAAATACAACATTGACTATACTATG
Found at i:4565063 original size:23 final size:22
Alignment explanation
Indices: 4565035--4565098 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
4565025 AGCTCGTATA
4565035 AAATGCATCGAAGTGCCACGTAG
1 AAATGCA-CGAAGTGCCACGTAG
*
4565058 AAATGCACTGAAGTGCCTCGTAG
1 AAATGCAC-GAAGTGCCACGTAG
* *
4565081 GAATGCACCAAAGTGCCA
1 AAATGCA-CGAAGTGCCA
4565099 TATAAAATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 1 0.03
23 33 0.94
24 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.17
Consensus pattern (22 bp):
AAATGCACGAAGTGCCACGTAG
Found at i:4568321 original size:20 final size:20
Alignment explanation
Indices: 4568298--4568361 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
4568288 TAGTATTTAG
4568298 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
4568318 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
4568338 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
4568357 TTAAA
1 ATAAA
4568362 CTTTATTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Done.